Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 84 of 344
Found at i:27865070 original size:42 final size:42
Alignment explanation
Indices: 27864960--27865078 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
27864950 TACCATACCA
* * *
27864960 ATGCCATATCCCAGATATGGTCTTACATGGGAT-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCCTCATATCG
* * *
27865002 ATGCCAATAGCCCAGCTATGGACTTACACGAATCCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAATCCTCATATCG
*
27865045 ATTCCATATCCCAGATATGGTCTTACACGTAATC
1 ATGCCATATCCCAGATATGGTCTTACACG-AATC
27865079 TTAAATAACC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCCTCATATCG
Found at i:27875150 original size:42 final size:42
Alignment explanation
Indices: 27875103--27875215 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
27875093 TACCATACCA
* * *
27875103 ATGCCATATCCCAGATATGGTCTTACATAGGAT-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACA-AATCCTCATATCG
* **
27875145 ATGCCAATAGCCCAGCCATGGTCTTACACAAATCCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAATCCTCATATCG
* *
27875188 ATGTCATATCCCAAATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
27875216 GTAATCTCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCCTCATATCG
Found at i:27876321 original size:16 final size:16
Alignment explanation
Indices: 27876300--27876331 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27876290 ACAAAATCAC
27876300 TGTAGACCATGAAAAT
1 TGTAGACCATGAAAAT
27876316 TGTAGACCATGAAAAT
1 TGTAGACCATGAAAAT
27876332 GTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
TGTAGACCATGAAAAT
Found at i:27876351 original size:10 final size:11
Alignment explanation
Indices: 27876327--27876353 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27876317 GTAGACCATG
27876327 AAAATGTAATA
1 AAAATGTAATA
27876338 AAAATGTAATA
1 AAAATGTAATA
27876349 AAAAT
1 AAAAT
27876354 AAGTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AAAATGTAATA
Found at i:27880937 original size:101 final size:102
Alignment explanation
Indices: 27880824--27881012 Score: 344
Period size: 101 Copynumber: 1.9 Consensus size: 102
27880814 GGAATTAACG
*
27880824 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
*
27880889 -TTAATATATGTTAATATATTATAAAAGATGAAAGTA
66 TTTAATATAGGTTAATATATTATAAAAGATGAAAGTA
*
27880925 GCCGACCAATATGCATGGATTAATGACTTGAATTGTTTATTATATTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
27880990 TTTAATATAGGTTAATATATTAT
66 TTTAATATAGGTTAATATATTAT
27881013 GTTTAAGAAG
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
101 63 0.75
102 21 0.25
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (102 bp):
GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
TTTAATATAGGTTAATATATTATAAAAGATGAAAGTA
Found at i:27881437 original size:28 final size:28
Alignment explanation
Indices: 27881397--27881494 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
27881387 TATGAGATTG
27881397 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
27881425 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
27881453 GCACTAAGTGTGCGAGTTTGATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAATTGTAT-A
*
27881481 GCATTAAGTGTGCG
1 GCACTAAGTGTGCG
27881495 GACATACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 1 0.02
28 65 0.98
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:27882470 original size:28 final size:28
Alignment explanation
Indices: 27882430--27882499 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
27882420 TATGAGATTG
*
27882430 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
27882458 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
27882486 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27882500 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:27889761 original size:25 final size:25
Alignment explanation
Indices: 27889732--27889779 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27889722 TTATAACATG
* *
27889732 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27889757 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27889780 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27889863 original size:11 final size:11
Alignment explanation
Indices: 27889827--27889882 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27889817 CATGGTATGT
27889827 ATGATATGCAC
1 ATGATATGCAC
* *
27889838 ATGACATG--T
1 ATGATATGCAC
27889847 ATGATATGCAC
1 ATGATATGCAC
*
27889858 ATGATATG--T
1 ATGATATGCAC
27889867 ATGATATGCAC
1 ATGATATGCAC
27889878 ATGAT
1 ATGAT
27889883 GTACTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:27889882 original size:20 final size:20
Alignment explanation
Indices: 27889816--27889882 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
27889806 ATTTTGATAA
*
27889816 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27889836 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
27889856 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
27889876 ACATGAT
1 ACATGAT
27889883 GTACTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:27889963 original size:23 final size:23
Alignment explanation
Indices: 27889933--27890051 Score: 175
Period size: 23 Copynumber: 5.1 Consensus size: 23
27889923 AGGAAGTGAA
27889933 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
27889956 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27889979 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* **
27890002 AAAGGACTTATGCCATAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
27890025 AAAAGGGCTTTTTCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
27890049 AAA
1 AAA
27890052 AGAGGCTAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
23 67 0.79
24 18 0.21
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:27890320 original size:31 final size:31
Alignment explanation
Indices: 27890266--27890329 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
27890256 CGTTTACAGT
*
27890266 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* * **
27890297 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
27890328 AA
1 AA
27890330 TAAGAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:27896715 original size:23 final size:23
Alignment explanation
Indices: 27896672--27896721 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
27896662 TTTCTATTAA
* *
27896672 TTAAATAATAAAAAATTATAATT
1 TTAAATAATAAAAAATAATAAAT
*
27896695 TTAAAT-ATAACATAATAATAAAT
1 TTAAATAATAA-AAAATAATAAAT
27896718 TTAA
1 TTAA
27896722 CTCTCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAATAATAAAAAATAATAAAT
Found at i:27900409 original size:14 final size:14
Alignment explanation
Indices: 27900392--27900436 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27900382 TTTTTTGAAA
*
27900392 TTTAAAATTTAATT
1 TTTAAATTTTAATT
*
27900406 TTTATATTTTAATT
1 TTTAAATTTTAATT
*
27900420 TTGAGAATTTTAATT
1 TTTA-AATTTTAATT
27900435 TT
1 TT
27900437 GAGACATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAAATTTTAATT
Found at i:27900431 original size:15 final size:15
Alignment explanation
Indices: 27900411--27900440 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27900401 TAATTTTTAT
27900411 ATTTTAATTTTGAGA
1 ATTTTAATTTTGAGA
27900426 ATTTTAATTTTGAGA
1 ATTTTAATTTTGAGA
27900441 CATTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTTTAATTTTGAGA
Found at i:27901190 original size:19 final size:20
Alignment explanation
Indices: 27901166--27901211 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
27901156 TATTTTAAAC
27901166 AAAAAATTTAAAAATTT-TA
1 AAAAAATTTAAAAATTTATA
* *
27901185 AAAAAAATTAAAAATTTATG
1 AAAAAATTTAAAAATTTATA
27901205 AAAAAAT
1 AAAAAAT
27901212 AATAACTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAAATTTAAAAATTTATA
Found at i:27902490 original size:22 final size:21
Alignment explanation
Indices: 27902442--27902495 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
27902432 ATTTCCACAG
27902442 TTTTAATTTATAAACCCTAAA
1 TTTTAATTTATAAACCCTAAA
* * *
27902463 TATTTAATTTATACACCCATCAC
1 T-TTTAATTTATAAACCC-TAAA
27902486 TTTTAATTTA
1 TTTTAATTTA
27902496 CACCTAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTAATTTATAAACCCTAAA
Found at i:27907516 original size:42 final size:40
Alignment explanation
Indices: 27907408--27907532 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 40
27907398 TTTCGACATG
* *
27907408 TGATTTCGTGTAAGACCAC-GTCTGGGAAATTGGCATCGACT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACA-TGGCATCGACA
*
27907449 TGAGATTTACGTGTAAGACCATGTCTGGGACATAGGCATCGTACA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACAT-GGCATCG-ACA
27907494 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGA
27907533 TATTTGATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
41 2 0.03
42 29 0.40
43 12 0.16
44 27 0.37
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATGGCATCGACA
Found at i:27907560 original size:43 final size:43
Alignment explanation
Indices: 27907408--27907572 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
27907398 TTTCGACATG
* *
27907408 TGATTTCGTGTAAGACCACGTCTGGGAAATTGGCATCGACT-TGA
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGA-TAT-A
* * *
27907452 -GATTTACGTGTAAGACCATGTCTGGGACATAGGCATCG-TACA
1 TGA-TTACGTGTAAGACCACGTCTGGGACATTGGCATCGATATA
