Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 16 of 311
Found at i:4381388 original size:44 final size:44
Alignment explanation
Indices: 4381317--4381826 Score: 288
Period size: 44 Copynumber: 11.6 Consensus size: 44
4381307 ATTCAGAAGC
*
4381317 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * * * *** *
4381361 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGGCT
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAAGAT
* ** *
4381406 -TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTAC-AGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* *
4381448 CTTAAACCCCTAAGCAGTATGGTAACAGGCTAAATTTACAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * * * * **
4381492 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAA-ATA-ATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAAATTTACAAGAT
* * *
4381535 CTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTAC-AGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * ** * * *
4381579 TTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAA-GAAGATGAGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAAGA-T
4381623 CTTGAA-CCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * *** *
4381667 CTTATCTCCCTAAACAGTAGGGTAACAGGCTGAAGAGCGACGAG-T
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAAGAT
* * ** * ** * ** *
4381712 CTTAACCCCTTAAGCAGTAGGGAAACAAATCGAAGGTGATGAGCT
1 CTTAACCCCCTAAGCAGTAGGGTAAC-AGGCTAAATTTACAAGAT
* * * *
4381757 -TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTGC-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * *
4381799 CTTAAACCCCTAAGTAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
4381827 ATCAAAGAGG
Statistics
Matches: 342, Mismatches: 103, Indels: 43
0.70 0.21 0.09
Matches are distributed among these distances:
42 8 0.02
43 99 0.29
44 181 0.53
45 46 0.13
46 8 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
Found at i:4381506 original size:87 final size:87
Alignment explanation
Indices: 4381445--4381694 Score: 326
Period size: 87 Copynumber: 2.9 Consensus size: 87
4381435 CGAATTTACA
*
4381445 GACCTTAAACCCCTAAGCAGTATGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGT
1 GACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGT
4381510 AGGGAAACAGATCGAAAATAAT
66 AGGGAAACAGATCGAAAATAAT
* * * * * * * * *
4381532 GGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTAC-AGATTTTAACCCCCTAAGCAG
1 -GACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAG
4381596 TAGGGAAACAGATC-AAAGA-AGAT
65 TAGGGAAACAGATCGAAA-ATA-AT
* *
4381619 GAGCCTTGAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAACAG
1 GA-CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAG
*
4381684 TAGGGTAACAG
65 TAGGGAAACAG
4381695 GCTGAAGAGC
Statistics
Matches: 136, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
86 5 0.04
87 69 0.51
88 62 0.46
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (87 bp):
GACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGT
AGGGAAACAGATCGAAAATAAT
Found at i:4381539 original size:131 final size:131
Alignment explanation
Indices: 4381316--4381606 Score: 474
Period size: 131 Copynumber: 2.2 Consensus size: 131
4381306 AATTCAGAAG
*
4381316 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
* *
4381381 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
66 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
4381446 A
131 A
* *
4381447 CCTTAAACCCCTAAGCAGTATGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
* ** *
4381512 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAG
66 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
4381577 A
131 A
** *
4381578 TTTTAACCCCCTAAGCAGTAGGGAAACAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAG
4381607 ATCAAAGAAG
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 146 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (131 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
A
Found at i:4381634 original size:131 final size:131
Alignment explanation
Indices: 4381316--4381650 Score: 388
Period size: 131 Copynumber: 2.6 Consensus size: 131
4381306 AATTCAGAAG
* * * ** * *
4381316 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAATGAACAAGACCTTAACTCCCTAAGCAGTAG
* *
4381381 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
66 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
4381446 A
131 A
* * ** * *
4381447 CCTTAAACCCCTAAGCAGTATGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAATGAACAAGACCTTAACTCCCTAAGCAGTAG
