Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 90 of 113
Found at i:18708289 original size:16 final size:16
Alignment explanation
Indices: 18708268--18708298 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18708258 CAATCTGAAT
18708268 AATGATAAAAGAAATA
1 AATGATAAAAGAAATA
18708284 AATGATAAAAGAAAT
1 AATGATAAAAGAAAT
18708299 GATATTATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AATGATAAAAGAAATA
Found at i:18708352 original size:40 final size:37
Alignment explanation
Indices: 18708279--18708364 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 37
18708269 ATGATAAAAG
** *
18708279 AAATAAATGATAAAAGAAATGATATTATGCATAAGCAT
1 AAAT-AATGATAAAAGAAATGATATTAAACATAACCAT
*
18708317 GAATAATGATAAAAGAAATAATGATATTAAACATAACCAT
1 AAATAATGATAAAAG--A-AATGATATTAAACATAACCAT
18708357 AAATAATG
1 AAATAATG
18708365 CAAATTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 11 0.28
38 3 0.08
39 1 0.03
40 25 0.62
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.26
Consensus pattern (37 bp):
AAATAATGATAAAAGAAATGATATTAAACATAACCAT
Found at i:18709097 original size:21 final size:21
Alignment explanation
Indices: 18709068--18709130 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
18709058 GTCCAATCAT
* *
18709068 CATTAACTTTATTGACGTA-GC
1 CATTGACTTTATTGAC-TATGA
*
18709089 CATTGACTTTGTTGA-TATGA
1 CATTGACTTTATTGACTATGA
*
18709109 TATTGACTTTATTGAC-ATGA
1 CATTGACTTTATTGACTATGA
18709129 CA
1 CA
18709131 ACCTAGATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.06
20 19 0.56
21 13 0.38
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (21 bp):
CATTGACTTTATTGACTATGA
Found at i:18713037 original size:20 final size:20
Alignment explanation
Indices: 18713008--18713049 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18712998 ATGATCTATC
18713008 TTTTACTTTTACTTTTTCCTT
1 TTTTACTTTTA-TTTTTCCTT
*
18713029 TTTTA-TTTTATTTTTTCTT
1 TTTTACTTTTATTTTTCCTT
18713048 TT
1 TT
18713050 CTTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 5 0.25
21 5 0.25
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTACTTTTATTTTTCCTT
Found at i:18714267 original size:17 final size:17
Alignment explanation
Indices: 18714228--18714273 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
18714218 ACTAATTTAA
* *
18714228 TTTTATATTTAT-ATAT
1 TTTTATATTAATAAAAT
18714244 TTATTATATTAATAAAAT
1 TT-TTATATTAATAAAAT
18714262 TTTTAT-TTAATA
1 TTTTATATTAATA
18714274 CCTTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 8 0.31
17 13 0.50
18 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATTAATAAAAT
Found at i:18715068 original size:21 final size:21
Alignment explanation
Indices: 18715044--18715084 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18715034 ATCAGTAAAG
18715044 TCAACAATCACATCAACAAAA
1 TCAACAATCACATCAACAAAA
** *
18715065 TCAATGATCACATCAGCAAA
1 TCAACAATCACATCAACAAA
18715085 TTTAACAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.27, G:0.05, T:0.17
Consensus pattern (21 bp):
TCAACAATCACATCAACAAAA
Found at i:18717737 original size:2 final size:2
Alignment explanation
Indices: 18717730--18717756 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18717720 AAACCTAAAA
18717730 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 A
18717757 CTATGAGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18720131 original size:18 final size:19
Alignment explanation
Indices: 18720090--18720143 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
18720080 CATTTAAACA
* *
18720090 ATTTATCTTTTTTCACACT
1 ATTTATCTTTTTTCAAAAT
*
18720109 ATTTATCTTTTTTTAAAAT
1 ATTTATCTTTTTTCAAAAT
*
18720128 -TTTAT-TTTTATCAAAA
1 ATTTATCTTTTTTCAAAA
18720144 ATTATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 9 0.30
18 5 0.17
19 16 0.53
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATCTTTTTTCAAAAT
Found at i:18720338 original size:3 final size:3
Alignment explanation
Indices: 18720332--18720389 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
18720322 TTATTACTAG
*
18720332 TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
18720377 TCA TAAA TAA TAA
1 TAA T-AA TAA TAA
18720390 CATAAAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.12
3 40 0.83
4 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:18720415 original size:21 final size:19
Alignment explanation
Indices: 18720385--18720441 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
18720375 TATCATAAAT
18720385 AATAACATAAAAATCAACACAA
1 AATAA-ATAAAAATCAA-A-AA
*
18720407 AATAAAT-AAAATCAAAAG
1 AATAAATAAAAATCAAAAA
*
18720425 AA-AAATAAAAATGAAAA
1 AATAAATAAAAATCAAAA
18720442 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.12
18 12 0.38
19 1 0.03
20 8 0.25
21 2 0.06
22 5 0.16
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.14
Consensus pattern (19 bp):
AATAAATAAAAATCAAAAA
Found at i:18720441 original size:18 final size:18
Alignment explanation
Indices: 18720391--18720452 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
18720381 AAATAATAAC
*
18720391 ATAAAAATCAACACAAAATAA
1 ATAAAAATCAA-A-AGAA-AA
18720412 AT-AAAATCAAAAGAAAA
1 ATAAAAATCAAAAGAAAA
*
18720429 ATAAAAATGAAAAGAAAA
1 ATAAAAATCAAAAGAAAA
*
18720447 AGAAAA
1 ATAAAA
18720453 TGGGAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.11
18 22 0.59
19 1 0.03
20 8 0.22
21 2 0.05
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
ATAAAAATCAAAAGAAAA
Found at i:18721630 original size:41 final size:40
Alignment explanation
Indices: 18721563--18721764 Score: 190
Period size: 40 Copynumber: 5.0 Consensus size: 40
18721553 TTTTGAAAAT
* * * * * * *
18721563 TTAAAAATGCTCTTTTGACCAAAGGCAACGAAACTTCAAA
1 TTAAAAAAGCTCTTCTAACCAGAGGTAATGAAACTTTAAA
* *
18721603 TTCAAAAAAGCTCATCTAACCAGAGGCAATGAAACTTTAAA
1 TT-AAAAAAGCTCTTCTAACCAGAGGTAATGAAACTTTAAA
* * * * *
18721644 TTTAAAAGGCTCCTCTAACTAGAGGTAATAAAACTTTAAA
1 TTAAAAAAGCTCTTCTAACCAGAGGTAATGAAACTTTAAA
* * * *
18721684 TTTAAAAGGCTCTTCTAACTAGAGGTAATAAAACTTTAAA
1 TTAAAAAAGCTCTTCTAACCAGAGGTAATGAAACTTTAAA
* * *
18721724 TT-TAAAAGACTCTTCTAACCAGAGGTTACGAAACTTTAAA
1 TTAAAAAAG-CTCTTCTAACCAGAGGTAATGAAACTTTAAA
18721764 T
1 T
18721765 GTTAAAATGC
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 4 0.03
40 103 0.74
41 33 0.24
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (40 bp):
TTAAAAAAGCTCTTCTAACCAGAGGTAATGAAACTTTAAA
Found at i:18721678 original size:40 final size:40
Alignment explanation
Indices: 18721593--18721777 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
18721583 AAAGGCAACG
* * * * * *
18721593 AAACTTCAAATTCAAAAAAGCTCATCTAACCAGAGGCAATG
1 AAACTTTAAATT-TAAAAGGCTCTTCTAACCAGAGGTAATA
* *
18721634 AAACTTTAAATTTAAAAGGCTCCTCTAACTAGAGGTAATA
1 AAACTTTAAATTTAAAAGGCTCTTCTAACCAGAGGTAATA
*
18721674 AAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGTAATA
1 AAACTTTAAATTTAAAAGGCTCTTCTAACCAGAGGTAATA
* * **
18721714 AAACTTTAAATTTAAAAGACTCTTCTAACCAGAGGTTACG
1 AAACTTTAAATTTAAAAGGCTCTTCTAACCAGAGGTAATA
*
18721754 AAACTTTAAATGTTAAAATGCTCT
1 AAACTTTAAAT-TTAAAAGGCTCT
18721778 AATGAAACTT
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 107 0.84
41 21 0.16
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (40 bp):
AAACTTTAAATTTAAAAGGCTCTTCTAACCAGAGGTAATA
Found at i:18721708 original size:80 final size:80
Alignment explanation
Indices: 18721593--18722107 Score: 347
Period size: 80 Copynumber: 6.6 Consensus size: 80
18721583 AAAGGCAACG
* * * * * *
18721593 AAACTTCAAATTCAAAAAAGCTCATCTAACCAGAGGCAATGAAACTTTAAAT-TTAAAAGGCTCC
1 AAACTTTAAATT-TAAAAGGCTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCC
*
18721657 TCTAACTAGAGGTAAT
65 TCTAACCAGAGGTAAT
* * *
18721673 AAAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGTAATAAAACTTTAAAT-TTAAAAGACTCT
1 -AAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCC
**
18721737 TCTAACCAGAGGTTACG
65 TCTAACCAGAGG-TAAT
* ** * * *
18721754 AAACTTTAAATGTTAAAATG--C-TCTAA-T-GAAAC-TTTAAA-TTT-AA----AA--GGCTCA
1 AAACTTTAAAT-TTAAAAGGCTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCC
* *
18721805 TTTAACCA-AAGTAAT
65 TCTAACCAGAGGTAAT
* * * * * * *
18721820 GAAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTCT
1 -AAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCC
*
18721885 TCTAACCAGAGGCAAT
65 TCTAACCAGAGGTAAT
* * *
18721901 GAACTTTAAATTCAAAAGGCTCCTT-TAA-TCAGAGGTAATAAAACTTTAAATGTTAAAAGGCTC
1 AAACTTTAAATTTAAAAGGCT-CTTCTAACT-AGAGGCAATAAAACTTTAAATGTTAAAAGGCTC
* *
18721964 CTATGACCAGAGGTAAT
64 CTCTAACCAGAGGTAAT
* * * * ** * *
18721981 GAAGTTTAAATTTAAAAGGTTTCTT-TAACCAGAGGCAACGAAACTTTAAATGTTAAAATG-TTC
1 AAACTTTAAATTTAAAAGG-CTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCC
* * * *
18722044 TTTGACTAGAGGCAAT
65 TCTAACCAGAGGTAAT
* * *
18722060 GAACTTTAAATATTATAAGGCT-TCTCTAACTAGAGGCAA-CAAACTTTA
1 AAACTTTAAAT-TTAAAAGGCTCT-TCTAACTAGAGGCAATAAAACTTTA
18722108 TATGGCTTAT
Statistics
Matches: 343, Mismatches: 66, Indels: 52
0.74 0.14 0.11
Matches are distributed among these distances:
66 9 0.03
67 13 0.04
68 12 0.03