* * *
27907494 TGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATA
** *
27907537 TGATTACAAGTAAGACCACGTCTGAGACATTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
27907573 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
42 32 0.32
43 35 0.35
44 32 0.32
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATATA
Found at i:27907587 original size:86 final size:86
Alignment explanation
Indices: 27907408--27907577 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 86
27907398 TTTCGACATG
* ** *
27907408 TGATTTCGTGTAAGACCACGTCTGGGAAATTGGCATCGACTTGAGATTTACGTGTAAGACCATGT
1 TGATTTCGTGTAAGACCACGTCTGGGAAAGTGGCATCGACTTGAGATTTACAAGTAAGACCACGT
*
27907473 CTGGGACATAGGCATCGTACA
66 CTGAGACATAGGCATCGTACA
* **
27907494 TGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATTTGA-TTACAAGTAAGACCAC
1 TGATTTCGTGTAAGACCAC-GTCTGGGAAAGTGGCATCGACT-TGAGATTTACAAGTAAGACCAC
* *
27907556 GTCTGAGACATTGGCATTGTAC
64 GTCTGAGACATAGGCATCGTAC
27907578 GAGCTTTTCG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 34 0.47
86 38 0.53
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (86 bp):
TGATTTCGTGTAAGACCACGTCTGGGAAAGTGGCATCGACTTGAGATTTACAAGTAAGACCACGT
CTGAGACATAGGCATCGTACA
Found at i:27919673 original size:32 final size:32
Alignment explanation
Indices: 27919637--27919699 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
27919627 AAGTTGAGAA
27919637 CTATATGGTTTAAATTAATATGGTCTTATGCG
1 CTATATGGTTTAAATTAATATGGTCTTATGCG
*
27919669 CTATATGGTTTAAGTTAATATGGTCTTATGC
1 CTATATGGTTTAAATTAATATGGTCTTATGC
27919700 ACATAGTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (32 bp):
CTATATGGTTTAAATTAATATGGTCTTATGCG
Found at i:27923244 original size:15 final size:17
Alignment explanation
Indices: 27923226--27923263 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27923216 TTGCTCTCTA
27923226 TCTTTTTA-TTTC-TTC
1 TCTTTTTATTTTCTTTC
27923241 TCTTTTTATTTTCTTTC
1 TCTTTTTATTTTCTTTC
27923258 TCTTTT
1 TCTTTT
27923264 CTTTACACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 9 0.43
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTATTTTCTTTC
Found at i:27937167 original size:55 final size:55
Alignment explanation
Indices: 27937080--27937186 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
27937070 CATGATTGGA
* * *
27937080 AATACCTTATAACCCTAATCCGGTGACGGATACGGGCTAGGGATGTTATACTGGT
1 AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACTGGT
*
27937135 AATACCTTATAACCCTAATCCAGTGACAGATACGGGGTAGGGATGTAATACT
1 AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACT
27937187 AATGACATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (55 bp):
AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACTGGT
Found at i:27940726 original size:79 final size:79
Alignment explanation
Indices: 27940643--27940807 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 79
27940633 GGACTAAGAT
* * **
27940643 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 CCGAAGGCATTTGTCCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTTACT
*
27940706 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
27940722 CCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTA
1 CCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTTACTA
* *
27940787 TATCCGGTTAAATT
66 AATCCGGTTAAATC
27940801 CCGAAGG
1 CCGAAGG
27940808 TACGTGATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 47 0.64
80 27 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:27940788 original size:40 final size:39
Alignment explanation
Indices: 27940591--27940774 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
27940581 CGAATGATGT
* * * * *
27940591 CCGGGCTAAGTTCTGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
27940631 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
27940671 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27940709 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27940750 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27940775 AACGAGTTGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27944127 original size:39 final size:40
Alignment explanation
Indices: 27944026--27944249 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
27944016 TTGAATGATG
* *
27944026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27944065 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
27944106 TCCGGGCTAAG-CCCGAAGGCATTTATGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27944145 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27944184 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27944223 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27944250 AATGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 78 0.48
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27944175 original size:78 final size:80
Alignment explanation
Indices: 27944026--27944249 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
27944016 TTGAATGATG
* * * * *
27944026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
27944088 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
*
27944106 TCCGGGCTAAG-CCCGAAGGCATTTATGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
27944168 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * *
27944184 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
27944249 G
66 G
27944250 AATGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:27944271 original size:79 final size:79
Alignment explanation
Indices: 27944079--27944282 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
27944069 GGACTAAGAT
** * * *
27944079 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTATGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGATACTA
*
27944143 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
27944157 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGATACTA
*
27944221 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
27944237 CCGAAGGCATTTGAATGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
27944283 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 37 0.34
79 48 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGATACTA
ATACCGGGCTAAGC
Found at i:27947875 original size:79 final size:79
Alignment explanation
Indices: 27947786--27947963 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 79
27947776 AAATGCTTTT
* * *
27947786 GGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
1 GGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGATATAGTAAC
* *
27947850 -TCGCACCAATGCCTTC
64 TTAGCA-CAAAGCCTTC
* *
27947866 GGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTCACTT
1 GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGATATAGTAACTT
27947930 AGCACAAAGCCTTC
66 AGCACAAAGCCTTC
27947944 GGGACTTAGCCCGGACATTA
1 GGGACTTAGCCCGGA-ATTA
27947964 TTCGAATAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
78 29 0.33
79 50 0.57
80 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGATATAGTAACTT
AGCACAAAGCCTTC
Found at i:27947958 original size:40 final size:40
Alignment explanation
Indices: 27947756--27947958 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
27947746 CAGAATTTAA
** * * *
27947756 CCGGATATAGCT-ACTCGTTCAAATGCTTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27947796 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27947836 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
27947875 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27947914 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27947954 CCGGA
1 CCGGA
27947959 CATTATTCGA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 62 0.43
40 81 0.57
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27955164 original size:40 final size:39
Alignment explanation
Indices: 27955080--27955264 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 39
27955070 TCGAATGATG
* *
27955080 TCCGGGCTAAGTTCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGC-GAGTTACTAAT
*
27955119 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27955160 TCCGGGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTAAT
*
27955199 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
27955238 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
27955265 AACAAGTTGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 35 0.28
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27955216 original size:79 final size:80
Alignment explanation
Indices: 27955080--27955262 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
27955070 TCGAATGATG
* * *
27955080 TCCGGGCTAAGTTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGCT-CGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
27955144 TGTGCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* * **
27955159 TTCCGGGCTAAGCTCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCTCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
27955222 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
27955239 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CTCGAAGGCATT
27955263 TGAACAAGTT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGCTCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:27955297 original size:79 final size:79
Alignment explanation