* ** *
4381512 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAG
66 GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
4381577 A
131 A
** * * * *
4381578 TTTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAA-GAAGATGAGCCTTGAAC-CCCTAAGCAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCT-AAATGAACAAGA-CCTT-AACTCCCTAAGCAG
*
4381640 TAGGGTAACAG
63 TAGGGAAACAG
4381651 GCTAAATTTA
Statistics
Matches: 179, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
130 6 0.03
131 171 0.96
132 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (131 bp):
CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAATGAACAAGACCTTAACTCCCTAAGCAGTAG
GGAAACAGATCGAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAG
A
Found at i:4381849 original size:87 final size:87
Alignment explanation
Indices: 4381674--4381869 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 87
4381664 GATCTTATCT
* * **
4381674 CCCTAAACAGTAGGGTAACAGGCTGAA-GAGCGACGAGTCTTAACCCCTTAAGCAGTAGGGAAAC
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTTGC-A-GA-TCTTAACCCCTTAAGCAGTAGGGAAAC
* *
4381738 AAATCGAAGGTGATGAGCTTTAACC
63 AAATCAAAGGTGATGAGCCTTAACC
* * *
4381763 CCCTAAGTAGTAGGGTAACAAGCTGAATTTGCAGATCTTAAACCCC-TAAGTAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTTGCAGATCTT-AACCCCTTAAGCAGTAGGGAAACAA
*
4381827 ATCAAAGAG-GATGGGCCTTAACC
65 ATCAAAG-GTGATGAGCCTTAACC
**
4381850 CTTTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
4381870 GGGTAAAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
87 55 0.60
88 9 0.10
89 25 0.27
90 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAAGCTGAATTTGCAGATCTTAACCCCTTAAGCAGTAGGGAAACAAA
TCAAAGGTGATGAGCCTTAACC
Found at i:4382269 original size:38 final size:38
Alignment explanation
Indices: 4382227--4382301 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
4382217 TTTCATTCAG
4382227 CCCATTTTACAACTTTTGACCCAAACACAAAACCCAAA
1 CCCATTTTACAACTTTTGACCCAAACACAAAACCCAAA
4382265 CCCATTTTACAACTTTTGACCCAAACACAAAACCCAA
1 CCCATTTTACAACTTTTGACCCAAACACAAAACCCAA
4382302 TCTGAACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.35, G:0.03, T:0.21
Consensus pattern (38 bp):
CCCATTTTACAACTTTTGACCCAAACACAAAACCCAAA
Found at i:4385412 original size:3 final size:3
Alignment explanation
Indices: 4385404--4385457 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
4385394 TTTATTTGTG
** *
4385404 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA CCA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
4385450 CTA TTA TT
1 TTA TTA TT
4385458 TTTACTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4385462 original size:12 final size:12
Alignment explanation
Indices: 4385405--4385463 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 12
4385395 TTATTTGTGT
*
4385405 TATTATTATTAT
1 TATTATTATTAC
4385417 TATTATTATTA-
1 TATTATTATTAC
4385428 T-TTATTATTAC
1 TATTATTATTAC
* *
4385439 CACTATTATTAC
1 TATTATTATTAC
*
4385451 TATTATTTTTAC
1 TATTATTATTAC
4385463 T
1 T
4385464 TTTTGCTACC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 30 0.75
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:4385548 original size:12 final size:12
Alignment explanation
Indices: 4385506--4385559 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
4385496 GTCATTTTCT
* *
4385506 ATTACTATTGTC
1 ATTATTATTATC
4385518 ATTATTATTAATAC
1 ATTATTATT-AT-C
4385532 TATTATTATTATC
1 -ATTATTATTATC
*
4385545 ATTAGTATTATC
1 ATTATTATTATC
4385557 ATT
1 ATT
4385560 TTTTGCTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 22 0.61
13 2 0.06
14 3 0.08
15 9 0.25
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:4389228 original size:38 final size:38
Alignment explanation
Indices: 4389166--4389266 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 38
4389156 ATTTGATGTG
4389166 TATCCGGGCTTAAAGAT-CCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGG-TT-AA-ATCCCGCAGGCT-TCATGCTAGAATTA
* * *
4389206 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
*
4389244 TATCAGGGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
4389267 CTTGTGCTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
37 3 0.05
38 42 0.76
39 2 0.04
40 8 0.15
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
Found at i:4389274 original size:38 final size:38
Alignment explanation
Indices: 4389202--4389322 Score: 154
Period size: 38 Copynumber: 3.1 Consensus size: 38
4389192 ATATGCTAGA
*