69 5 0.01
70 2 0.01
71 1 0.00
72 3 0.01
73 5 0.01
74 5 0.01
75 4 0.01
76 2 0.01
77 1 0.00
78 8 0.02
79 36 0.10
80 209 0.61
81 28 0.08
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (80 bp):
AAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGCAATAAAACTTTAAATGTTAAAAGGCTCCT
CTAACCAGAGGTAAT
Found at i:18721831 original size:39 final size:40
Alignment explanation
Indices: 18721777--18722095 Score: 308
Period size: 39 Copynumber: 8.0 Consensus size: 40
18721767 TAAAATGCTC
* *
18721777 TAATGAAACTTTAAATTTAAAAGGCTCATTTAACCA-AAG
1 TAATGAAACTTTAAATTTAAAAGGCTCCTTTAACCAGAGG
* *
18721816 TAATGAAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGG
1 TAATGAAACTTTAAATTTAAAAGGCTCCTTTAACCAGAGG
** *
18721856 TAACAAAACTTTAAATGTTAAAAAGCT-CTTCTAACCAGAGG
1 TAATGAAACTTTAAAT-TTAAAAGGCTCCTT-TAACCAGAGG
* * *
18721897 CAATG-AACTTTAAATTCAAAAGGCTCCTTTAATCAGAGG
1 TAATGAAACTTTAAATTTAAAAGGCTCCTTTAACCAGAGG
* * *
18721936 TAATAAAACTTTAAATGTTAAAAGGCTCCTATGACCAGAGG
1 TAATGAAACTTTAAAT-TTAAAAGGCTCCTTTAACCAGAGG
* * *
18721977 TAATG-AAGTTTAAATTTAAAAGGTTTCTTTAACCAGAGG
1 TAATGAAACTTTAAATTTAAAAGGCTCCTTTAACCAGAGG
* * * * * *
18722016 CAACGAAACTTTAAATGTTAAAATG-TTCTTTGACTAGAGG
1 TAATGAAACTTTAAAT-TTAAAAGGCTCCTTTAACCAGAGG
* * * * *
18722056 CAATG-AACTTTAAATATTATAAGGCTTCTCTAACTAGAGG
1 TAATGAAACTTTAAAT-TTAAAAGGCTCCTTTAACCAGAGG
18722096 CAACAAACTT
Statistics
Matches: 233, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
39 93 0.40
40 89 0.38
41 51 0.22
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (40 bp):
TAATGAAACTTTAAATTTAAAAGGCTCCTTTAACCAGAGG
Found at i:18721837 original size:107 final size:108
Alignment explanation
Indices: 18721669--18721884 Score: 319
Period size: 107 Copynumber: 2.0 Consensus size: 108
18721659 TAACTAGAGG
* *
18721669 TAATAAAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGTAATAAAACTTTAAATTTAAAAGAC
1 TAATAAAACTTTAAATTTAAAAGGCTCTTCTAACCAGAAGTAATAAAACTTTAAATTTAAAAGAC
* * * * *
18721734 TCTTCTAACCAGAGGTTACGAAACTTTAAATGTTAAAATGCTC
66 TCCTCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTC
* * *
18721777 TAATGAAACTTTAAATTTAAAAGGCTCATT-TAACCA-AAGTAATGAAACTTTAAATTTAAAAGG
1 TAATAAAACTTTAAATTTAAAAGGCTC-TTCTAACCAGAAGTAATAAAACTTTAAATTTAAAAGA
18721840 CTCCTCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTC
65 CTCCTCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTC
18721884 T
1 T
18721885 TCTAACCAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 64 0.66
108 31 0.32
109 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (108 bp):
TAATAAAACTTTAAATTTAAAAGGCTCTTCTAACCAGAAGTAATAAAACTTTAAATTTAAAAGAC
TCCTCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTC
Found at i:18721906 original size:40 final size:38
Alignment explanation
Indices: 18721778--18722107 Score: 266
Period size: 40 Copynumber: 8.3 Consensus size: 38
18721768 AAAATGCTCT
* *
18721778 AATGAAACTTTAAATTTAAAAGGCTCATTTAACCA-AAGT
1 AATG-AACTTTAAATTTAAAAGGCTC-TTTAACCAGAGGC
* * *
18721817 AATGAAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGT
1 AATG-AACTTTAAATTTAAAAGGCT-CTTTAACCAGAGGC
** *
18721857 AACAAAACTTTAAATGTTAAAAAGCTCTTCTAACCAGAGGC
1 AA-TGAACTTTAAAT-TTAAAAGGCTCTT-TAACCAGAGGC
* * *
18721898 AATGAACTTTAAATTCAAAAGGCTCCTTTAATCAGAGGT
1 AATGAACTTTAAATTTAAAAGGCT-CTTTAACCAGAGGC
* * * *
18721937 AATAAAACTTTAAATGTTAAAAGGCTCCTATGACCAGAGGT
1 AAT-GAACTTTAAAT-TTAAAAGGCT-CTTTAACCAGAGGC
* *
18721978 AATGAAGTTTAAATTTAAAAGGTTTCTTTAACCAGAGGC
1 AATGAACTTTAAATTTAAAAGG-CTCTTTAACCAGAGGC
* * * * *
18722017 AACGAAACTTTAAATGTTAAAATGTTCTTTGACTAGAGGC
1 AATG-AACTTTAAAT-TTAAAAGGCTCTTTAACCAGAGGC
* * *
18722057 AATGAACTTTAAATATTATAAGGCTTCTCTAACTAGAGGC
1 AATGAACTTTAAAT-TTAAAAGGC-TCTTTAACCAGAGGC
**
18722097 AACAAACTTTA
1 AATGAACTTTA
18722108 TATGGCTTAT
Statistics
Matches: 240, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
39 90 0.38
40 99 0.41
41 51 0.21
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (38 bp):
AATGAACTTTAAATTTAAAAGGCTCTTTAACCAGAGGC
Found at i:18721947 original size:187 final size:189
Alignment explanation
Indices: 18721592--18721963 Score: 518
Period size: 187 Copynumber: 2.0 Consensus size: 189
18721582 CAAAGGCAAC
*
18721592 GAAACTTCAAATTCAAAAAAGCTCATCTAACCAGAGGCAATGAAACTTTAAATTTAAAAGGCTCC
1 GAAACTTCAAATTCAAAAAAGCTCATCTAACCAGAAGCAATGAAACTTTAAATTTAAAAGGCTCC
* * * * * *
18721657 TCTAACTAGAGGTAATAAAACTTTAAATTTAAAAGGCTCTTCTAACTAGAGGTAATAAAACTTTA
66 TCTAACCAAAGGTAACAAAACTTTAAATTTAAAAAGCTCTTCTAACCAGAGGCAATAAAACTTTA
* * * *
18721722 AATTTAAAAGACTCTTCTAACCAGAGGTTACGAAACTTTAAATGTTAAAATGCTCTAAT
131 AATTCAAAAGACTCTTCTAACCAGAGGTAACAAAACTTTAAATGTTAAAAGGCTCTAAT
* * * * *
18721781 GAAACTTTAAATT-TAAAAGGCTCATTTAACCA-AAGTAATGAAACTTTAAATTTAAAAGGCTCC
1 GAAACTTCAAATTCAAAAAAGCTCATCTAACCAGAAGCAATGAAACTTTAAATTTAAAAGGCTCC
*
18721844 TCTAACCAAAGGTAACAAAACTTTAAATGTTAAAAAGCTCTTCTAACCAGAGGCAAT-GAACTTT
66 TCTAACCAAAGGTAACAAAACTTTAAAT-TTAAAAAGCTCTTCTAACCAGAGGCAATAAAACTTT
* * *
18721908 AAATTCAAAAGGCTCCTT-TAATCAGAGGTAATAAAACTTTAAATGTTAAAAGGCTC
130 AAATTCAAAAGACT-CTTCTAACCAGAGGTAACAAAACTTTAAATGTTAAAAGGCTC
18721964 CTATGACCAG
Statistics
Matches: 161, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
187 105 0.65
188 44 0.27
189 12 0.07
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (189 bp):
GAAACTTCAAATTCAAAAAAGCTCATCTAACCAGAAGCAATGAAACTTTAAATTTAAAAGGCTCC
TCTAACCAAAGGTAACAAAACTTTAAATTTAAAAAGCTCTTCTAACCAGAGGCAATAAAACTTTA
AATTCAAAAGACTCTTCTAACCAGAGGTAACAAAACTTTAAATGTTAAAAGGCTCTAAT
Found at i:18722115 original size:33 final size:33
Alignment explanation
Indices: 18722072--18722140 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
18722062 ACTTTAAATA
* * * *
18722072 TTATAAGGCTTCTCTAACTAGAGGCAACAAACT
1 TTATAAGGCTTATCTAACCAAAAGCAACAAACT
* *
18722105 TTATATGGCTTATTTAACCAAAAGCAACAAACT
1 TTATAAGGCTTATCTAACCAAAAGCAACAAACT
18722138 TTA
1 TTA
18722141 AATTAAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
TTATAAGGCTTATCTAACCAAAAGCAACAAACT
Found at i:18722292 original size:41 final size:39
Alignment explanation
Indices: 18722227--18722322 Score: 95
Period size: 41 Copynumber: 2.4 Consensus size: 39
18722217 TCAAAGGCTC
* * * **
18722227 TTAAAATTAAAAAGCTTATATGACTAGAAG-CTTTAAAACT
1 TTAAATTTAAAAGGCTCATATGACTA-AAGACAAT-AAACT
* *
18722267 TTAAATGTTAAAAGGCTCATTTGACTAAAGACAATGAACT
1 TTAAAT-TTAAAAGGCTCATATGACTAAAGACAATAAACT
18722307 TTAAATTTAAAAGGCT
1 TTAAATTTAAAAGGCT
18722323 GAGAGGTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 10 0.21
40 18 0.38
41 19 0.40
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (39 bp):
TTAAATTTAAAAGGCTCATATGACTAAAGACAATAAACT
Found at i:18734703 original size:16 final size:16
Alignment explanation
Indices: 18734682--18734721 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18734672 ATGATTAAAA
*
18734682 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
18734698 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
18734714 ATTATCAT
1 ATCATCAT
18734722 TGGTTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:18736586 original size:19 final size:20
Alignment explanation
Indices: 18736556--18736593 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18736546 AACTTTTTCA
18736556 ATTTTCTTTAAAAAAATTAC
1 ATTTTCTTTAAAAAAATTAC
18736576 ATTTT-TTTAAAAAAATTA
1 ATTTTCTTTAAAAAAATTA
18736594 TTCAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTCTTTAAAAAAATTAC
Found at i:18736831 original size:14 final size:13
Alignment explanation
Indices: 18736812--18736850 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
18736802 ACATTTTATC
18736812 ATTTATTTTATTTT
1 ATTTATTTT-TTTT
*
18736826 ATTTATCTTTTTT
1 ATTTATTTTTTTT
18736839 AGTTTATTTTTT
1 A-TTTATTTTTT
18736851 AACAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (13 bp):
ATTTATTTTTTTT
Found at i:18737105 original size:27 final size:29
Alignment explanation
Indices: 18737053--18737120 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
18737043 GTAATTATAT
* *
18737053 AAAATACAATAATAACAATAATATC-ATA-
1 AAAATA-AAAAATAACAATAAAATCAATAC
18737081 AAAATAAAAAATAAC-ATAAAAATCAATAC
1 AAAATAAAAAATAACAAT-AAAATCAATAC
18737110 AAAATAAAAAA
1 AAAATAAAAAA
18737121 ATCAAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.06
27 13 0.37
28 9 0.26
29 11 0.31
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (29 bp):
AAAATAAAAAATAACAATAAAATCAATAC
Found at i:18737120 original size:19 final size:20
Alignment explanation
Indices: 18737098--18737141 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
18737088 AAAATAACAT
*
18737098 AAAAATCAATA-CAAAATAA
1 AAAAATCAAAATCAAAATAA
18737117 AAAAATCAAAATCAAAATAA
1 AAAAATCAAAATCAAAATAA
18737137 AAAAA
1 AAAAA
18737142 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAATCAAAATCAAAATAA
Found at i:18737131 original size:25 final size:25
Alignment explanation
Indices: 18737099--18737146 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18737089 AAATAACATA
* *
18737099 AAAATCAATACAAAATAAAAAAATC
1 AAAATCAAAACAAAAAAAAAAAATC