Indices: 27955109--27955289 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 79
27955099 GCTTTGTGCT
* * * * *
27955109 AAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCT
1 AAGTTACTAAATCCGGATTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCC
**
27955173 CGAAGGCATTGGTGC
65 CGAAGGCATTGGAAC
* * * *
27955188 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 AAGTTACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-C
*
27955252 CCGAAGGCATTTGAAC
64 CCGAAGGCATTGGAAC
* *
27955268 AAGTTGCTATATCC-GATTAAAT
1 AAGTTACTAAATCCGGATTAAAT
27955290 TCTGAAGGTA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
78 3 0.04
79 55 0.67
80 24 0.29
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
AAGTTACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCC
GAAGGCATTGGAAC
Found at i:27960480 original size:18 final size:18
Alignment explanation
Indices: 27960457--27960498 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
27960447 ATGGTCAAAT
27960457 TCATAATAATAATACATA
1 TCATAATAATAATACATA
27960475 TCATAATAATAATACATA
1 TCATAATAATAATACATA
27960493 TCATAA
1 TCATAA
27960499 ACCAACTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
TCATAATAATAATACATA
Found at i:27968537 original size:27 final size:27
Alignment explanation
Indices: 27968496--27968549 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27968486 TGTCATGTGA
* *
27968496 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
27968523 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
27968550 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:27968855 original size:49 final size:50
Alignment explanation
Indices: 27968775--27969004 Score: 241
Period size: 49 Copynumber: 4.6 Consensus size: 50
27968765 ATCTATTGTG
* * *
27968775 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
27968825 -GGTCGCATGTGTAGTACAAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * ** * * **
27968875 CGATCATGTGTGTAGTACAAAGTGCAGGTTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27968925 AGGTCACATGTGTAGTACTAAA-TGCTGGCTACTACGTGTACTAGATAATT
1 AGGTCACATGTGTAGTAC-AAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27968975 -GGTCGCATGTGTAGTACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACAAAGTGCAGGCTA
27969005 TTATGCGTAC
Statistics
Matches: 144, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 2 0.01
49 64 0.44
50 40 0.28
51 38 0.26
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27968985 original size:101 final size:98
Alignment explanation
Indices: 27968782--27969004 Score: 245
Period size: 101 Copynumber: 2.2 Consensus size: 98
27968772 GTGAGGTCAC
* *
27968782 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACAAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACAAAGT
* *
27968847 GCAGGCTACTATGCATACCCGATAACTTCGATCA
66 GCAGGCTACTACGCATACCAGATAACTTCGA-CA
* * * **
27968881 TGTGTGTAGTACAAAGTGCAGGTTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC-AA
* ** * *
27968946 A-TGCTGGCTACTACGTGTACTAGATAATTGGTCG-CA
63 AGTGCAGGCTACTACGCATACCAGATAACT--TCGACA
27968982 -TGTGTAGTACTAAGTGCAGGCTA
1 GTGTGTAGTACTAAGTGCAGGCTA
27969005 TTATGCGTAC
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
99 21 0.20
100 37 0.36
101 39 0.38
102 3 0.03
103 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACAAAGT
GCAGGCTACTACGCATACCAGATAACTTCGACA
Found at i:27976511 original size:45 final size:45
Alignment explanation
Indices: 27976462--27976584 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
27976452 ATCTAGACCG
* *
27976462 ATGAGTTGTTTATCCACAACATACTAGTAGCTTTTATCTGCACCA
1 ATGAGTGGTTTATCCACAACATACTAGCAGCTTTTATCTGCACCA
* ** **
27976507 ATGAGTGGTTTCTCCACAATGTACTAGCAGCTTTTATCTGCACTG
1 ATGAGTGGTTTATCCACAACATACTAGCAGCTTTTATCTGCACCA
*
27976552 ATGAGTGGTTTATCCACACCATACTAGCAGCTT
1 ATGAGTGGTTTATCCACAACATACTAGCAGCTT
27976585 ATTTGCAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (45 bp):
ATGAGTGGTTTATCCACAACATACTAGCAGCTTTTATCTGCACCA
Found at i:27984983 original size:18 final size:18
Alignment explanation
Indices: 27984960--27985007 Score: 61
Period size: 13 Copynumber: 2.9 Consensus size: 18
27984950 GTCGTGTGGG
27984960 CCACACGGGCGTGTAGAT
1 CCACACGGGCGTGTAGAT
27984978 CCACAC--G-G-GTAG-T
1 CCACACGGGCGTGTAGAT
27984991 CCACACGGGCGTGTAGA
1 CCACACGGGCGTGTAGA
27985008 ATTCTAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 7 0.28
14 4 0.16
15 2 0.08
16 2 0.08
17 4 0.16
18 6 0.24
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (18 bp):
CCACACGGGCGTGTAGAT
Found at i:27991964 original size:23 final size:23
Alignment explanation
Indices: 27991938--27991998 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
27991928 AGGCACTTTA
27991938 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* *
27991961 TGTG-C-CATATCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
27991982 TGTGTTGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
27991999 TTTATGTGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 24 0.77
22 3 0.10
23 4 0.13
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:27995212 original size:55 final size:53
Alignment explanation
Indices: 27995095--27995275 Score: 222
Period size: 55 Copynumber: 3.4 Consensus size: 53
27995085 ATTGCCATGT
* *
27995095 CTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCAGCAATGCCATAC
1 CTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGCCATAC
* *
27995148 CTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCAT-C
1 CTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGCCATAC
* * * *
27995202 TCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGC
1 -CTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGCCATAC
*
27995257 CTTGGCATGGTCTTACATG
1 CTTGACATGGTCTTACATG
27995276 ATATTCTTGT
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 35 0.31
55 45 0.40
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGCCATAC
Found at i:27995317 original size:47 final size:47
Alignment explanation
Indices: 27995262--27995383 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
27995252 CATGCCTTGG
* *
27995262 CATGGTCTTACATGATATTCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* * * *
27995309 CATGGTCTTACATGGTACCCTTGTCTTACCAAATGTCATGTTTCGAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
27995356 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
27995384 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:27995459 original size:47 final size:46
Alignment explanation
Indices: 27995355--27995518 Score: 168
Period size: 45 Copynumber: 3.5 Consensus size: 46
27995345 CATGTTTCGA
* * *
27995355 ACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTATC--AATGCCAATGCCATATCTTG
** * * *
27995403 ATGTGGTCTTACATGGAATCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTATCCTT-ATCAATGCCAATGCCATATCTTG
* * * ** *
27995450 ACATGGTCTTACACGGGATCCTT-GCCTTACCAATGCCATATCTTG
1 ACATGGTCTTACATGGTATCCTTATCAATGCCAATGCCATATCTTG
27995495 ACATGGTCTTACATGGTATCCTTA
1 ACATGGTCTTACATGGTATCCTTA
27995519 ACTGTCAATT
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
45 37 0.39
47 35 0.37
48 20 0.21
49 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (46 bp):
ACATGGTCTTACATGGTATCCTTATCAATGCCAATGCCATATCTTG
Found at i:27996790 original size:27 final size:27
Alignment explanation
Indices: 27996758--27996809 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
27996748 ATAATAGTCC
*
27996758 AATTAATAAATAAATACATCCACTTCT
1 AATTAATAAATAAAGACATCCACTTCT
27996785 AATTAATAAATAAAGACATCCACTT
1 AATTAATAAATAAAGACATCCACTT
27996810 TAAGAACACA
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:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (27 bp):
AATTAATAAATAAAGACATCCACTTCT
Found at i:28000186 original size:22 final size:22
Alignment explanation
Indices: 28000161--28000224 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
28000151 AGTTACAATT
* * *
28000161 AAATTAAAATAAAAATCTAACA
1 AAATTATAATAAAAATATAAAA
*
28000183 AAATTATAA-AAAATTATAAAA
1 AAATTATAATAAAAATATAAAA
28000204 AATATTATAATAAAAA-ATAAA
1 AA-ATTATAATAAAAATATAAA
28000225 GTAAACTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.31
22 20 0.57
23 4 0.11
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATTATAATAAAAATATAAAA
Found at i:28000210 original size:12 final size:11
Alignment explanation
Indices: 28000182--28000219 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
28000172 AAAATCTAAC
28000182 AAAATTAT-AA
1 AAAATTATAAA
28000192 AAAATTATAAA
1 AAAATTATAAA
28000203 AAATATTATAATA
1 AAA-ATTATAA-A
28000216 AAAA
1 AAAA
28000220 ATAAAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.32
11 5 0.20
12 8 0.32
13 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:28000609 original size:2 final size:2
Alignment explanation
Indices: 28000602--28000634 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
28000592 TTCCTTTCAT
*
28000602 GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
28000635 GGAATAGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28012693 original size:17 final size:17
Alignment explanation
Indices: 28012671--28012705 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
28012661 CGTGTGCCTT
28012671 GCCCGTATGGGCCACAC
1 GCCCGTATGGGCCACAC
* *