4389202 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGT
4389240 ATTATATCAGGGTTAAATCCCGCAGGCCTT-GTGCTGGT
1 ATTATATCAGGGTTAAATCCCGCAGG-CTTCGTGCTGGT
* * * *
4389278 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGTTGGT
1 ATTATATC-AGGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
4389318 GTTAT
1 ATTAT
4389323 TTTCGGGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
38 41 0.56
39 13 0.18
40 19 0.26
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (38 bp):
ATTATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:4390927 original size:43 final size:43
Alignment explanation
Indices: 4390866--4391044 Score: 286
Period size: 43 Copynumber: 4.2 Consensus size: 43
4390856 GCATGAAACT
*
4390866 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGCGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
4390909 CGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
4390952 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * * **
4390995 CAGTAATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
4391038 CGGTGAT
1 CGGTGAT
4391045 TCGAGCAAGG
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:4391267 original size:58 final size:58
Alignment explanation
Indices: 4391198--4391366 Score: 277
Period size: 58 Copynumber: 2.9 Consensus size: 58
4391188 CGAATGATTA
*
4391198 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
4391256 GAGGCACTGTGTGTGCGAATTCCTTTAACCAAGCACTATGTGTGCGAGATCGATAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * *
4391314 GAGGCATTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
4391367 CAGTGGGCAC
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 29 0.28
58 74 0.72
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:4391301 original size:29 final size:29
Alignment explanation
Indices: 4391201--4391302 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
4391191 ATGATTAGAG
* * *
4391201 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATTCCTTTAACCAA
** ** *
4391230 GCACTATGTGTGCGAGA-T-CGGTAATTGAG
1 GCACTATGTGTGCGA-ATTCCTTTAA-CCAA
*
4391259 GCACTGTGTGTGCGAATTCCTTTAACCAA
1 GCACTATGTGTGCGAATTCCTTTAACCAA
4391288 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
4391303 GATCGATAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
28 5 0.09
29 44 0.81
30 5 0.09
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAATTCCTTTAACCAA
Found at i:4391326 original size:29 final size:29
Alignment explanation
Indices: 4391230--4391332 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
4391220 CTTTAACCGA
* *
4391230 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTGTGTGTGCGAGATCGATAATTGAG
** ** *
4391259 GCACTGTGTGTGCGA-ATTCCTTTAA-CCAA
1 GCACTGTGTGTGCGAGA-T-CGATAATTGAG
*
4391288 GCACTATGTGTGCGAGATCGATAATTGAG
1 GCACTGTGTGTGCGAGATCGATAATTGAG
*
4391317 GCATTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
4391333 TTCTTCAACC
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 5 0.09
29 46 0.82
30 5 0.09
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGATAATTGAG
Found at i:4394984 original size:38 final size:38
Alignment explanation
Indices: 4394926--4395024 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
4394916 ATTTGATGTG
**
4394926 TATCCGGGCTTAAAGACCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGG-TTAAATCCCGCAGGCT-TCATGCTAGAATTA
* * *
4394965 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
4395003 TAT-CGGGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
4395025 CTAGTGCTGG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 20 0.37
38 26 0.48
39 8 0.15
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
Found at i:4395019 original size:37 final size:37
Alignment explanation
Indices: 4394961--4395088 Score: 157
Period size: 37 Copynumber: 3.4 Consensus size: 37
4394951 ATATGCTAGA
4394961 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATAT-CGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
4394999 ATTATATCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
4395036 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC--GGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
* *
4395076 GTTATTTCGGGTT
1 ATTATATCGGGTT
4395089 TTATACCTCG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
37 36 0.47
38 10 0.13
39 6 0.08
40 24 0.32
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (37 bp):
ATTATATCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:4397306 original size:13 final size:13
Alignment explanation