*
18737124 AAAATCAAAATAAAAAAAAAAAA
1 AAAATCAAAACAAAAAAAAAAAA
18737147 AAAAAAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.12
Consensus pattern (25 bp):
AAAATCAAAACAAAAAAAAAAAATC
Found at i:18737147 original size:20 final size:20
Alignment explanation
Indices: 18737109--18737147 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18737099 AAAATCAATA
**
18737109 CAAAATAAAAAAATCAAAAT
1 CAAAATAAAAAAAAAAAAAT
18737129 CAAAATAAAAAAAAAAAAA
1 CAAAATAAAAAAAAAAAAA
18737148 AAAAAAGAGA
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:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (20 bp):
CAAAATAAAAAAAAAAAAAT
Found at i:18737153 original size:20 final size:20
Alignment explanation
Indices: 18737110--18737153 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
18737100 AAATCAATAC
** **
18737110 AAAATAAAAAAATCAAAATC
1 AAAATAAAAAAAAAAAAAAA
18737130 AAAATAAAAAAAAAAAAAAA
1 AAAATAAAAAAAAAAAAAAA
18737150 AAAA
1 AAAA
18737154 GAGAAAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (20 bp):
AAAATAAAAAAAAAAAAAAA
Found at i:18740071 original size:118 final size:119
Alignment explanation
Indices: 18739910--18740140 Score: 338
Period size: 119 Copynumber: 1.9 Consensus size: 119
18739900 CACTTTCTTT
* * *
18739910 TTTCTAACAAAGTAGTTGGTTAGCAATTAGGATATCCAAAAGGTCTAA-GTTTCACAATAAGAAC
1 TTTCTAACAAAGTAATTGATCAGCAATTAGGATATCCAAAAGGTCTAATGTTTCACAATAAGAAC
* * * * *
18739974 TTTAGACAACCTAGTTTCACATATCCTTTTAGAATCATCATAATTCCATTAGTA
66 TTTAAACAACCTAATTTCACACATCCCTTTAGAATCATCACAATTCCATTAGTA
* * * * *
18740028 TTTCTAACAAAGTAATTGATCAGCTATTAGGATATCCAGAAGGTCTAATGTTTCACATTGAGGAC
1 TTTCTAACAAAGTAATTGATCAGCAATTAGGATATCCAAAAGGTCTAATGTTTCACAATAAGAAC
18740093 TTTAAACAACCTAATTTCACACATCCCTTTAGAATCATCACAATTCCA
66 TTTAAACAACCTAATTTCACACATCCCTTTAGAATCATCACAATTCCA
18740141 CTGATATTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
118 43 0.43
119 56 0.57
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (119 bp):
TTTCTAACAAAGTAATTGATCAGCAATTAGGATATCCAAAAGGTCTAATGTTTCACAATAAGAAC
TTTAAACAACCTAATTTCACACATCCCTTTAGAATCATCACAATTCCATTAGTA
Found at i:18740898 original size:21 final size:21
Alignment explanation
Indices: 18740874--18740917 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
18740864 AGATGGTGTC
*
18740874 GAAAA-CCAAGAAAAGAAAGAA
1 GAAAAGCCAAAAAAAGAAA-AA
*
18740895 GAAAAGCCAAAAAAATAAAAA
1 GAAAAGCCAAAAAAAGAAAAA
18740916 GA
1 GA
18740918 CAAGGAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.73, C:0.09, G:0.16, T:0.02
Consensus pattern (21 bp):
GAAAAGCCAAAAAAAGAAAAA
Found at i:18741317 original size:23 final size:22
Alignment explanation
Indices: 18741285--18741327 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18741275 TATTATGGGT
18741285 TTATTATGATATATTACTTCATA
1 TTATTATGAT-TATTACTTCATA
* *
18741308 TTATTGTGATTATTGCTTCA
1 TTATTATGATTATTACTTCA
18741328 GGTGTAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (22 bp):
TTATTATGATTATTACTTCATA
Found at i:18749673 original size:52 final size:52
Alignment explanation
Indices: 18749616--18749737 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 52
18749606 CGAGAAAGAA
* *
18749616 GATTCTTAATAGGTAAGTTTGACTTATAACAGAAAAATTCTAAAATGAAAGG
1 GATTCTTAATAGGTAAGTTTGACTTACAACAGAAAAATTCTAAAAGGAAAGG
* * * * *
18749668 GATTCTTAATAAGCAAGTTTGACTTACAAGAGAAGAATTCTAAGAGGAAAGG
1 GATTCTTAATAGGTAAGTTTGACTTACAACAGAAAAATTCTAAAAGGAAAGG
*
18749720 GATTCTTAATGGGTAAGT
1 GATTCTTAATAGGTAAGT
18749738 CTGTATGGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (52 bp):
GATTCTTAATAGGTAAGTTTGACTTACAACAGAAAAATTCTAAAAGGAAAGG
Found at i:18750322 original size:25 final size:24
Alignment explanation
Indices: 18750294--18750373 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
18750284 CGAAACATGA
*
18750294 GAAGAGTAGAAGATTCAAGATGTGG
1 GAAGAGTAGAAG-TTCAAGATATGG
* * *
18750319 GAAGAG-ACGATGGTTCGAGACATGG
1 GAAGAGTA-GA-AGTTCAAGATATGG
*
18750344 GAAGAGTTGATAGTTCAAGATATGG
1 GAAGAGTAGA-AGTTCAAGATATGG
18750369 GAAGA
1 GAAGA
18750374 ACTTGGTTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.20
Consensus pattern (24 bp):
GAAGAGTAGAAGTTCAAGATATGG
Found at i:18750361 original size:50 final size:48
Alignment explanation
Indices: 18750280--18750391 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 48
18750270 CAAAGTTGAA
* * *
18750280 GGTTCGAAACATGAGAAGAGTAGAAGATTCAAGATGTGGGAAGAGACGAT
1 GGTTCGAGACATGGGAAGAGTAGAAGATTCAAGATATGGGAAGA-AC-AT
* *
18750330 GGTTCGAGACATGGGAAGAGTTGATAG-TTCAAGATATGGGAAGAACTT
1 GGTTCGAGACATGGGAAGAGTAGA-AGATTCAAGATATGGGAAGAACAT
*
18750378 GGTTTGAGACATGG
1 GGTTCGAGACATGG
18750392 AAAAAAGTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
48 14 0.25
49 2 0.04
50 37 0.67
51 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (48 bp):
GGTTCGAGACATGGGAAGAGTAGAAGATTCAAGATATGGGAAGAACAT
Found at i:18751011 original size:84 final size:84
Alignment explanation
Indices: 18750870--18751038 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
18750860 GCTCTACGTC
18750870 TTATGGGTGTATATGTTTGTTTATGAGTGGACTAGAGGAGATTGAGAAGGTCCACATAGATATGA
1 TTATGGGTGTATATGTTTGTTTATGAGTGGACTAGAGGAGATTGAGAAGGTCCACATAGATATGA
18750935 TGTATGGGAAGCATATGGG
66 TGTATGGGAAGCATATGGG
* *
18750954 TTATGGGTGTATATGTTTGTTTGTGAGTGGACTAGAGGAGATTGAGAAGGTCCACATAGGTATGA
1 TTATGGGTGTATATGTTTGTTTATGAGTGGACTAGAGGAGATTGAGAAGGTCCACATAGATATGA
18751019 TGTATGGGAAGCATATGGG
66 TGTATGGGAAGCATATGGG
18751038 T
1 T
18751039 ATGTGTTTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.27, C:0.06, G:0.34, T:0.33
Consensus pattern (84 bp):
TTATGGGTGTATATGTTTGTTTATGAGTGGACTAGAGGAGATTGAGAAGGTCCACATAGATATGA
TGTATGGGAAGCATATGGG
Found at i:18755662 original size:12 final size:12
Alignment explanation
Indices: 18755645--18755721 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
18755635 AATCTATTTG
*
18755645 TTTATTTTTATT
1 TTTATTTTTATA
18755657 TTTATTTTT-TA
1 TTTATTTTTATA
* *
18755668 TTTATTTATAAA
1 TTTATTTTTATA
*
18755680 TATATTTTTAT-
1 TTTATTTTTATA
* *
18755691 TATTATTTATCTA
1 T-TTATTTTTATA
* *
18755704 TTAATCTTTTTTA
1 TTTAT-TTTTATA
18755717 TTTAT
1 TTTAT
18755722 CTATTAATAT
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
11 10 0.21
12 28 0.58
13 10 0.21
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:18755697 original size:28 final size:28
Alignment explanation
Indices: 18755653--18755779 Score: 84
Period size: 28 Copynumber: 4.5 Consensus size: 28
18755643 TGTTTATTTT
*
18755653 TATTTTTATTTTTTATTTATTTATAAATA
1 TATTTTTA-TTATTATTTATTTATAAATA
* * *
18755682 TATTTTTATTATTATTTATCTATTAATC
1 TATTTTTATTATTATTTATTTATAAATA
* *
18755710 T-TTTTTATTTATCTA-TTA-ATATATATA
1 TATTTTTA-TTAT-TATTTATTTATAAATA
* * *
18755737 CATTTTTATT-CT-TTTATTAATATATATA
1 TATTTTTATTATTATTTATT--TATAAATA
18755765 TATTTTTATCTATTA
1 TATTTTTAT-TATTA
18755780 ATGTATTTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
25 4 0.05
27 13 0.17
28 46 0.61
29 11 0.15
30 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTTTATTATTATTTATTTATAAATA
Found at i:18755746 original size:49 final size:46
Alignment explanation
Indices: 18755662--18755862 Score: 144
Period size: 49 Copynumber: 4.2 Consensus size: 46
18755652 TTATTTTTAT
* * *
18755662 TTTTTATTTATTTATAAATATATTTTTATTATTATTTATCTATTAATCT-
1 TTTTTATTTATCTATTAATATA---TTATTTTTATTTATCTATTAAT-TA
*
18755711 TTTTTATTTATCTATTAATATATATACATTTTTATTCT-TTTATTAATATA
1 TTTTTATTTATCTATTAATATAT-T--ATTTTTATT-TATCTATTAAT-TA
* * *
18755761 TATATATT-TTTATCTATTAATGTATTTTTTTATATTTATCTATTTTTATTA
1 T-T-T-TTATTTATCTATTAATATATTATTTT-TATTTATCTA--TTAATTA
*
18755812 TTTTTATTTATCTATTAATAT-TT-TTTATATTTATCTATT-ATTA
1 TTTTTATTTATCTATTAATATATTATTTTTATTTATCTATTAATTA
*
18755855 TTATTATT
1 TTTTTATT
18755863 GTTATCATGT
Statistics
Matches: 127, Mismatches: 12, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
43 11 0.09
44 2 0.02
46 11 0.09
47 4 0.03
48 4 0.03
49 57 0.45
50 10 0.08
51 5 0.04
52 21 0.17
53 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (46 bp):
TTTTTATTTATCTATTAATATATTATTTTTATTTATCTATTAATTA
Found at i:18755788 original size:18 final size:17
Alignment explanation
Indices: 18755765--18755860 Score: 60
Period size: 18 Copynumber: 5.8 Consensus size: 17
18755755 AATATATATA
*
18755765 TATTTTTATCTATTAATG
1 TATTTTTAT-TATTAATC
* *
18755783 TATTTTTTTATATTTATC
1 TATTTTTAT-TATTAATC
18755801 TATTTTTATTATT--T-
1 TATTTTTATTATTAATC
* *
18755815 T-TATTTATCTATTAATA
1 TATTTTTAT-TATTAATC
*
18755832 T-TTTTTA-TATTTATC
1 TATTTTTATTATTAATC
*
18755847 TATTATTATTATTA
1 TATTTTTATTATTA
18755861 TTGTTATCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
13 6 0.10
14 5 0.08
15 8 0.13
16 6 0.10
17 14 0.23
18 22 0.36
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (17 bp):
TATTTTTATTATTAATC
Found at i:18755823 original size:23 final size:24
Alignment explanation
Indices: 18755652--18755859 Score: 124
Period size: 23 Copynumber: 8.5 Consensus size: 24
18755642 TTGTTTATTT
* * *
18755652 TTATTTTTATTTTTTATTTATTTA