28012688 GCCCGTGTGGGTCACAC
1 GCCCGTATGGGCCACAC
28012705 G
1 G
28012706 GCCCAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.37, G:0.34, T:0.14
Consensus pattern (17 bp):
GCCCGTATGGGCCACAC
Found at i:28018171 original size:48 final size:48
Alignment explanation
Indices: 28018100--28018197 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
28018090 CGCTGTGATC
28018100 AACGAGAACCCCTCTACAAAACGTCGGTAATACCCTGGTAGTCCTAGA
1 AACGAGAACCCCTCTACAAAACGTCGGTAATACCCTGGTAGTCCTAGA
28018148 AACGAGAACCCCTCTACAAAACGTCGGTAATACCCTGGTAGTCCTAGA
1 AACGAGAACCCCTCTACAAAACGTCGGTAATACCCTGGTAGTCCTAGA
28018196 AA
1 AA
28018198 ACTGTATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (48 bp):
AACGAGAACCCCTCTACAAAACGTCGGTAATACCCTGGTAGTCCTAGA
Found at i:28023585 original size:40 final size:40
Alignment explanation
Indices: 28023525--28023791 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
28023515 AGCATTGGAT
28023525 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
28023565 CATACCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
28023605 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
28023645 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
28023685 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
28023725 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
28023765 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
28023792 ATGTGTTTGC
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:28032384 original size:40 final size:40
Alignment explanation
Indices: 28032329--28032635 Score: 569
Period size: 40 Copynumber: 7.7 Consensus size: 40
28032319 AACATTGGAT
28032329 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
28032369 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
28032409 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
28032449 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
28032489 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
28032529 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
28032569 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
28032609 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
28032636 ATGTGTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:28046910 original size:17 final size:17
Alignment explanation
Indices: 28046888--28046920 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28046878 AGAATGGAGT
28046888 AAGTGAAATTATGTAAA
1 AAGTGAAATTATGTAAA
*
28046905 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
28046921 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AAGTGAAATTATGTAAA
Found at i:28050230 original size:39 final size:40
Alignment explanation
Indices: 28050116--28050299 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
28050106 GCTACTCGTT
*
28050116 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
28050156 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
28050196 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
28050235 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
28050276 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28050300 CATCAATCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 43 0.35
40 69 0.56
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:28050284 original size:79 final size:81
Alignment explanation
Indices: 28050116--28050299 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
28050106 GCTACTCGTT
* *
28050116 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCG
* *
28050180 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
28050197 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCG
* *
28050259 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
28050276 CAAAGCCTT-GGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
28050300 CATCAATCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 6 0.07
79 65 0.74
80 14 0.16
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:28058200 original size:79 final size:80
Alignment explanation
Indices: 28058102--28058284 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
28058092 TACTCGTTCA
* * *
28058102 AATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
28058165 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
28058182 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
28058246 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
28058261 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
28058285 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:28058284 original size:40 final size:40
Alignment explanation
Indices: 28058100--28058284 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
28058090 GCTACTCGTT
* * *
28058100 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
28058140 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
28058180 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
28058219 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
28058260 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28058285 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:28073209 original size:39 final size:40
Alignment explanation
Indices: 28073087--28073271 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
28073077 TTGAATGATG
* * * * *
28073087 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
***
28073127 TCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28073167 TCCGGGTTAAGTCCTGAAGGCATTTGT-CGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
28073206 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
28073247 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
28073272 AATGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 39 0.31
40 78 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28073293 original size:79 final size:79
Alignment explanation
Indices: 28073087--28073304 Score: 214
Period size: 79 Copynumber: 2.7 Consensus size: 79
28073077 TTGAATGATG
* * * * ***
28073087 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACCAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGT-C-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAT
28073150 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* * *
28073167 TCCGGGTTAAGTCCTGAAGGCATTTGTCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
28073232 TGCGAGTTACTATAA
66 TGCGAGTTACTA-AA
* * *
28073247 -CCGGGCTATGTCCCGAAGGCATTTGAAT-GAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTG--TCGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
28073305 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 77 0.66
80 32 0.28
81 6 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:28081161 original size:40 final size:40
Alignment explanation
Indices: 28081117--28081249 Score: 232
Period size: 40 Copynumber: 3.3 Consensus size: 40
28081107 AGACCAAGAT
28081117 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
28081157 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
28081197 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
28081237 CCGAAGGCATTTG
1 CCGAAGGCATTTG
28081250 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 87 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:28081263 original size:40 final size:41
Alignment explanation
Indices: 28081064--28081249 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
28081054 TTGAATGATG
* * *
28081064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
** * *
28081104 TCTAGACCAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
28081144 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
28081184 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
28081225 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28081250 AATGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 115 0.91
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:28081267 original size:80 final size:79
Alignment explanation
Indices: 28081117--28081282 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
28081107 AGACCAAGAT
* **
28081117 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
*
28081182 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
28081197 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-C
* *
28081260 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
28081276 CCGAAGG
1 CCGAAGG
28081283 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.75
81 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:28086185 original size:28 final size:28
Alignment explanation
Indices: 28086153--28086236 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
28086143 AACTGTGATC
28086153 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
28086181 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
28086203 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
28086231 ACGTGT
1 ACGTGT
28086237 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:28086226 original size:50 final size:49
Alignment explanation
Indices: 28086105--28086292 Score: 223
Period size: 50 Copynumber: 3.8 Consensus size: 49
28086095 TGAGGTCGCA
* * * * *
28086105 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
28086156 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
28086206 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