Indices: 4397282--4397320 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
4397272 TTAGATTAAA
4397282 ATTATA-TATTTT
1 ATTATATTATTTT
4397294 ATTATATTATTTT
1 ATTATATTATTTT
*
4397307 AATATATTAATTTT
1 ATTATATT-ATTTT
4397321 TGTTATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATATTATTTT
Found at i:4398006 original size:59 final size:59
Alignment explanation
Indices: 4397934--4398054 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
4397924 TATGAATAAT
4397934 AATCAAATTCATACAAATGTAAATTTGTTATTTTATTTCTCAAGTTTCTATTATAAAAA
1 AATCAAATTCATACAAATGTAAATTTGTTATTTTATTTCTCAAGTTTCTATTATAAAAA
4397993 AATCAAATTCATACAAATGTAAATTTGTTATTTTATTTCTCAAGTTTCTATTATAAAAA
1 AATCAAATTCATACAAATGTAAATTTGTTATTTTATTTCTCAAGTTTCTATTATAAAAA
4398052 AAT
1 AAT
4398055 TAACTATCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (59 bp):
AATCAAATTCATACAAATGTAAATTTGTTATTTTATTTCTCAAGTTTCTATTATAAAAA
Found at i:4400344 original size:15 final size:14
Alignment explanation
Indices: 4400324--4400353 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4400314 AAATCTGGTG
4400324 GTGTTGTTGTGTAGA
1 GTGTTGTTG-GTAGA
4400339 GTGTTGTTGGTAGA
1 GTGTTGTTGGTAGA
4400353 G
1 G
4400354 CTTTTCCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
GTGTTGTTGGTAGA
Found at i:4421836 original size:3 final size:3
Alignment explanation
Indices: 4421828--4421915 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
4421818 GTATGTCCAT
4421828 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
4421876 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC AT- TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4421916 TTTTGCTACC
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 1 0.01
3 81 0.99
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4425067 original size:28 final size:28
Alignment explanation
Indices: 4425010--4425072 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
4425000 TAAAATTTAA
*
4425010 AAAAATATTTTTTTAAAATTTTATATTTTT
1 AAAAATA--TTTTTAAAATTTTATAATTTT
* *
4425040 TAAAATATTTTTAATGATTTT-TAATTTT
1 AAAAATATTTTTAA-AATTTTATAATTTT
4425068 AAAAA
1 AAAAA
4425073 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 17 0.61
29 5 0.18
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
AAAAATATTTTTAAAATTTTATAATTTT
Found at i:4425338 original size:22 final size:22
Alignment explanation
Indices: 4425311--4425352 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4425301 CCCACATTTC
4425311 TAATAATC-TTTTATTAATATTA
1 TAATAATCTTTTTA-TAATATTA
4425333 TAATAATCTTTTTATAATAT
1 TAATAATCTTTTTATAATAT
4425353 CATTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAATCTTTTTATAATATTA
Found at i:4425772 original size:24 final size:24
Alignment explanation
Indices: 4425730--4425780 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4425720 TATTTTATTT
* *
4425730 AATTTATTGATAATCTAA-TAGTAA
1 AATTTAATGATAATATAATTAG-AA
*
4425754 AATTTAATGATATTATAATTAGAA
1 AATTTAATGATAATATAATTAGAA
4425778 AAT
1 AAT
4425781 AATTAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (24 bp):
AATTTAATGATAATATAATTAGAA
Found at i:4435955 original size:11 final size:11
Alignment explanation
Indices: 4435939--4435969 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4435929 TGAAGGAAAA
*
4435939 GACCATGGTTG
1 GACCATGGCTG
4435950 GACCATGGCTG
1 GACCATGGCTG
4435961 GACCATGGC
1 GACCATGGC
4435970 AACAAGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (11 bp):
GACCATGGCTG
Found at i:4436048 original size:50 final size:51
Alignment explanation
Indices: 4435971--4436099 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4435961 GACCATGGCA
*
4435971 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
4436022 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
4436072 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
4436100 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:4436113 original size:31 final size:31
Alignment explanation
Indices: 4436075--4436223 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
4436065 ACAAATGACA
*
4436075 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4436106 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4436137 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4436168 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4436199 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
4436224 AAATGACAAG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:4436353 original size:42 final size:42