1 TTATTATTATTTTATATTTATCTA
* *
18755676 TAAATATATTTTTATTATTATTTATCTA
1 T-TAT-TATTATT-TTA-TATTTATCTA
18755704 TTA--ATCT-TTTT-TATTTATCTA
1 TTATTAT-TATTTTATATTTATCTA
* ** * *
18755725 TTAATA-TATATACATTTTTATTCTT
1 TTATTATTAT-TTTATATTTA-TCTA
* *
18755750 TTATTAATATATATATATTTTTATCTA
1 TTATT-AT-TAT-TTTATATTTATCTA
*
18755777 TTAATGTATTTTTTTATATTTATCTA
1 TT-AT-TATTATTTTATATTTATCTA
*
18755803 TTTTTATTATTTT-TATTTATCTA
1 TTATTATTATTTTATATTTATCTA
*
18755826 TTAATATT-TTTTATATTTATCTA
1 TTATTATTATTTTATATTTATCTA
18755849 TTATTATTATT
1 TTATTATTATT
18755860 ATTGTTATCA
Statistics
Matches: 145, Mismatches: 21, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
21 14 0.10
22 5 0.03
23 37 0.26
24 20 0.14
25 11 0.08
26 20 0.14
27 10 0.07
28 27 0.19
29 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTATTATTTTATATTTATCTA
Found at i:18755859 original size:17 final size:16
Alignment explanation
Indices: 18755645--18755867 Score: 60
Period size: 17 Copynumber: 13.1 Consensus size: 16
18755635 AATCTATTTG
* *
18755645 TTTATTTTTATTTTTA
1 TTTATTATTATTATTA
* *
18755661 TTTTTTATTTATTTATAAA
1 TTTATTA-TTA-TTAT-TA
* *
18755680 TATATTTTTATTATTA
1 TTTATTATTATTATTA
* * *
18755696 TTTATCTATTAATCTTT
1 TTTAT-TATTATTATTA
*
18755713 TTTATTTATCTATTAATA
1 TTTA-TTAT-TATTATTA
* * * *
18755731 TATATACATTTTTATTCT
1 TTTAT-TATTATTATT-A
*
18755749 TTTATTAATATATATATA
1 TTTATTATTAT-TAT-TA
18755767 TTT-TTATCTATTAATGTA
1 TTTATTAT-TATT-AT-TA
*
18755785 TTT-TTTTATATTTATCTA
1 TTTATTAT-TA-TTAT-TA
*
18755803 TTT-TTATTATTTTTA
1 TTTATTATTATTATTA
* *
18755818 TTTATCTATTAATATTT
1 TTTAT-TATTATTATTA
18755835 TTTA-TATTTATCTATTA
1 TTTATTA-TTAT-TATTA
*
18755852 -TTATTATTATTGTTA
1 TTTATTATTATTATTA
18755867 T
1 T
18755868 CATGTTTTTT
Statistics
Matches: 148, Mismatches: 40, Indels: 38
0.65 0.18 0.17
Matches are distributed among these distances:
15 11 0.07
16 24 0.16
17 54 0.36
18 51 0.34
19 8 0.05
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:18756152 original size:22 final size:21
Alignment explanation
Indices: 18756127--18756169 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18756117 AACAGCTTTA
18756127 AGAATTTGTGAGAATTTTTTTT
1 AGAATTTGTGA-AATTTTTTTT
* *
18756149 AGAATTTTTGAAGTTTTTTTT
1 AGAATTTGTGAAATTTTTTTT
18756170 TTGAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (21 bp):
AGAATTTGTGAAATTTTTTTT
Found at i:18756781 original size:22 final size:22
Alignment explanation
Indices: 18756744--18756786 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18756734 AATTATTTAG
18756744 TATTCTTTATTCTATTTATTTTT
1 TATTCTTTATTCTATTT-TTTTT
*
18756767 TATT-TTTATTTTATTTTTTT
1 TATTCTTTATTCTATTTTTTT
18756787 AAATGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
TATTCTTTATTCTATTTTTTTT
Found at i:18756880 original size:59 final size:59
Alignment explanation
Indices: 18756792--18757033 Score: 237
Period size: 59 Copynumber: 4.1 Consensus size: 59
18756782 TTTTTAAATG
** *
18756792 ATTTTCTTT--AAATAAAATTTCA-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAGTTTTCAGAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* * * * *
18756848 ATTTTCTTTGAAAATAAGTTTTCGGAAAAAATATTTTCGAGGAAAAGTTAAAAATATCA
1 ATTTTCTTTGAAAATAAGTTTTCAGAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* *
18756907 ATTTTCTTTGAAAATAA-TTTTCTAAAAAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAGTTTTC--AGAAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCA
* * * *
18756969 ATTTT-TCTCGAAATTAAAG-TTTCAGAAAAAAAATATTTTG-GAAAAAATTTGAAAGTATCA
1 ATTTTCT-TTGAAAAT-AAGTTTTCAGAAAAAATAT-TTTTGAG-AAAAAGTTGAAAGTATCA
18757029 ATTTT
1 ATTTT
18757034 TTTTATACAA
Statistics
Matches: 155, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
56 9 0.06
58 15 0.10
59 50 0.32
60 33 0.21
61 8 0.05
62 34 0.22
63 6 0.04
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (59 bp):
ATTTTCTTTGAAAATAAGTTTTCAGAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:18768503 original size:18 final size:18
Alignment explanation
Indices: 18768470--18768504 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18768460 GAAGTGGAAT
*
18768470 TTTAATTTGGGTTTTTGG
1 TTTAATTTGGGATTTTGG
*
18768488 TTTAATTTTGGATTTTG
1 TTTAATTTGGGATTTTG
18768505 AAGTGTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.23, T:0.63
Consensus pattern (18 bp):
TTTAATTTGGGATTTTGG
Found at i:18769009 original size:12 final size:11
Alignment explanation
Indices: 18768989--18769069 Score: 65
Period size: 13 Copynumber: 6.6 Consensus size: 11
18768979 AATCACAAAG
18768989 TTTTATTTTTAT
1 TTTTATTTTT-T
*
18769001 TTTTGTTTTTTGT
1 TTTT-ATTTTT-T
18769014 TTTTATTTTATT
1 TTTTATTTT-TT
18769026 TTTTGATTTATTT
1 TTTT-ATTT-TTT
18769039 TTTT-TTTTCTT
1 TTTTATTTT-TT
18769050 TTCTTATTTTTT
1 TT-TTATTTTTT
18769062 TATTTATT
1 T-TTTATT
18769070 GTGTGATTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 7 0.12
12 23 0.40
13 26 0.45
14 1 0.02
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:18769016 original size:13 final size:12
Alignment explanation
Indices: 18768989--18769062 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
18768979 AATCACAAAG
* *
18768989 TTTTATTTTTAT
1 TTTTGTTTTTTT
18769001 TTTTGTTTTTTGT
1 TTTTGTTTTTT-T
* *
18769014 TTTTATTTTATT
1 TTTTGTTTTTTT
18769026 TTTTGATTTATTTT
1 TTTTG-TTT-TTTT
*
18769040 TTTT-TTTCTTT
1 TTTTGTTTTTTT
* *
18769051 TCTTATTTTTTT
1 TTTTGTTTTTTT
18769063 ATTTATTGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 6 0.12
12 23 0.47
13 13 0.27
14 7 0.14
ACGTcount: A:0.09, C:0.03, G:0.04, T:0.84
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:18769027 original size:17 final size:17
Alignment explanation
Indices: 18768994--18769069 Score: 72
Period size: 16 Copynumber: 4.7 Consensus size: 17
18768984 CAAAGTTTTA
18768994 TTTTTATTT-TTGTT-TT
1 TTTTTATTTATT-TTATT
*
18769010 TTGTT-TTTATTTTATT
1 TTTTTATTTATTTTATT
*
18769026 TTTTGATTTATTTT-TT
1 TTTTTATTTATTTTATT
* *
18769042 TTTTTCTTT-TCTTATT
1 TTTTTATTTATTTTATT
18769058 TTTTTATTTATT
1 TTTTTATTTATT
18769070 GTGTGATTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
15 8 0.17
16 30 0.64
17 9 0.19
ACGTcount: A:0.11, C:0.03, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTTATTTATTTTATT
Found at i:18769040 original size:24 final size:23
Alignment explanation
Indices: 18768989--18769069 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 23
18768979 AATCACAAAG
*
18768989 TTTTATTTTTATTTTTGTTTTTTGT
1 TTTTATTTTT-TTTTTGATTTTT-T
18769014 TTTTATTTTATTTTTTGATTTATTT
1 TTTTATTTT-TTTTTTGATTT-TTT
18769039 TTTT-TTTTCTTTTCTT-ATTTTTT
1 TTTTATTTT-TTTT-TTGATTTTTT
18769062 TATTTATT
1 T-TTTATT
18769070 GTGTGATTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 27 0.55
26 3 0.06
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (23 bp):
TTTTATTTTTTTTTTGATTTTTT
Found at i:18770236 original size:24 final size:24
Alignment explanation
Indices: 18770204--18770252 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18770194 TAATAATAAA
18770204 AAATAGCATCAAAGAAAAAAATTG
1 AAATAGCATCAAAGAAAAAAATTG
*
18770228 AAATAGCATCAAAGGAAAAAATTG
1 AAATAGCATCAAAGAAAAAAATTG
18770252 A
1 A
18770253 TAGGTTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (24 bp):
AAATAGCATCAAAGAAAAAAATTG
Found at i:18772381 original size:19 final size:19
Alignment explanation
Indices: 18772357--18772393 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18772347 ATTTTTTAAA
*
18772357 ATAAAACCAAAAAAATAAT
1 ATAAAAACAAAAAAATAAT
*
18772376 ATAAAAATAAAAAAATAA
1 ATAAAAACAAAAAAATAA
18772394 AATGAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (19 bp):
ATAAAAACAAAAAAATAAT
Found at i:18772382 original size:14 final size:14
Alignment explanation
Indices: 18772354--18772450 Score: 65
Period size: 14 Copynumber: 6.7 Consensus size: 14
18772344 TAAATTTTTT
**
18772354 AAAATAAAACCAAA
1 AAAATAAAAATAAA
*
18772368 AAAAT-AATATAAA
1 AAAATAAAAATAAA
18772381 AATAA-AAAAATAAA
1 AA-AATAAAAATAAA
**
18772395 ATGAGTTAAAAATAAA
1 A--AAATAAAAATAAA
*
18772411 ATAAA-ATCAAATAAA
1 A-AAATA-AAAATAAA
18772426 AAAATAAAAATAAA
1 AAAATAAAAATAAA
18772440 AAAATGAAAAA
1 AAAAT-AAAAA
18772451 AAGGAAATCT
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
13 7 0.11
14 31 0.48
15 15 0.23
16 11 0.17
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:18772387 original size:5 final size:5
Alignment explanation
Indices: 18772353--18772440 Score: 51
Period size: 5 Copynumber: 18.0 Consensus size: 5
18772343 ATAAATTTTT
** * * **
18772353 TAAAA TAAAA CCAAA -AAAA TAATA TAAAA -ATAAA -AAAA TAAAA TGAGT
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA
*
18772401 TAAAAA TAAAA TAAAA TCAAA T-AAA -AAAA TAAAAA TAAAA
1 T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
18772441 AAATGAAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
4 13 0.20
5 44 0.69
6 7 0.11
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:18772395 original size:24 final size:25
Alignment explanation
Indices: 18772354--18772440 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 25