28086255 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
28086293 TGCTTTGGCT
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.34
50 45 0.38
51 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:28093024 original size:4 final size:4
Alignment explanation
Indices: 28093015--28093045 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
28093005 GTGCCCCAAT
*
28093015 TTCA TTCA TTCA TTCA TCCA TTCA TTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
28093046 GTTCGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (4 bp):
TTCA
Found at i:28114245 original size:20 final size:20
Alignment explanation
Indices: 28114218--28114259 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
28114208 TTTCTTAAAC
*
28114218 TTACTTTATTTTTATTT-TT
1 TTACTTTATTTCTATTTATT
28114237 TTACTTTTATTTCTATTTATT
1 TTAC-TTTATTTCTATTTATT
28114258 TT
1 TT
28114260 TGAAGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (20 bp):
TTACTTTATTTCTATTTATT
Found at i:28131551 original size:42 final size:42
Alignment explanation
Indices: 28131491--28131945 Score: 586
Period size: 42 Copynumber: 11.0 Consensus size: 42
28131481 AGGAAAACAA
*
28131491 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
*
28131533 CCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * *
28131575 CCATTGCATCTAGAAACCCAGGTGTGGAGGTCCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* *
28131617 TCATTGTATTTAGAGACCCAGGTGTAGAGGTCCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * *
28131659 TCATTGCATTTAGAGACCTAAGTGTGGAGGTTCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
** * *
28131701 TCATTATATTTAGATACCCAAGTGTGGAGGTCCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * *
28131743 TCATTGCATCTAGAGACCCAGGTGTGGATG-CCATTCACCTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* *
28131784 TCATTGCATTTAGAGATCTAGGTGTGGAGGTCCATTCACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * *
28131826 TCATTGCATTTAGAGACCCA-G-CTGGAGGTCCGTTTACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * * *
28131866 TC-TAG--TTTAGAGGCCCAGGTGTGGAGGTCCGTTTACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
* * *
28131905 TC-TAG--TTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTT
1 TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
28131944 TC
1 TC
28131946 TAGTTTACTT
Statistics
Matches: 370, Mismatches: 40, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
37 11 0.03
38 1 0.00
39 60 0.16
40 18 0.05
41 37 0.10
42 243 0.66
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (42 bp):
TCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTT
Found at i:28132614 original size:35 final size:35
Alignment explanation
Indices: 28132575--28132648 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
28132565 CATCAGACAG
** *
28132575 ATACAAATTAGGGCCTACTCCCATTTCAGATACAA
1 ATACAAATTAGGGCCTAAGCCCATCTCAGATACAA
* * *
28132610 ATACAGATTCGGGCCTAAGCCCATCTCAGATACAG
1 ATACAAATTAGGGCCTAAGCCCATCTCAGATACAA
28132645 ATAC
1 ATAC
28132649 GGATGAGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (35 bp):
ATACAAATTAGGGCCTAAGCCCATCTCAGATACAA
Found at i:28135122 original size:51 final size:52
Alignment explanation
Indices: 28134905--28135125 Score: 123
Period size: 51 Copynumber: 4.1 Consensus size: 52
28134895 TAAAAATATG
* * *
28134905 TTTTTTTAGTTATTTTAAAG-GGAAGTTTAAAT-TTTTAAAACAAAGTTTTGA
1 TTTTTTTAGTAATTTTAAAGAGAAAGTTTAAATCTTTAAAAACAAAGTTTT-A
* * * * *
28134956 TATTTTTTAACT-ATTTCAAAGTA-AAAGTTTTAATCTTTAAGAAAAATAATGTTTTT
1 T-TTTTTT-AGTAATTTTAAAG-AGAAAGTTTAAATCTTTAA-AAACA-AA-GTTTTA
** * * * * * *
28135012 TTTTATTTTTTATTTTTAAAAAAGAGAAAGTTT-AGTGTTTGAAAAATAAAATTCTA
1 TTTT-TTTAGTAATTTT---AAAGAGAAAGTTTAAATCTTT-AAAAACAAAGTTTTA
*
28135068 TTTTTTTAGTAATTTTAAAG-GAAAGTTTAAAT-TTTTAAAACAAAGTTTTGA
1 TTTTTTTAGTAATTTTAAAGAGAAAGTTTAAATCTTTAAAAACAAAGTTTT-A
28135119 TTTTTTT
1 TTTTTTT
28135126 TAACTACTTC
Statistics
Matches: 128, Mismatches: 25, Indels: 34
0.68 0.13 0.18
Matches are distributed among these distances:
50 10 0.08
51 20 0.16
52 20 0.16
53 11 0.09
54 4 0.03
55 17 0.13
56 16 0.12
57 7 0.05
58 10 0.08
59 13 0.10
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (52 bp):
TTTTTTTAGTAATTTTAAAGAGAAAGTTTAAATCTTTAAAAACAAAGTTTTA
Found at i:28135131 original size:163 final size:162
Alignment explanation
Indices: 28134861--28135176 Score: 490
Period size: 163 Copynumber: 1.9 Consensus size: 162
28134851 AAATAGTATC
* * * *
28134861 TTTTTAAAAGGAGAAAGTTTAGATTTTTAAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAGG
1 TTTTTAAAAAGAGAAAGTTTAGATGTTTAAAAAATAAAAATATATTTTTTTAGTAATTTTAAAGG
* * * *
28134926 GAAGTTTAAATTTTTAAAACAAAGTTTTGATATTTTTTAACTATTTCAAAGTAAAAGTTTTAATC
66 AAAGTTTAAATTTTTAAAACAAAGTTTTGATATTTTTTAACTACTTCAAAATAAAAGCTTTAATC
*
28134991 TTTAAGAAAAATAATGTTTTTTTTTATTTTTTA
131 TTTAAGAAAAA-AATATTTTTTTTTATTTTTTA
* * *
28135024 TTTTTAAAAAAGAGAAAGTTTAG-TGTTTGAAAAATAAAATTCTATTTTTTTAGTAATTTTAAAG
1 TTTTT-AAAAAGAGAAAGTTTAGATGTTTAAAAAATAAAAATATATTTTTTTAGTAATTTTAAAG
*
28135088 GAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTTCAAAATAAAAGCTTTAAT
65 GAAAGTTTAAATTTTTAAAACAAAGTTTTGATATTTTTTAACTACTTCAAAATAAAAGCTTTAAT
28135153 CTTTAAGAAAAAAATATTTTTTTT
130 CTTTAAGAAAAAAATATTTTTTTT
28135177 AAAAGGAAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
162 11 0.08
163 112 0.81
164 16 0.12
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (162 bp):
TTTTTAAAAAGAGAAAGTTTAGATGTTTAAAAAATAAAAATATATTTTTTTAGTAATTTTAAAGG
AAAGTTTAAATTTTTAAAACAAAGTTTTGATATTTTTTAACTACTTCAAAATAAAAGCTTTAATC
TTTAAGAAAAAAATATTTTTTTTTATTTTTTA
Found at i:28135224 original size:32 final size:32
Alignment explanation
Indices: 28135188--28135248 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
28135178 AAAGGAAAAG
* *
28135188 GTTTAGATTTTGAAAAATAAAAATCTGTTAAA
1 GTTTAGATTTTAAAAAATAAAAATATGTTAAA
28135220 GTTTAGATTTTAAAAAATAAAAATATGTT
1 GTTTAGATTTTAAAAAATAAAAATATGTT
28135249 TTTTTAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (32 bp):
GTTTAGATTTTAAAAAATAAAAATATGTTAAA
Found at i:28136055 original size:12 final size:12
Alignment explanation
Indices: 28136025--28136057 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
28136015 TATATTTTTT
28136025 AAAATT-ATATA
1 AAAATTAATATA
28136036 AAAA-TAATATA
1 AAAATTAATATA
28136047 AAAATTAATAT
1 AAAATTAATAT
28136058 GGGTAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:28140138 original size:40 final size:40
Alignment explanation
Indices: 28140090--28140356 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
28140080 GCAAACACAT
* *
28140090 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28140130 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28140170 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28140210 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28140250 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
28140290 TTGCCTTCGGGTCTTAGCCCGGGTATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28140330 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
28140357 ATCCAATGCT
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28171707 original size:55 final size:55
Alignment explanation
Indices: 28171620--28171763 Score: 155
Period size: 55 Copynumber: 2.6 Consensus size: 55
28171610 TATATGGGCC
* * *
28171620 CACGCCCGTGTTAATTTAACAGGTTC-GACCACGGGTGCTAGACACGAGCATGTCG
1 CACGCCCGTGTTAATTTGATAGGTTCAG-CCACGGGTGCAAGACACGAGCATGTCG
* * * * *
28171675 TACGCCCGTGTTAATTTGATAGGTTCAGCCACGGGTTCAAGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTGATAGGTTCAGCCACGGGTGCAAGACACGAGCATGTCG
* ** * *
28171730 CACGCCCGTGCTGTTTTGGTAGGTTCACCCACGG
1 CACGCCCGTGTTAATTTGATAGGTTCAGCCACGG
28171764 CTATGTCACA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
55 73 0.99
56 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTGATAGGTTCAGCCACGGGTGCAAGACACGAGCATGTCG
Found at i:28177435 original size:17 final size:18
Alignment explanation
Indices: 28177413--28177447 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
28177403 TCAAATTGAA
28177413 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
28177430 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
28177448 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:28178615 original size:29 final size:29
Alignment explanation
Indices: 28178520--28178607 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
28178510 TGGCCCATCT
* * *
28178520 CATTTATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
*
28178549 CATTCATATGGCCCATTAGGCCCAAAACA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* *
28178578 TATTCATATGGCCCATTAGGCCTAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
28178607 C
1 C
28178608 CTTTATATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:28180132 original size:16 final size:16
Alignment explanation
Indices: 28180107--28180138 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28180097 AAATTCAAGT
28180107 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
28180123 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
28180139 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:28180177 original size:10 final size:10
Alignment explanation
Indices: 28180162--28180193 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