18772344 TAAATTTTTT
18772354 AAAATAAAACCAAA-AAAAT-AATATA
1 AAAATAAAA--AAATAAAATCAATATA
* *
18772379 AAAATAAAAAAATAAAATGAGT-TA
1 AAAATAAAAAAATAAAATCAATATA
18772403 AAAAT---AAAATAAAATCAA-ATA
1 AAAATAAAAAAATAAAATCAATATA
18772424 AAAA-AATAAAAATAAAA
1 AAAATAA-AAAAATAAAA
18772441 AAATGAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
21 17 0.33
23 3 0.06
24 21 0.40
25 11 0.21
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAATAAAATCAATATA
Found at i:18772425 original size:21 final size:21
Alignment explanation
Indices: 18772387--18772427 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18772377 TAAAAATAAA
* **
18772387 AAAATAAAATGAGTTAAAAAT
1 AAAATAAAATCAAATAAAAAT
18772408 AAAATAAAATCAAATAAAAA
1 AAAATAAAATCAAATAAAAA
18772428 AATAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAATAAAATCAAATAAAAAT
Found at i:18772450 original size:24 final size:23
Alignment explanation
Indices: 18772354--18772452 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 23
18772344 TAAATTTTTT
**
18772354 AAAATAAAACCAAAAAAATAATATA
1 AAAATAAAAATAAAAAAATAA-A-A
* **
18772379 AAAATAAAAA-AATAAAATGAGTTA
1 AAAATAAAAATAAAAAAAT-A-AAA
18772403 AAAAT-AAAATAAAATCAAAT-AAA
1 AAAATAAAAATAAAA--AAATAAAA
*
18772426 AAAATAAAAATAAAAAAATGAAA
1 AAAATAAAAATAAAAAAATAAAA
18772449 AAAA
1 AAAA
18772453 GGAAATCTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
22 4 0.07
23 17 0.28
24 25 0.42
25 10 0.17
26 4 0.07
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (23 bp):
AAAATAAAAATAAAAAAATAAAA
Found at i:18773266 original size:3 final size:3
Alignment explanation
Indices: 18773258--18773380 Score: 128
Period size: 3 Copynumber: 41.3 Consensus size: 3
18773248 AATAAAAAAG
18773258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18773306 AAT AAT AAT AAT GA- AAT -GT AAT -AT AAT ACCAT ATAT TAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT A-AT AAT AAT AAT
* * *
18773351 AAC AAT AAT AGT AAA AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18773381 TTATAATATA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
2 6 0.06
3 88 0.89
4 2 0.02
5 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18773811 original size:121 final size:118
Alignment explanation
Indices: 18773615--18773851 Score: 294
Period size: 121 Copynumber: 2.0 Consensus size: 118
18773605 AGTCGAAGAT
* * * *
18773615 AAAAATAAATGACTGGATGAAACCATGAGTCATAAAAAATGATCTGGACTAAGCCAAGATCAGGT
1 AAAAATAAATAACTGGATGAAACCACGAGTCATAAAAAATGATATGGACTAAGCCAAGATCAAGT
* * * * * * *
18773680 GATTAGGACAAAACCACGAGTCAGAAATGAAGCAATCAAGACTGAGTCAAGGTAA
66 CACTAGGAC-AAACCACGAGT-AAAAAAGAAACAATCAAAACCGAGTCAAGGTAA
* * * *
18773735 AAAAATAAATAACTGGGATGAAACCACGAGTCATAGAAAATGATATGGATTGAGCCAAGATTAAG
1 AAAAATAAATAACT-GGATGAAACCACGAGTCATAAAAAATGATATGGACTAAGCCAAGATCAAG
* *
18773800 TCACTATGACAAACCATGAGTAAAAAAGAAACAATCAAAACCGAGTCAAGGT
65 TCACTAGGACAAACCACGAGTAAAAAAGAAACAATCAAAACCGAGTCAAGGT
18773852 CGAAAATAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 26 0.26
120 23 0.23
121 50 0.51
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (118 bp):
AAAAATAAATAACTGGATGAAACCACGAGTCATAAAAAATGATATGGACTAAGCCAAGATCAAGT
CACTAGGACAAACCACGAGTAAAAAAGAAACAATCAAAACCGAGTCAAGGTAA
Found at i:18774259 original size:69 final size:69
Alignment explanation
Indices: 18774152--18774339 Score: 220
Period size: 69 Copynumber: 2.8 Consensus size: 69
18774142 TAAGGATTTA
* * * *
18774152 AAATTT-GTAAAGGTTTTTAGATTCGC-AAGATGCAAGATTCACAAGGATTTTTAGATTCGTAAG
1 AAATTTCGTAAAGG-TTTTAGATTCGCAAAGATACAAGATTCACAAAGATTTTTAGATTCATAAA
*
18774215 ACTTT
65 ACTCT
* * * *
18774220 AAGTTTCGTAAAGGTTCTAGATTCGCAAAGATACAAGATTCGCAAAGATTTTTAGGTTCATAAAA
1 AAATTTCGTAAAGGTTTTAGATTCGCAAAGATACAAGATTCACAAAGATTTTTAGATTCATAAAA
18774285 CTCT
66 CTCT
** * * *
18774289 AAATTTCACAAA-GTTTTAGATTCGTAAAGATATAAGATTCACAAAAATTTT
1 AAATTTCGTAAAGGTTTTAGATTCGCAAAGATACAAGATTCACAAAGATTTT
18774340 CAAGTTCGTA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
68 50 0.50
69 51 0.50
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (69 bp):
AAATTTCGTAAAGGTTTTAGATTCGCAAAGATACAAGATTCACAAAGATTTTTAGATTCATAAAA
CTCT
Found at i:18774326 original size:68 final size:68
Alignment explanation
Indices: 18774160--18774355 Score: 214
Period size: 68 Copynumber: 2.9 Consensus size: 68
18774150 TAAAATTTGT
* * * * * * *
18774160 AAAGGTTTTTAGATTCGCAAGATGCAAGATTCACAAGGATTTTTAGATTCGTAAGACTTTAAGTT
1 AAAGG-TTTTAGATTCGAAAGATACAAGATTCACAAAGATTTTTAGGTTCGTAAAACTCTAAATT
**
18774225 TCGT
65 TCAC
* * *
18774229 AAAGGTTCTAGATTCGCAAAGATACAAGATTCGCAAAGATTTTTAGGTTCATAAAACTCTAAATT
1 AAAGGTTTTAGATTCG-AAAGATACAAGATTCACAAAGATTTTTAGGTTCGTAAAACTCTAAATT
18774294 TCAC
65 TCAC
* * * *
18774298 AAA-GTTTTAGATTCGTAAAGATATAAGATTCACAAAAATTTTCAAGTTCGTAAAACTC
1 AAAGGTTTTAGATTCG-AAAGATACAAGATTCACAAAGATTTTTAGGTTCGTAAAACTC
18774356 AATAACAAAA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
68 57 0.54
69 49 0.46
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (68 bp):
AAAGGTTTTAGATTCGAAAGATACAAGATTCACAAAGATTTTTAGGTTCGTAAAACTCTAAATTT
CAC
Found at i:18775317 original size:16 final size:17
Alignment explanation
Indices: 18775298--18775343 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
18775288 TTGCCTATTT
18775298 TTTTTCTTTTTTTTTG-
1 TTTTTCTTTTTTTTTGC
*
18775314 -TTTT-TGTTTTTTTGC
1 TTTTTCTTTTTTTTTGC
18775329 TTTTTACTTTTTTTT
1 TTTTT-CTTTTTTTT
18775344 GTATACATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 4 0.17
18 7 0.29
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTGC
Found at i:18775342 original size:25 final size:25
Alignment explanation
Indices: 18775295--18775345 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
18775285 CCTTTGCCTA
* *
18775295 TTTTTTTTCTTTTTTTTTGTTTTTG
1 TTTTTTTGCTTTTTCTTTGTTTTTG
18775320 TTTTTTTGCTTTTTACTTT-TTTTTG
1 TTTTTTTGCTTTTT-CTTTGTTTTTG
18775345 T
1 T
18775346 ATACATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.84
Consensus pattern (25 bp):
TTTTTTTGCTTTTTCTTTGTTTTTG
Found at i:18779368 original size:31 final size:30
Alignment explanation
Indices: 18779301--18779378 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
18779291 GCTAATTTTT
* *
18779301 GAAAAATCCCATCAAAAATTTATATTCCACC
1 GAAAAA-CTCATCAAAAATTTATATCCCACC
* *
18779332 AAAAAACTCATCAGAAAATTTATATCCCATC
1 GAAAAACTCATCA-AAAATTTATATCCCACC
*
18779363 GAAAAATTCAT-AAAAA
1 GAAAAACTCATCAAAAA
18779379 CATTCAAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.10
30 7 0.17
31 29 0.73
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (30 bp):
GAAAAACTCATCAAAAATTTATATCCCACC
Found at i:18781450 original size:163 final size:163
Alignment explanation
Indices: 18781178--18781505 Score: 577
Period size: 163 Copynumber: 2.0 Consensus size: 163
18781168 AAAATAGAAG
18781178 ATCTAGATCATCTTACAGAATTACTATATCAGTACCAAGAAGGATGGCAAATGTGGAACAAATCA
1 ATCTAGATCATCTTACAGAATTACTATATCAGTACCAAGAAGGATGGCAAATGTGGAACAAATCA
18781243 TATTATGGATCTCCTCCATCACCCCAATCTTTTAATGCACTGGACAAAGAA-TTTTTTAATAATT
66 TATTATGGATCTCCTCCATCACCCCAATCTTTTAATGCACTGGACAAA-AATTTTTTTAATAATT
* *
18781307 TAAACAATGTTATGGAAGAATAATATTTGTACAT
130 TAAACAATGTTATGGAAAAATAATATCTGTACAT
*
18781341 ATCTAGATCATCTTATAGAATTACTATATCAGTACCAAGAAGGATGGCAAATGTGGAACAAATCA
1 ATCTAGATCATCTTACAGAATTACTATATCAGTACCAAGAAGGATGGCAAATGTGGAACAAATCA
* * *
18781406 TATTATGGATCTCCTCCATCACTCCAGTCTTTTAATGTACTGGACAAAAATTTTTTTAATAATTT
66 TATTATGGATCTCCTCCATCACCCCAATCTTTTAATGCACTGGACAAAAATTTTTTTAATAATTT
*
18781471 AAACAATGTTATGGAAAAATAATATCTGTGCAT
131 AAACAATGTTATGGAAAAATAATATCTGTACAT
18781504 AT
1 AT
18781506 TTCAAACAAG
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
162 2 0.01
163 155 0.99
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (163 bp):
ATCTAGATCATCTTACAGAATTACTATATCAGTACCAAGAAGGATGGCAAATGTGGAACAAATCA
TATTATGGATCTCCTCCATCACCCCAATCTTTTAATGCACTGGACAAAAATTTTTTTAATAATTT
AAACAATGTTATGGAAAAATAATATCTGTACAT
Found at i:18792038 original size:3 final size:3
Alignment explanation
Indices: 18792032--18792155 Score: 112
Period size: 3 Copynumber: 41.3 Consensus size: 3
18792022 AGAAAAAAAA
*
18792032 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18792078 GAT AAT AAT AAT AAT AA- AAT -GT AAT -AT AAT ACCAT ATAT TAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT A-AT AAT AAT
* * *
18792123 AAT AAC AAT AAT AGT AAA AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18792156 CTATAATATA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
2 7 0.07
3 82 0.85
4 5 0.05
5 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18793105 original size:19 final size:18
Alignment explanation
Indices: 18793065--18793109 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
18793055 TATTTTTGTC
*
18793065 ATATTA-TATAGTCTAAT
1 ATATTATTATAGTATAAT
18793082 ATATTATTATAGTATAACT
1 ATATTATTATAGTATAA-T
18793101 ATATTATTA
1 ATATTATTA
18793110 AATTATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 10 0.40
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (18 bp):
ATATTATTATAGTATAAT
Found at i:18793467 original size:16 final size:16
Alignment explanation
Indices: 18793446--18793479 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18793436 GTGTTTAAAA
*
18793446 TTCTAGAATTTTGGGT
1 TTCTAGAATTTTGAGT
*
18793462 TTCTAGGATTTTGAGT
1 TTCTAGAATTTTGAGT
18793478 TT
1 TT
18793480 AGGTTTCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (16 bp):
TTCTAGAATTTTGAGT
Found at i:18797709 original size:55 final size:55
Alignment explanation
Indices: 18797596--18797722 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 55
18797586 TAGATTTATG
* * *
18797596 ATTTCATCCCAATCATTCGAACTCGACTCAGTACAGATCATTTTTTTAACTTGCA
1 ATTTCATCCCGATCATTCGAACTCGACTCAGTACAGATCATTTTCTTAACTCGCA
* * *
18797651 ATTTCATCCCGATCATTC-AATCTTGGCTCAGT-CTAGATCATTTTCTTAACTCGTA
1 ATTTCATCCCGATCATTCGAA-CTCGACTCAGTAC-AGATCATTTTCTTAACTCGCA
* *
18797706 ATTTTATCTCGATCATT
1 ATTTCATCCCGATCATT
18797723 TATATTCGAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.05
55 59 0.95
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.40
Consensus pattern (55 bp):
ATTTCATCCCGATCATTCGAACTCGACTCAGTACAGATCATTTTCTTAACTCGCA
Found at i:18798197 original size:3 final size:3
Alignment explanation
Indices: 18798189--18798327 Score: 116
Period size: 3 Copynumber: 48.3 Consensus size: 3
18798179 TAGTTTGGTA
* * *
18798189 TAT TAT TAT ATAT TAT TA- TAG TAT AAC TA- TAT TAT TCAAT TAT TA-
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT
* * * * *
18798234 AAT TAT TA- TGT TA- TAT T-T TAT T-G TAG TAT -AT TA- TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18798276 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18798324 TAT T
1 TAT T
18798328 TTCTTTCTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
2 15 0.13
3 91 0.81
4 3 0.03
5 3 0.03
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:18798833 original size:13 final size:13
Alignment explanation
Indices: 18798815--18798841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18798805 GGAATAACTC
18798815 TTGAATTTTTCAG
1 TTGAATTTTTCAG
18798828 TTGAATTTTTCAG
1 TTGAATTTTTCAG
18798841 T
1 T
18798842 AGGTTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTGAATTTTTCAG
Found at i:18799189 original size:7 final size:6
Alignment explanation
Indices: 18799179--18799250 Score: 60
Period size: 7 Copynumber: 11.5 Consensus size: 6
18799169 AAGTTTTCTT
*
18799179 TTTTTCA TTTTTA -TTTTA TTTTTTA TTTTATTA TTTTAA GTTTTTA -TTTTA
1 TTTTT-A TTTTTA TTTTTA -TTTTTA -TTT-TTA TTTTTA -TTTTTA TTTTTA
18799230 -TTTTA TTTTTTA TTTTTA TTT
1 TTTTTA -TTTTTA TTTTTA TTT
18799251 ATTTGCATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
5 15 0.26
6 12 0.21
7 27 0.47
8 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:18799222 original size:21 final size:20
Alignment explanation
Indices: 18799189--18799231 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
18799179 TTTTTCATTT
*
18799189 TTATTTTATTTTTTATTTTA
1 TTATTTTAGTTTTTATTTTA
18799209 TTATTTTAAGTTTTTATTTTA
1 TTATTTT-AGTTTTTATTTTA
18799230 TT
1 TT
18799232 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTATTTTAGTTTTTATTTTA
Found at i:18800405 original size:23 final size:24
Alignment explanation
Indices: 18800372--18800432 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
18800362 TACTAAATGC
18800372 AAAT-AAATAAATAAAAAC-CAAA
1 AAATAAAATAAATAAAAACTCAAA
*
18800394 AAATAAAATAAAATAAAAACTTAAA
1 AAATAAAAT-AAATAAAAACTCAAA
18800419 ATAATGAAAATAAA
1 A-AAT-AAAATAAA
18800433 ATCAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.12
23 4 0.12
24 10 0.30
25 4 0.12
26 6 0.18
27 5 0.15
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (24 bp):
AAATAAAATAAATAAAAACTCAAA
Found at i:18800446 original size:27 final size:25
Alignment explanation
Indices: 18800372--18800448 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 25
18800362 TACTAAATGC
*
18800372 AAAT-AAAT-AAATAAAAAC-CAAA
1 AAATAAAATAAAATAAAAACTAAAA
18800394 AAATAAAATAAAATAAAAACTTAAAA
1 AAATAAAATAAAATAAAAAC-TAAAA
*
18800420 TAATGAAAATAAAATCAAAAA-TAAAA
1 AAAT-AAAATAAAAT-AAAAACTAAAA
18800446 AAA
1 AAA
18800449 AACTTGTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.09
23 4 0.09
24 10 0.22
26 13 0.28
27 10 0.22
28 5 0.11
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.17
Consensus pattern (25 bp):
AAATAAAATAAAATAAAAACTAAAA
Found at i:18800748 original size:51 final size:52
Alignment explanation
Indices: 18800658--18800756 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 52
18800648 ACCATCGAAA
* * *
18800658 ATTCAATTAGAAATTGGGAAAACCTATTGATTTCAGGAAAAGTCACCAAAAT
1 ATTCAACTAAAAATTGGGAAAACCTATCGATTTCAGGAAAAGTCACCAAAAT
* **
18800710 ATTCAACTAAAAATT-GGAAAACCTATCGGTTTTTGGAAAAGTCACCA
1 ATTCAACTAAAAATTGGGAAAACCTATCGATTTCAGGAAAAGTCACCA
18800757 GAATCCCATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
51 28 0.68
52 13 0.32
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (52 bp):
ATTCAACTAAAAATTGGGAAAACCTATCGATTTCAGGAAAAGTCACCAAAAT
Found at i:18800803 original size:13 final size:13
Alignment explanation
Indices: 18800785--18800809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18800775 TAAACCTTGC
18800785 CAAAAAATTCAAT
1 CAAAAAATTCAAT
18800798 CAAAAAATTCAA
1 CAAAAAATTCAA
18800810 ATGTTCTTCC
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
CAAAAAATTCAAT
Found at i:18801285 original size:3 final size:3
Alignment explanation
Indices: 18801279--18801320 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18801269 AAAAAAAAGG
18801279 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18801321 TGATAACAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18801437 original size:28 final size:29
Alignment explanation
Indices: 18801388--18801446 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
18801378 ATATAGTTAT
* * *
18801388 ACTATAGTAATATATAATAAT-ATACCAA
1 ACTATAGTAATATACAAAAATAATAACAA
18801416 ACTATA-TAATATGACAAAAATAATAACAA
1 ACTATAGTAATAT-ACAAAAATAATAACAA
18801445 AC
1 AC
18801447 GATCCCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 12 0.46
29 8 0.31
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (29 bp):
ACTATAGTAATATACAAAAATAATAACAA
Found at i:18802030 original size:41 final size:41
Alignment explanation
Indices: 18801963--18802044 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
18801953 AAATGATATG
*
18801963 CTTAAAGTAAAAAGACATCGTCAAAATCGTCAAAATTGATT
1 CTTAAAGTAAAAAGACAACGTCAAAATCGTCAAAATTGATT
* * *
18802004 CTTATAGTAAAAAGACAAGGTTAAAATCGTCAAAATTGATT
1 CTTAAAGTAAAAAGACAACGTCAAAATCGTCAAAATTGATT
18802045 TTTCGATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (41 bp):
CTTAAAGTAAAAAGACAACGTCAAAATCGTCAAAATTGATT
Found at i:18802647 original size:5 final size:5
Alignment explanation
Indices: 18802639--18802664 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18802629 GAAATGAATG
18802639 ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT A
18802665 ATTTCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:18804304 original size:34 final size:34
Alignment explanation
Indices: 18804266--18804365 Score: 114
Period size: 34 Copynumber: 2.9 Consensus size: 34
18804256 TTTAAAATAG
* *
18804266 ATTTCTAAGAATACAATGTAATTCTTGGAAATCT
1 ATTTCTAAGAATATAATGTAATTCTTGAAAATCT
* *
18804300 ATTTCTGAA-AATATAATATAATTCTTGAAAATTT
1 ATTTCT-AAGAATATAATGTAATTCTTGAAAATCT
* *
18804334 GTCTTC-AAGAATATAGTGTAATTCTTGAAAAT
1 AT-TTCTAAGAATATAATGTAATTCTTGAAAAT
18804366 TCATTTTCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 2 0.04
34 49 0.88
35 5 0.09
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (34 bp):
ATTTCTAAGAATATAATGTAATTCTTGAAAATCT
Found at i:18804379 original size:34 final size:33
Alignment explanation
Indices: 18804273--18804379 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 33
18804263 TAGATTTCTA
* *
18804273 AGAATACAATGTAATTCTTGGAAA-TCTATTTCTG
1 AGAATATAATGTAATTCTTGAAAATTCT-TTTC-G
* * *
18804307 AAAATATAATATAATTCTTGAAAATT-TGTCTTCA
1 AGAATATAATGTAATTCTTGAAAATTCT-T-TTCG
*
18804341 AGAATATAGTGTAATTCTTGAAAATTCATTTTCG
1 AGAATATAATGTAATTCTTGAAAATTC-TTTTCG
18804375 AGAAT
1 AGAAT
18804380 TACTTTAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
34 53 0.90
35 5 0.08
36 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (33 bp):
AGAATATAATGTAATTCTTGAAAATTCTTTTCG
Found at i:18810380 original size:20 final size:22
Alignment explanation
Indices: 18810350--18810391 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
18810340 TCTTTTGATT
*
18810350 TTTTGTTATTTATA-TTTTTCA
1 TTTTGTTATTTAAAGTTTTTCA
18810371 TTTT-TTATTTAAAGTTTTTCA
1 TTTTGTTATTTAAAGTTTTTCA
18810392 CATAACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTGTTATTTAAAGTTTTTCA
Found at i:18810422 original size:12 final size:12
Alignment explanation
Indices: 18810405--18810456 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
18810395 AACATTATTA
18810405 AAATTATATAAT
1 AAATTATATAAT
*
18810417 AAATTAT-TGAT
1 AAATTATATAAT