28180152 AATGTCCAAA
28180162 ATATGGATAG
1 ATATGGATAG
28180172 ATATGGATAG
1 ATATGGATAG
28180182 ATATGGATAG
1 ATATGGATAG
28180192 AT
1 AT
28180194 CATGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (10 bp):
ATATGGATAG
Found at i:28186529 original size:68 final size:68
Alignment explanation
Indices: 28186401--28186548 Score: 172
Period size: 68 Copynumber: 2.2 Consensus size: 68
28186391 AAATCAATAG
* * * * *
28186401 ATTCGGACAGCTACATTAACTAAATAAAACAGCATATATGGTAGTGCATCGAAGAATGAATTTAA
1 ATTCGGACAGCTACATTAACCAAATAAAACAACATAAATGATAGTGCATCGAAGAATGAATCTAA
28186466 CAC
66 CAC
* * * * * *
28186469 ATTCGGATAGCTACATTTACCAAATAAAACAACATAAATGAT-GATGCTTTGAATAGTGAATCTA
1 ATTCGGACAGCTACATTAACCAAATAAAACAACATAAATGATAG-TGCATCGAAGAATGAATCTA
28186533 ACAC
65 ACAC
*
28186537 ATTCGAACAGCT
1 ATTCGGACAGCT
28186549 TAATTTTAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
67 1 0.02
68 65 0.98
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (68 bp):
ATTCGGACAGCTACATTAACCAAATAAAACAACATAAATGATAGTGCATCGAAGAATGAATCTAA
CAC
Found at i:28188938 original size:57 final size:58
Alignment explanation
Indices: 28188868--28189006 Score: 235
Period size: 58 Copynumber: 2.4 Consensus size: 58
28188858 GTGCCCACTG
* *
28188868 ACCGATCTTGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
*
28188925 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
*
28188983 ACCGATCTCGCACACATAATGCTC
1 ACCGATCTCGCACACATAGTGCTC
28189007 ATATTCATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 29 0.38
58 48 0.62
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
Found at i:28188939 original size:29 final size:29
Alignment explanation
Indices: 28188902--28188998 Score: 117
Period size: 29 Copynumber: 3.3 Consensus size: 29
28188892 GGTTGAAGAA
28188902 CTCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
* ** **
28188931 CTCGCACACATAGTG-CTCGGTTAAAGGAAT
1 CTCGCACACACAGTGCCTCAATT-ACCG-AT
28188961 -TCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
28188989 CTCGCACACA
1 CTCGCACACA
28188999 TAATGCTCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 7 0.13
29 40 0.74
30 7 0.13
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAATTACCGAT
Found at i:28189199 original size:43 final size:43
Alignment explanation
Indices: 28189151--28189266 Score: 187
Period size: 43 Copynumber: 2.7 Consensus size: 43
28189141 CAGCATTATG
* **
28189151 CTAGGCACGAAGACCCGAATACACATCACTGGCACGAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
*
28189194 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
*
28189237 CTAGGCACAAAGGCCCGAATACACATCACC
1 CTAGGCACGAAGGCCCGAATACACATCACC
28189267 GAGTTTCATG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.34, C:0.34, G:0.21, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
Found at i:28192115 original size:68 final size:67
Alignment explanation
Indices: 28191978--28192134 Score: 174
Period size: 68 Copynumber: 2.3 Consensus size: 67
28191968 TTAACTGTGA
* * * *
28191978 AATC-AACAGATTCGGACAGCTACATTAACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTC-GACAGCTACATTAACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
28192042 ATG
65 ATG
* * * * *
28192045 AATTTAACACATTCAGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTC-GACAGCTACATTAACCAAATAAAACAGCATAAATGATAG-TGCATCGAAC
*
28192109 AGTG
64 AATG
28192113 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCG-ACAGCT
28192135 TAATTTTAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
67 5 0.07
68 70 0.93
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (67 bp):
AATCTAACACATTCGACAGCTACATTAACCAAATAAAACAGCATAAATGATAGTGCATCGAACAA
TG
Found at i:28194525 original size:57 final size:58
Alignment explanation
Indices: 28194455--28194593 Score: 208
Period size: 58 Copynumber: 2.4 Consensus size: 58
28194445 GTGCCCACTG
* * *
28194455 ACCGATCTTGCACACATAGTGCTCGGTTGAA-GAACTCGCACACGCAGTGCCTCAACT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAACT
* *
28194512 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAACT
* *
28194570 ATCGATCTCGCACACATAATGCTC
1 ACCGATCTCGCACACATAGTGCTC
28194594 ATATTCATTC
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 29 0.39
58 45 0.61
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAACT
Found at i:28194532 original size:29 final size:29
Alignment explanation
Indices: 28194489--28194585 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
28194479 GGTTGAAGAA
* * *
28194489 CTCGCACACGCAGTGCCTCAACTACCGAT
1 CTCGCACACACAGTGCCTCAATTAACGAT
* ** *
28194518 CTCGCACACATAGTG-CTCGGTTAAAGGAAT
1 CTCGCACACACAGTGCCTCAATT-AACG-AT
*
28194548 -TCGCACACACAGTGCCTCAATTATCGAT
1 CTCGCACACACAGTGCCTCAATTAACGAT
28194576 CTCGCACACA
1 CTCGCACACA
28194586 TAATGCTCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 6 0.12
29 39 0.75
30 7 0.13
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAATTAACGAT
Found at i:28194786 original size:43 final size:43
Alignment explanation
Indices: 28194736--28194854 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
28194726 ACCAACATTA
* * *
28194736 TGCTAGGCACGAAGACCCGACTACACATCACTGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
28194779 -GACTAGGCACGAAGGCCCCAATACACATCACCGGCACGAAGCC
1 TG-CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
28194822 TGCTAGGCACAAAGGCCCGAATACACATCACCG
1 TGCTAGGCACGAAGGCCCGAATACACATCACCG
28194855 AGTTTCATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 66 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.35, G:0.23, T:0.10
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:28197471 original size:39 final size:40
Alignment explanation
Indices: 28197371--28197555 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
28197361 TCGAATGATG
* * *
28197371 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
28197410 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * *
28197451 TTCGGGCTAAG-CCCGAAGGCATTGGTACGATTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
28197490 TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
28197529 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
28197556 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:28197577 original size:79 final size:79
Alignment explanation
Indices: 28197424--28197578 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
28197414 GGACTAAGAT
* ** * *
28197424 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTACGATTTACTAA
1 CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGATGTACTAA
28197489 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
28197503 CCGAAGGCATTTGTGAGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA-GTAGC
1 CCGAAGGCATTTGTGAGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGATGTA-C
*
28197566 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
28197579 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGATGTACTAA
ATCCGGGTTAAGTC
Found at i:28205618 original size:40 final size:39
Alignment explanation
Indices: 28205428--28205618 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
28205418 CGAATGATGT
* * * * *
28205428 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTA-AA
* * *
28205468 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAA-A
*
28205508 CCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
** * *
28205546 TTTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
28205587 CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
28205619 AGCTATATCC
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 32 0.26
40 83 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:28205633 original size:79 final size:79
Alignment explanation
Indices: 28205480--28205634 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
28205470 GGACTAAGAT
* *
28205480 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
**
28205545 ATTTGGGTTAAGTC
66 ATTCCGGTTAAGTC
* *
28205559 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
28205622 TATA-TCCGGTTAA
63 TAAATTCCGGTTAA
28205635 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 42 0.64
80 22 0.33
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAGTC
Found at i:28209015 original size:68 final size:68
Alignment explanation
Indices: 28208884--28209040 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
28208874 TTAACTGTGA
* * * *
28208884 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAATA
1 AATCGAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAATA
28208948 ATG
66 ATG
** * * *
28208951 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAATAGCATAAATGAT-GATGCTTTGAAT
1 AATCGAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAT
*
28209015 AGTG
65 AATG
*
28209019 AATCGAACACATTCGAACAGCT
1 AATCGAACACATTCGGACAGCT
28209041 TAATTTTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.05
68 72 0.95
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (68 bp):
AATCGAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAATA
ATG
Found at i:28211813 original size:11 final size:11
Alignment explanation
Indices: 28211797--28211822 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28211787 CGAAGCCCAC
28211797 ATCACAATAAT
1 ATCACAATAAT
28211808 ATCACAATAAT
1 ATCACAATAAT
28211819 ATCA
1 ATCA
28211823 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:28212308 original size:27 final size:27
Alignment explanation
Indices: 28212278--28212356 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
28212268 AAGGGCAAAA
*
28212278 CAGTCATTTTACCCTACAAGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
*
28212305 CAGTCATTTTACACTACAAGGGTATTT
1 CAGTCATTTTACACTACAAGGGTATGT
* * *
28212332 CGGTAATTTTACACTATAAGGGTAT
1 CAGTCATTTTACACTACAAGGGTAT
28212357 TTCGATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:28212357 original size:27 final size:26
Alignment explanation
Indices: 28212295--28212475 Score: 164
Period size: 27 Copynumber: 6.7 Consensus size: 26
28212285 TTTACCCTAC
* * * * *
28212295 AAGGGTATGTCAGTCATTTTACACTAC
1 AAGGGTATTTCGGTAATTTTACA-AAT
*
28212322 AAGGGTATTTCGGTAATTTTACACTAT
1 AAGGGTATTTCGGTAATTTTACA-AAT
*
28212349 AAGGGTATTTCGATAATTTTACAAAT
1 AAGGGTATTTCGGTAATTTTACAAAT
* * *
28212375 CAGGGGTGTTTCAGTAATTTTACAAAT
1 -AAGGGTATTTCGGTAATTTTACAAAT
* **
28212402 CGAGGGTATTTTAGTAATTTTACAAAT
1 -AAGGGTATTTCGGTAATTTTACAAAT
*
28212429 CGAGGGTATTTCGGTAATTTTACAAATT
1 -AAGGGTATTTCGGTAATTTTACAAA-T
* *
28212457 GAGGGTATTTTGGTAATTT
1 AAGGGTATTTCGGTAATTT
28212476 CTCTTTATTA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
AAGGGTATTTCGGTAATTTTACAAAT
Found at i:28212452 original size:54 final size:52
Alignment explanation
Indices: 28212323--28212475 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 52
28212313 TTACACTACA
* * *
28212323 AGGGTATTTCGGTAATTTTACACTATAAGGGTA-TTTCGATAATTTTACAAATC
1 AGGGTATTTCGGTAATTTTACA-AATGAGGGTATTTTAG-TAATTTTACAAATC
* *
28212376 AGGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATC
1 A-GGGTATTTCGGTAATTTTACAAAT-GAGGGTATTTTAGTAATTTTACAAATC
*
28212430 GAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTGGTAATTT
1 -AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTTAGTAATTT
28212476 CTCTTTATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
53 3 0.03
54 78 0.90
55 6 0.07
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (52 bp):
AGGGTATTTCGGTAATTTTACAAATGAGGGTATTTTAGTAATTTTACAAATC
Found at i:28212475 original size:81 final size:81
Alignment explanation
Indices: 28212297--28212455 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
28212287 TACCCTACAA
* * * * * *
28212297 GGGTATGTCAGTCATTTTAC-ACTACAAGGGTATTTCGGTAATTTTACACTATAAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACACAATAAGGGTATTTCG
28212361 ATAATTTTACAAATCAG
65 ATAATTTTACAAATCAG
* * *
28212378 GGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACA-AATCGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACACAAT-AAGGGTATTTCG
*
28212442 GTAATTTTACAAAT
65 ATAATTTTACAAAT
28212456 TGAGGGTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.94
82 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACACAATAAGGGTATTTCGA
TAATTTTACAAATCAG
Found at i:28212828 original size:32 final size:32
Alignment explanation
Indices: 28212792--28212855 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
28212782 GGGCCCCTTT
* *
28212792 AGGCCCAATCTCACTCACATGGCCTATCAGGC
1 AGGCCCAATCACACTCACATGGCCCATCAGGC
* *
28212824 AGGCCCAATCACATTCATATGGCCCATCAGGC
1 AGGCCCAATCACACTCACATGGCCCATCAGGC
28212856 CCAACTACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.19
Consensus pattern (32 bp):
AGGCCCAATCACACTCACATGGCCCATCAGGC
Found at i:28223441 original size:43 final size:42
Alignment explanation
Indices: 28223379--28223493 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
28223369 TACAACGCCG
* * *
28223379 ATGTCCCGGAC-GTGGTCTTACATGTAATTCA-ATATTGATGCCT
1 ATGTCCCAGACAG-GGTCTTACA-GTAATTCAGATA-CGATGCCA
* ** *
28223422 CTGTCCCAGACAGGGTCTTACACAAAATCAGATACGATGCCA
1 ATGTCCCAGACAGGGTCTTACAGTAATTCAGATACGATGCCA
*
28223464 ATGTCCCAGACATGGTCTTACACGTAATTC
1 ATGTCCCAGACAGGGTCTTACA-GTAATTC
28223494 TCAAATCGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 31 0.54
43 25 0.44
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGTCCCAGACAGGGTCTTACAGTAATTCAGATACGATGCCA
Found at i:28225819 original size:20 final size:20
Alignment explanation
Indices: 28225794--28225831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28225784 GTCACATATA
28225794 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
28225814 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
28225832 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:28260909 original size:18 final size:18
Alignment explanation
Indices: 28260886--28260927 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
28260876 CTAAATCGTC
*
28260886 GAGATGCCATCGTCAGTT
1 GAGATGCCAACGTCAGTT
**
28260904 GAGATGGGAACGTCAGTT
1 GAGATGCCAACGTCAGTT
28260922 GAGATG
1 GAGATG
28260928 GGAAGAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (18 bp):
GAGATGCCAACGTCAGTT
Found at i:28260928 original size:18 final size:18
Alignment explanation
Indices: 28260896--28260931 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
28260886 GAGATGCCAT
28260896 CGTCAGTTGAGATGGGAA
1 CGTCAGTTGAGATGGGAA
28260914 CGTCAGTTGAGATGGGAA
1 CGTCAGTTGAGATGGGAA
28260932 GAGAAGCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (18 bp):
CGTCAGTTGAGATGGGAA
Found at i:28261214 original size:63 final size:62
Alignment explanation
Indices: 28261115--28261239 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 62
28261105 TGACCAATCA
28261115 TTTCTTCGGTGGGTGGGTGTAACGACACTCTTTTCTTTACTAATTATCATCAACACATTTTTT
1 TTTCTTCGGTGGGTGGGTGTAACGACACTCTTTTCTTTACTAATTATCATCAACAC-TTTTTT
*
28261178 TTTCTTCGGTGGGTGGGTGTAATGACACTCTTTTCTTTACTAATTATCATCAACACTTTTTT
1 TTTCTTCGGTGGGTGGGTGTAACGACACTCTTTTCTTTACTAATTATCATCAACACTTTTTT
28261240 ACTTTAAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 6 0.10
63 55 0.90
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (62 bp):
TTTCTTCGGTGGGTGGGTGTAACGACACTCTTTTCTTTACTAATTATCATCAACACTTTTTT
Found at i:28265140 original size:18 final size:21
Alignment explanation
Indices: 28265098--28265140 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
28265088 AAATTGCCAT
*
28265098 GATGTCATGACACTAGAATTA
1 GATGTCATGACACTAGAACTA
28265119 GATGTCA-GACACT-G-ACTA
1 GATGTCATGACACTAGAACTA
28265137 GATG
1 GATG
28265141 CTGCAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 6 0.29
21 7 0.33
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (21 bp):
GATGTCATGACACTAGAACTA
Found at i:28270882 original size:29 final size:30
Alignment explanation
Indices: 28270828--28270887 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
28270818 ACCCTAAGTA
28270828 TAAATACAAATTTTTATTGTATTTTTCAGC
1 TAAATACAAATTTTTATTGTATTTTTCAGC
*
28270858 TAAATACAATTTTTTATTGTATTTTTCAGC
1 TAAATACAAATTTTTATTGTATTTTTCAGC
28270888 CTTTAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.52
Consensus pattern (30 bp):
TAAATACAAATTTTTATTGTATTTTTCAGC
Found at i:28270932 original size:33 final size:33
Alignment explanation
Indices: 28270893--28270958 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
28270883 TCAGCCTTTA
28270893 ATTCAATTTTCCCCTACCTTAGTCGTTCACCCT
1 ATTCAATTTTCCCCTACCTTAGTCGTTCACCCT
28270926 ATTCAATTTTCCCCTACCTTAGTCGTTCACCCT
1 ATTCAATTTTCCCCTACCTTAGTCGTTCACCCT
28270959 CTTCCTCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.36, G:0.06, T:0.39
Consensus pattern (33 bp):
ATTCAATTTTCCCCTACCTTAGTCGTTCACCCT
Found at i:28272691 original size:40 final size:40
Alignment explanation
Indices: 28272637--28272830 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
28272627 GATATAGCTT
*
28272637 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
28272677 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
28272717 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
28272757 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
28272797 CTCGCACAAATGCCTTCGAG-CTTAGCCTGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
28272831 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 133 0.92
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:28276737 original size:30 final size:29
Alignment explanation
Indices: 28276687--28276743 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
28276677 GCCTTAAGTA
28276687 GCCGAAGCTAGTTAAATCGCACACTTACT
1 GCCGAAGCTAGTTAAATCGCACACTTACT
*
28276716 GCCGAAGCTAGTTTGAATCGCACACTTA
1 GCCGAAGCTAG-TTAAATCGCACACTTA
28276744 GTACCAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (29 bp):
GCCGAAGCTAGTTAAATCGCACACTTACT
Found at i:28276754 original size:30 final size:29
Alignment explanation
Indices: 28276691--28276754 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
28276681 TAAGTAGCCG
* *
28276691 AAGCTAGTTAAATCGCACACTTACTGCCG
1 AAGCTAGTTAAATCGCACACTTACTACCA
* *
28276720 AAGCTAGTTTGAATCGCACACTTAGTACCA
1 AAGCTAG-TTAAATCGCACACTTACTACCA
28276750 AAGCT
1 AAGCT
28276755 TCTGATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTACTACCA
Found at i:28277769 original size:13 final size:13
Alignment explanation
Indices: 28277751--28277775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28277741 ACAAGCAGTT
28277751 AAATTTTCACACG
1 AAATTTTCACACG
28277764 AAATTTTCACAC
1 AAATTTTCACAC
28277776 ATGTCAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:28283978 original size:30 final size:29