18810428 ATAATTATATAAT
1 A-AATTATATAAT
*
18810441 AAAATA-ATTAAT
1 AAATTATA-TAAT
18810453 AAAT
1 AAAT
18810457 AAATAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 5 0.15
12 24 0.73
13 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AAATTATATAAT
Found at i:18810673 original size:22 final size:21
Alignment explanation
Indices: 18810641--18810683 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18810631 GTATTACTAC
*
18810641 TTTTAAAATTTAATTTTTTAT
1 TTTTAAAATTTAATATTTTAT
*
18810662 TTTTAAAAATTTTATATTTTAT
1 TTTT-AAAATTTAATATTTTAT
18810684 ATGTTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAAAATTTAATATTTTAT
Found at i:18810690 original size:24 final size:22
Alignment explanation
Indices: 18810645--18810691 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
18810635 TACTACTTTT
* *
18810645 AAAATTTAATTTTTTATTTTTA
1 AAAATTTAATTTTATATGTTTA
18810667 AAAATTTTATATTTTATATGTTTA
1 AAAA-TTTA-ATTTTATATGTTTA
18810691 A
1 A
18810692 TATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAAATTTAATTTTATATGTTTA
Found at i:18811409 original size:21 final size:21
Alignment explanation
Indices: 18811349--18811393 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
18811339 TTAATATTTT
18811349 TAGATGTAAAAATAATAATGA
1 TAGATGTAAAAATAATAATGA
18811370 TAGATGTAAAAATAATAATGA
1 TAGATGTAAAAATAATAATGA
18811391 TAG
1 TAG
18811394 TGAAGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.29
Consensus pattern (21 bp):
TAGATGTAAAAATAATAATGA
Found at i:18811600 original size:25 final size:25
Alignment explanation
Indices: 18811553--18811602 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18811543 TTAATATATT
**
18811553 TAAAATTAAAATTTAATTTTTTTTA
1 TAAAATTAAAATTTAATGATTTTTA
* *
18811578 TAAAATTAAAGTTTCATGATTTTTA
1 TAAAATTAAAATTTAATGATTTTTA
18811603 ATATAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TAAAATTAAAATTTAATGATTTTTA
Found at i:18811804 original size:26 final size:27
Alignment explanation
Indices: 18811760--18811818 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
18811750 TATACAAATT
*
18811760 ATTTA-TTAATATATTAAA-TAATAAA
1 ATTTATTTAATATATTAAATTAACAAA
*
18811785 ATTTATTTATTATATTAAATTAACAAA
1 ATTTATTTAATATATTAAATTAACAAA
18811812 A-TTATTT
1 ATTTATTT
18811819 CATAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 18 0.60
27 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTATTTAATATATTAAATTAACAAA
Found at i:18816010 original size:2 final size:2
Alignment explanation
Indices: 18816003--18816030 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18815993 AATGACGAGA
18816003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18816031 GTAACATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18817955 original size:25 final size:25
Alignment explanation
Indices: 18817911--18817971 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
18817901 TAAAAATTTT
*
18817911 ATTTTTAAAAAAATATATATTTTAA
1 ATTTTTAAAAAAATATATATTTCAA
*
18817936 CATTTTTAAAACAATA-ATATTTCAA
1 -ATTTTTAAAAAAATATATATTTCAA
18817961 ATATTTTAAAA
1 AT-TTTTAAAA
18817972 TTTTTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 16 0.50
26 14 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTTTTAAAAAAATATATATTTCAA
Found at i:18819642 original size:25 final size:25
Alignment explanation
Indices: 18819613--18819661 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18819603 TATTTTTTAC
*
18819613 ATAAACATTTTACTTTTAAAAATAA
1 ATAAACATTTTACCTTTAAAAATAA
18819638 ATAAACATTTTACCTTTAAAAATA
1 ATAAACATTTTACCTTTAAAAATA
18819662 CTCTTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (25 bp):
ATAAACATTTTACCTTTAAAAATAA
Found at i:18833843 original size:27 final size:27
Alignment explanation
Indices: 18833805--18833856 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
18833795 GTTATCATTG
*
18833805 TTCTTTTCCTCTTCCTTAGCCTCAATA
1 TTCTTCTCCTCTTCCTTAGCCTCAATA
18833832 TTCTTCTCCTCTTCCTTAGCCTCAA
1 TTCTTCTCCTCTTCCTTAGCCTCAA
18833857 CAACCTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.37, G:0.04, T:0.46
Consensus pattern (27 bp):
TTCTTCTCCTCTTCCTTAGCCTCAATA
Found at i:18842719 original size:19 final size:19
Alignment explanation
Indices: 18842691--18842728 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18842681 TACCACTATT
*
18842691 CCTGAGAAATGAGTCCAAG
1 CCTGAAAAATGAGTCCAAG
18842710 CCTGAAAAATGAGTCCAAG
1 CCTGAAAAATGAGTCCAAG
18842729 ATTTTGACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (19 bp):
CCTGAAAAATGAGTCCAAG
Found at i:18853195 original size:27 final size:29
Alignment explanation
Indices: 18853159--18853233 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
18853149 TTTAAATTTA
18853159 AATTTAATTTGAATTAATTTT-TT-ATAT-
1 AATTTAATTTGAATTAATTTTATTGAT-TC
*
18853186 AATTTAATTTAAATTAAATTTTATTGATTC
1 AATTTAATTTGAATT-AATTTTATTGATTC
*
18853216 ATTTTAATTTG-ATTAATT
1 AATTTAATTTGAATTAATT
18853234 AATTTTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 14 0.34
28 10 0.24
29 6 0.15
30 11 0.27
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (29 bp):
AATTTAATTTGAATTAATTTTATTGATTC
Found at i:18853251 original size:13 final size:13
Alignment explanation
Indices: 18853235--18853283 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
18853225 TGATTAATTA
*
18853235 ATTTTTAAATTTT
1 ATTTTTATATTTT
*
18853248 ATTTTTATTTTTT
1 ATTTTTATATTTT
*
18853261 ATTTTTATATATT
1 ATTTTTATATTTT
*
18853274 ATTTTAATAT
1 ATTTTTATAT
18853284 AAATTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTATATTTT
Found at i:18853284 original size:13 final size:13
Alignment explanation
Indices: 18853237--18853300 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
18853227 ATTAATTAAT
*
18853237 TTTTAA-ATTTTA
1 TTTTAATATATTA
* * *
18853249 TTTTTATTTTTTA
1 TTTTAATATATTA
*
18853262 TTTTTATATATTA
1 TTTTAATATATTA
*
18853275 TTTTAATATA-AA
1 TTTTAATATATTA
18853287 TTTTTAATATATTA
1 -TTTTAATATATTA
18853301 ATTAATTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 6 0.14
13 35 0.83
14 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:18858901 original size:23 final size:23
Alignment explanation
Indices: 18858875--18858918 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18858865 CAAAAATTTC
*
18858875 AAAGATCAAAACTCAAAAAACAA
1 AAAGATCAAAACCCAAAAAACAA
* *
18858898 AAAGATCTAAACCCTAAAAAC
1 AAAGATCAAAACCCAAAAAAC
18858919 CCCTTAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.20, G:0.05, T:0.11
Consensus pattern (23 bp):
AAAGATCAAAACCCAAAAAACAA
Found at i:18859217 original size:5 final size:5
Alignment explanation
Indices: 18859207--18859265 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
18859197 TTTTTTTAAA
* ** * *
18859207 AAAAT AAAAT -AAAT AAAAT AAAAAT GAAAT AATGT -TAAT ACAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
18859256 AAAAT AAAAT
1 AAAAT AAAAT
18859266 TTTCTATCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
4 5 0.12
5 32 0.76
6 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:18860920 original size:18 final size:18
Alignment explanation
Indices: 18860894--18860928 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18860884 ATTACATATA
*
18860894 TATAATTAAAATATAATT
1 TATAATTAAAAAATAATT
*
18860912 TATATTTAAAAAATAAT
1 TATAATTAAAAAATAAT
18860929 ATTTTATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAATTAAAAAATAATT
Found at i:18862601 original size:30 final size:30
Alignment explanation
Indices: 18862565--18862624 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
18862555 TGTTGTATGG
* *
18862565 TGATAATTAAGAATAGTTTTCTTTGCAAAA
1 TGATAATTAAAAATAATTTTCTTTGCAAAA
18862595 TGATAATTAAAAATAATTTTCTTTGCAAAA
1 TGATAATTAAAAATAATTTTCTTTGCAAAA
18862625 AAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (30 bp):
TGATAATTAAAAATAATTTTCTTTGCAAAA
Found at i:18862640 original size:33 final size:30
Alignment explanation
Indices: 18862567--18862632 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
18862557 TTGTATGGTG
* * **
18862567 ATAATTAAGAATAGTTTTCTTTGCAAAATG
1 ATAATTAAAAATAATTTTCTTTGCAAAAAA
18862597 ATAATTAAAAATAATTTTCTTTGCAAAAAA
1 ATAATTAAAAATAATTTTCTTTGCAAAAAA
18862627 ATAATT
1 ATAATT
18862633 TTAAAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (30 bp):
ATAATTAAAAATAATTTTCTTTGCAAAAAA
Found at i:18865158 original size:27 final size:27
Alignment explanation
Indices: 18865103--18865161 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
18865093 TGTTTGGAGG
*
18865103 AAATATTTTATATTTTTATTTTTTAAA
1 AAATATTTTATATTTTTATTTTCTAAA
*
18865130 AAATATTTTTTATTTTT-TGTTTGCTAAA
1 AAATATTTTATATTTTTAT-TTT-CTAAA
18865158 AAAT
1 AAAT
18865162 GCATTTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.68
28 8 0.29
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
AAATATTTTATATTTTTATTTTCTAAA
Found at i:18867445 original size:12 final size:14
Alignment explanation
Indices: 18867414--18867444 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18867404 TTAAACTAAT
18867414 AAAAATAATATTAA
1 AAAAATAATATTAA