Alignment explanation
Indices: 28283935--28283998 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
28283925 CAAGTAGCCG
28283935 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
28283964 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
28283994 AAGCT
1 AAGCT
28283999 TCCAATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:28291497 original size:20 final size:20
Alignment explanation
Indices: 28291474--28291512 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28291464 ATGAATGACA
28291474 CATGAGCTAAGAA-AATGAAT
1 CATG-GCTAAGAAGAATGAAT
*
28291494 CATGGCTAATAAGAATGAA
1 CATGGCTAAGAAGAATGAA
28291513 CAAAGCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (20 bp):
CATGGCTAAGAAGAATGAAT
Found at i:28293191 original size:18 final size:19
Alignment explanation
Indices: 28293156--28293193 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
28293146 AGAATTGGCC
28293156 AAATGGGCCGGAATGGGCT
1 AAATGGGCCGGAATGGGCT
*
28293175 AAATGGGCCTG-ATGGGCT
1 AAATGGGCCGGAATGGGCT
28293193 A
1 A
28293194 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.16, G:0.39, T:0.18
Consensus pattern (19 bp):
AAATGGGCCGGAATGGGCT
Found at i:28293315 original size:29 final size:29
Alignment explanation
Indices: 28293273--28293384 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
28293263 ATCATATGAT
* *
28293273 TTGGGCCTAATGGTCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* * *
28293302 TTGGGCCTAGTGGTCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
*
28293331 CTGGGCC-AGATGGGCCATATGAA--TGACA
1 TTGGGCCTAG-TGGGCCATATGAATGTGA-A
* *
28293359 TTGGGCCCAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
28293385 ATGTAGGGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
27 3 0.04
28 21 0.30
29 45 0.64
30 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:28296939 original size:14 final size:15
Alignment explanation
Indices: 28296903--28296943 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
28296893 GTGCCAAAAC
28296903 ATACCACAATTCAAA
1 ATACCACAATTCAAA
* *
28296918 ATA-TACAATTC-GA
1 ATACCACAATTCAAA
28296931 ATACCACAATTCA
1 ATACCACAATTCA
28296944 TAATCAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 4 0.19
14 14 0.67
15 3 0.14
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (15 bp):
ATACCACAATTCAAA
Found at i:28299599 original size:68 final size:67
Alignment explanation
Indices: 28299522--28299671 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
28299512 CATAATGTGT
* * * *
28299522 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
28299584 ATGTAG
62 ATGTAG
** * *
28299590 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
28299655 AG
66 AG
28299657 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
28299672 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:28299627 original size:64 final size:64
Alignment explanation
Indices: 28299546--28299729 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
28299536 AGACATTATG
* *
28299546 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
28299610 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
28299675 AA
63 AA
* * * * *
28299677 ACTG--GCTAGGTCACATGGGTGGTAGTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
28299730 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 7 0.07
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:28301676 original size:45 final size:45
Alignment explanation
Indices: 28301627--28301718 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
28301617 CGACAAATTC
*
28301627 CCATAGTGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
1 CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
* ** * * *
28301672 CCATAGCGTCTTTTAGCTATGGTCTTATTCGTTTTTGTCATGTTG
1 CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
28301717 CC
1 CC
28301719 TTAACTGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (45 bp):
CCATAGCGTCTTTCAAATACGGTCTTATTCATTTTCGTCATGTTG
Found at i:28302564 original size:180 final size:180
Alignment explanation
Indices: 28302283--28302639 Score: 493
Period size: 180 Copynumber: 2.0 Consensus size: 180
28302273 GAGCTACAGA
* * * *
28302283 ACTCCAAATTAAGATCCGTTAATTTTTCCAAAAACTATACTCACATATATTCTTATCACAAAATT
1 ACTCCAAATTAAGAACCGCTAATTTTTCCAAAAACTAGACTCACATATATTCTTACCACAAAATT
* * * * * *
28302348 TTCAGAATTTTTTGTTTACCAAATTAGTACAGTTTATTCATTAAAGTTACTCCTATTCCACTATC
66 TTCAGAATTTTTAGTTTACCAAATCAGCAAAGTTTATTCATTAAAGATACCCCTATTCCACTATC
28302413 TAACAATTCCGACCTCTATTCACTAAAAATTATTTATCTCATGGTACGGG
131 TAACAATTCCGACCTCTATTCACTAAAAATTATTTATCTCATGGTACGGG
* *
28302463 ACTCCAAATTAAGAACCGCTAATTTTAT-CATAAACTAGACTCACATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACCGCTAATTTT-TCCAAAAACTAGACTCACATATATTCTTACCACAAAAT
* * *
28302527 TTTCAGAATTTTTAGTTTATCC-AATCAGCAAAGTTTATTCATTAGAGATACCCCTATTTCACTG
65 TTTCAGAATTTTTAGTTTA-CCAAATCAGCAAAGTTTATTCATTAAAGATACCCCTATTCCACTA
* * * * * *
28302591 TCTGACAGTTCTGATCTTTTTTCACTAAAAATTATTTATCTCATGGTAC
129 TCTAACAATTCCGACCTCTATTCACTAAAAATTATTTATCTCATGGTAC
28302640 AGGTCTCAGA
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
180 151 0.98
181 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCGCTAATTTTTCCAAAAACTAGACTCACATATATTCTTACCACAAAATT
TTCAGAATTTTTAGTTTACCAAATCAGCAAAGTTTATTCATTAAAGATACCCCTATTCCACTATC
TAACAATTCCGACCTCTATTCACTAAAAATTATTTATCTCATGGTACGGG
Found at i:28306839 original size:179 final size:181
Alignment explanation
Indices: 28306561--28306894 Score: 485
Period size: 179 Copynumber: 1.9 Consensus size: 181
28306551 GATCCGTTAA
* * *
28306561 TTTTTCTAGAAATTATACTCACATATATTCTTACCATAAAATTTTAATAATTTTTGGTTTAGCCA
1 TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTTAATAATTTTTAGTTTAGCCA
* * ** * * *
28306626 TTTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTATCCAATAGTTCCGACCTCTCTTCA
66 ATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTCA
28306691 CT-AAAATTAGTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
131 CTAAAAATTAGTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
* *
28306741 TTTTTC-AGAAACTAGACTCATATATATTCTTACCATAAAATTTTCAA-AATTTTTAGTTTATCC
1 TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTT-AATAATTTTTAGTTTAGCC
* * * *
28306804 AATTAGTAAATTTTATTCATTAAAAATACCCCTATTTCACTATCTAACAATTCCAATCTTTCTTC
65 AATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTC
*
28306869 ACTAAAAATTATTTATCTCATGGTAC
130 ACTAAAAATTAGTTATCTCATGGTAC
28306895 AGATCTCTGA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
179 106 0.79
180 29 0.21
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (181 bp):
TTTTTCTAGAAACTAGACTCACATATATTCTTACCATAAAATTTTAATAATTTTTAGTTTAGCCA
ATTAGTAAAGTTTATTCATTAAAAATACCCCTATTTCACTATCCAACAATTCCAACCTCTCTTCA
CTAAAAATTAGTTATCTCATGGTACGAGACTCCAAATTGAGAATCCCTAGT
Found at i:28307538 original size:50 final size:50
Alignment explanation
Indices: 28307464--28307847 Score: 337
Period size: 50 Copynumber: 7.6 Consensus size: 50
28307454 TTGGTACGCA
* *
28307464 TAGTAGTCTGCACTTAGTACTACACATGTGACCTATCAATCTGGA-ACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT-GATACACG
* ** * * * *
28307514 TAGTAGGCTATACTTAGTACTACACATGTGACTTATCCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
* * * * *
28307564 TAGTAGCCTGCACTTAGTACTACACATGTGATC-AA-AGT-TAACAGGTACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATA--CACG
* * *
28307613 TAAAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 T--AGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
* * * ** * * * * *
28307665 TAGTAGCCTGCACTTAGTACGACAGACGTGATCAAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTGATACACG
*
28307716 TAGTAGCCTGCTCTTAGTACTACACATGTGACCTAACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
* * * * *
28307766 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTGATACACG
* *
28307818 TAGTAGCCTGCA-TACAGTACTACAGATGTG
1 TAGTAGCCTGCACT-TAGTACTACACATGTG
28307848 TTCTCACAAT
Statistics
Matches: 266, Mismatches: 56, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 6 0.02
50 140 0.53
51 69 0.26
52 43 0.16
53 1 0.00
54 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
Found at i:28307655 original size:101 final size:101
Alignment explanation
Indices: 28307515--28307806 Score: 404
Period size: 101 Copynumber: 2.9 Consensus size: 101
28307505 TGGAACACGT
* * * * *
28307515 AGTAGGCTATACTTAGTACTACACATGTGACTTATCCATCTGATACATGTAGTAGCCTGCACTTA
1 AGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
* ** *
28307580 GTACTACACATGTGATCAAAGTTAACAGGTACGTAA
66 GTACTACACACGTGATCAAAACTAACAGGTACGCAA
*
28307616 AGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
1 AGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
* * * * *
28307681 GTACGACAGACGTGATCAAAACTATCGGGTACGCAT
66 GTACTACACACGTGATCAAAACTAACAGGTACGCAA
* * *
28307717 AGTAGCCTGCTCTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTA
1 AGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
*
28307782 GTACTACACACGTGACCTAAAACTA
66 GTACTACACACGTGATC-AAAACTA
28307807 TCTTAAACAC
Statistics
Matches: 168, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
101 161 0.96
102 7 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (101 bp):
AGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGATCAAAACTAACAGGTACGCAA
Done.