18867428 AAAAATAA-ATTAA
1 AAAAATAATATTAA
18867441 AAAA
1 AAAA
18867445 TTTCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATAATATTAA
Found at i:18868508 original size:28 final size:29
Alignment explanation
Indices: 18868475--18868530 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
18868465 TTGGTAGAAT
18868475 TTATTAATTTATT-TTG-AAAGATTTATTA
1 TTATT-ATTTATTATTGAAAAGATTTATTA
* *
18868503 TTATTATTTTTTATTGAAAAGGTTTATT
1 TTATTATTTATTATTGAAAAGATTTATT
18868531 TTTTTAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 8 0.33
29 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (29 bp):
TTATTATTTATTATTGAAAAGATTTATTA
Found at i:18869559 original size:3 final size:3
Alignment explanation
Indices: 18869551--18869599 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
18869541 AGAAAACGTA
18869551 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18869599 A
1 A
18869600 CAATAGTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18871657 original size:2 final size:2
Alignment explanation
Indices: 18871650--18871683 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18871640 TTTGACACAT
18871650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18871684 TACAAGATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18873077 original size:263 final size:263
Alignment explanation
Indices: 18872610--18873136 Score: 1054
Period size: 263 Copynumber: 2.0 Consensus size: 263
18872600 AATTTGTTGT
18872610 ATCTTTTATCATTTCAAAATCTATTTAATAATTAATGATTTCACATATTTGTTATTCAATCATAC
1 ATCTTTTATCATTTCAAAATCTATTTAATAATTAATGATTTCACATATTTGTTATTCAATCATAC
18872675 TGAGAATAATTTCACAATTCAGAGTTTGTGATTTTGTTCATGTTGGAAGGTCTCCAAACTCCTTA
66 TGAGAATAATTTCACAATTCAGAGTTTGTGATTTTGTTCATGTTGGAAGGTCTCCAAACTCCTTA
18872740 GCTCATAATATTGCTAGGACAGAATGTCCATTTGGATATAGCCATGGTTGGGGAGGGTTTTTACC
131 GCTCATAATATTGCTAGGACAGAATGTCCATTTGGATATAGCCATGGTTGGGGAGGGTTTTTACC
18872805 TGTATAAGTATATATGTAATGTTGATTTTATTTCTTAATTTTGGTCAATGGATTTCTTCATTAAA
196 TGTATAAGTATATATGTAATGTTGATTTTATTTCTTAATTTTGGTCAATGGATTTCTTCATTAAA
18872870 AAG
261 AAG
18872873 ATCTTTTATCATTTCAAAATCTATTTAATAATTAATGATTTCACATATTTGTTATTCAATCATAC
1 ATCTTTTATCATTTCAAAATCTATTTAATAATTAATGATTTCACATATTTGTTATTCAATCATAC
18872938 TGAGAATAATTTCACAATTCAGAGTTTGTGATTTTGTTCATGTTGGAAGGTCTCCAAACTCCTTA
66 TGAGAATAATTTCACAATTCAGAGTTTGTGATTTTGTTCATGTTGGAAGGTCTCCAAACTCCTTA
18873003 GCTCATAATATTGCTAGGACAGAATGTCCATTTGGATATAGCCATGGTTGGGGAGGGTTTTTACC
131 GCTCATAATATTGCTAGGACAGAATGTCCATTTGGATATAGCCATGGTTGGGGAGGGTTTTTACC
18873068 TGTATAAGTATATATGTAATGTTGATTTTATTTCTTAATTTTGGTCAATGGATTTCTTCATTAAA
196 TGTATAAGTATATATGTAATGTTGATTTTATTTCTTAATTTTGGTCAATGGATTTCTTCATTAAA
18873133 AAG
261 AAG
18873136 A
1 A
18873137 AATTCATTGT
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 264 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42
Consensus pattern (263 bp):
ATCTTTTATCATTTCAAAATCTATTTAATAATTAATGATTTCACATATTTGTTATTCAATCATAC
TGAGAATAATTTCACAATTCAGAGTTTGTGATTTTGTTCATGTTGGAAGGTCTCCAAACTCCTTA
GCTCATAATATTGCTAGGACAGAATGTCCATTTGGATATAGCCATGGTTGGGGAGGGTTTTTACC
TGTATAAGTATATATGTAATGTTGATTTTATTTCTTAATTTTGGTCAATGGATTTCTTCATTAAA
AAG
Found at i:18881263 original size:19 final size:16
Alignment explanation
Indices: 18881226--18881260 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
18881216 GTAATTCTAG
18881226 AAACCAAGAATAATAA
1 AAACCAAGAATAATAA
18881242 AAACCAAGAATAATAA
1 AAACCAAGAATAATAA
18881258 AAA
1 AAA
18881261 AAAATCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.11, G:0.06, T:0.11
Consensus pattern (16 bp):
AAACCAAGAATAATAA
Found at i:18886859 original size:36 final size:35
Alignment explanation
Indices: 18886812--18886881 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
18886802 AGTTTTTATA
*
18886812 TATTTATATTTAAAT-TATTATCAAATAAAAATAAT
1 TATTTATATTTAAATATATT-TAAAATAAAAATAAT
*
18886847 TATTTCATATTTAAATATATTTAAAATAATAATAA
1 TATTT-ATATTTAAATATATTTAAAATAAAAATAA
18886882 AACAACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 5 0.16
36 22 0.71
37 4 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TATTTATATTTAAATATATTTAAAATAAAAATAAT
Found at i:18886867 original size:17 final size:17
Alignment explanation
Indices: 18886809--18886868 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
18886799 ATGAGTTTTT
18886809 ATATATTT-ATATTTAA
1 ATATATTTCATATTTAA
* **
18886825 AT-TATTATCAAATAAAA
1 ATATATT-TCATATTTAA
18886842 ATAATTATTTCATATTTAA
1 AT-A-TATTTCATATTTAA
18886861 ATATATTT
1 ATATATTT
18886869 AAAATAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 12 0.36
18 1 0.03
19 9 0.27
20 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTTCATATTTAA
Found at i:18887149 original size:19 final size:19
Alignment explanation
Indices: 18887125--18887163 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18887115 AATTTGCATG
18887125 ATCTCTATATTTCATATGC
1 ATCTCTATATTTCATATGC
* *
18887144 ATCTCTTTATTTCCTATGC
1 ATCTCTATATTTCATATGC
18887163 A
1 A
18887164 AAGTTACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (19 bp):
ATCTCTATATTTCATATGC
Found at i:18888158 original size:18 final size:18
Alignment explanation
Indices: 18888135--18888170 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18888125 TCATACGAAT
18888135 ACACATTTAATATATTTA
1 ACACATTTAATATATTTA
**
18888153 ACACATTTTTTATATTTA
1 ACACATTTAATATATTTA
18888171 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
ACACATTTAATATATTTA
Found at i:18888361 original size:29 final size:29
Alignment explanation
Indices: 18888316--18888381 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
18888306 TCGTGTTTCT
*
18888316 ATATATATTCGTGTTAATCATATCTATTA
1 ATATATATTCGTATTAATCATATCTATTA
* * * *
18888345 ATATATA-TCTGTATTAATTATGTGTATTC
1 ATATATATTC-GTATTAATCATATCTATTA
18888374 ATATATAT
1 ATATATAT
18888382 ATATATCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (29 bp):
ATATATATTCGTATTAATCATATCTATTA
Found at i:18896843 original size:24 final size:26
Alignment explanation
Indices: 18896816--18896877 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 26
18896806 AAATAAAAAA
18896816 TATAATATTTTATT-TTATT-AAATT
1 TATAATATTTTATTATTATTAAAATT
*
18896840 TAT-ATA--TAATTATTATTAAAATT
1 TATAATATTTTATTATTATTAAAATT
18896863 T-TAA-ATTTTATTATT
1 TATAATATTTTATTATT
18896878 TTCATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 10 0.32
24 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATAATATTTTATTATTATTAAAATT
Found at i:18897239 original size:27 final size:28
Alignment explanation
Indices: 18897203--18897264 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
18897193 AAAAATTACA
18897203 AAAT-AATTTTATTAATT-TATTAT-AAT
1 AAATAAATTTTATT-ATTATATTATGAAT
18897229 AAATAAATTTTATTATTATATTATGAAT
1 AAATAAATTTTATTATTATATTATGAAT
*
18897257 TAATAAAT
1 AAATAAAT
18897265 AAAAAATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.22
27 15 0.47
28 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATAAATTTTATTATTATATTATGAAT
Found at i:18897433 original size:45 final size:45
Alignment explanation
Indices: 18897345--18897434 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
18897335 TTTGTCAAAA
* * * *
18897345 AAATAATTTAATAATTTTTAATAATTTATTACTTTTAAAAATATT
1 AAATAATTTAATAAATTTTAATAATATATAAATTTTAAAAATATT
*
18897390 AAATAATTTAA-AAATTTT-ATTATATATAAATTTTAATATAATATT
1 AAATAATTTAATAAATTTTAATAATATATAAATTTTAA-A-AATATT
18897435 CTTAATGATC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
43 14 0.37
44 7 0.18
45 17 0.45
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (45 bp):
AAATAATTTAATAAATTTTAATAATATATAAATTTTAAAAATATT
Found at i:18897974 original size:26 final size:28
Alignment explanation
Indices: 18897918--18897975 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
18897908 ATTTTAAAAT
* *
18897918 TTATTATTTATATAAAATTATTTTTCGAA
1 TTATTATTTATATAAAATCATTTATC-AA
18897947 TTATTATTTATATAAAATCA-TTAT-AA
1 TTATTATTTATATAAAATCATTTATCAA
18897973 TTA
1 TTA
18897976 AAAAGGTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
28 3 0.11
29 19 0.70
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATTATTTATATAAAATCATTTATCAA
Found at i:18899980 original size:27 final size:27
Alignment explanation
Indices: 18899946--18900003 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
18899936 TTCTTCTCAA
* *
18899946 CTCTTTATTTCTTTTTCTTTGTATGAT
1 CTCTTTATTTCTCTTTCTTTATATGAT
*
18899973 CTCTTTATTTCTCTTTCTTTATATGGT
1 CTCTTTATTTCTCTTTCTTTATATGAT
18900000 CTCT
1 CTCT
18900004 CTCGTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.10, C:0.19, G:0.07, T:0.64
Consensus pattern (27 bp):
CTCTTTATTTCTCTTTCTTTATATGAT
Found at i:18905299 original size:8 final size:8
Alignment explanation
Indices: 18905286--18905310 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18905276 ATGTTTCACA
18905286 AAATGGGT
1 AAATGGGT
18905294 AAATGGGT
1 AAATGGGT
18905302 AAATGGGT
1 AAATGGGT
18905310 A
1 A
18905311 GAAGCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (8 bp):
AAATGGGT
Done.