Alignment explanation
Indices: 4436252--4436392 Score: 158
Period size: 42 Copynumber: 3.3 Consensus size: 42
4436242 GATTTCCGTA
* * * * *
4436252 TAAGACCATATCTGGGATATGGCATCGGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
*
4436298 TAAAACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* *
4436340 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
4436382 TAAGACCATAG
1 TAAGACCATAG
4436393 TTGAACTATG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 54 0.64
43 7 0.08
46 23 0.27
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:4438210 original size:47 final size:47
Alignment explanation
Indices: 4438141--4438234 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
4438131 AAAAAAGAAA
4438141 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
4438188 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
4438235 TTCTTTATCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (47 bp):
AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
Found at i:4446183 original size:31 final size:31
Alignment explanation
Indices: 4446145--4446213 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
4446135 GGAATAGTTA
4446145 TATACATGAAACTTAAATTGTGATTC-ATATG
1 TATACATGAAACTTAAATTGTGATTCAAT-TG
* * *
4446176 TATACATGAAGCTTTAATTTTGATTCAATTG
1 TATACATGAAACTTAAATTGTGATTCAATTG
4446207 TATACAT
1 TATACAT
4446214 TTAAAGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (31 bp):
TATACATGAAACTTAAATTGTGATTCAATTG
Found at i:4446524 original size:3 final size:3
Alignment explanation
Indices: 4446516--4446547 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4446506 CTAAAAAATG
*
4446516 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4446548 ACCTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:4450558 original size:23 final size:23
Alignment explanation
Indices: 4450531--4450575 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4450521 GAATTTTTTA
4450531 TTTTATTTAATATTAATATAATT
1 TTTTATTTAATATTAATATAATT
*
4450554 TTTTATTTAATATTGATATAAT
1 TTTTATTTAATATTAATATAAT
4450576 CATTTGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTTAATATTAATATAATT
Found at i:4450851 original size:31 final size:31
Alignment explanation
Indices: 4450786--4450852 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
4450776 TTAATGGAGT
* * *
4450786 GTGACCCAAATAAAAATGATCTAAAACGTGA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
* * *
4450817 GTGACCAAAATAGAAATTATCTAAAATATCA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
4450848 GTGAC
1 GTGAC
4450853 TAAATTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (31 bp):
GTGACCAAAATAAAAATGATCTAAAACATCA
Found at i:4452842 original size:23 final size:22
Alignment explanation
Indices: 4452715--4452862 Score: 63
Period size: 23 Copynumber: 6.5 Consensus size: 22
4452705 TATTTTTAAA
* **
4452715 AATATATATATATGTATAT-AT
1 AATATATATAAAAATATATAAT
* *
4452736 AATAGTATTTAAGAATATATACAT
1 AATA-TATATAAAAATATATA-AT
* *
4452760 AAGATGATAT-AAAATACATAAAT
1 AATAT-ATATAAAAATATAT-AAT
*
4452783 GGAATAGTATA-AGAAATATATAACT
1 --AATA-TATATAAAAATATATAA-T
**
4452808 AATGGCAT-TAAAAATATATACAT
1 AAT-ATATATAAAAATATATA-AT
*
4452831 AATATATATAAAATACATATAAT
1 AATATATATAAAA-ATATATAAT
4452854 -ATATATATA
1 AATATATATA
4452863 CGTATTAGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 29
0.67 0.13 0.21
Matches are distributed among these distances:
21 4 0.04
22 21 0.22
23 36 0.38
24 18 0.19
25 14 0.15
26 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (22 bp):
AATATATATAAAAATATATAAT
Found at i:4452845 original size:11 final size:11
Alignment explanation
Indices: 4452818--4452862 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
4452808 AATGGCATTA
*
4452818 AAAATATATAC
1 AAAATATATAT
*
4452829 ATAATATATAT
1 AAAATATATAT
*
4452840 AAAATACATAT
1 AAAATATATAT
*
4452851 AATATATATAT
1 AAAATATATAT
4452862 A
1 A
4452863 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:4453460 original size:10 final size:10
Alignment explanation
Indices: 4453445--4453469 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4453435 CACCGTCCGA
4453445 CCGTCGGCCG
1 CCGTCGGCCG
4453455 CCGTCGGCCG
1 CCGTCGGCCG
4453465 CCGTC
1 CCGTC
4453470 CGTCGCCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.52, G:0.36, T:0.12
Consensus pattern (10 bp):
CCGTCGGCCG
Found at i:4453628 original size:17 final size:16
Alignment explanation
Indices: 4453578--4453628 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
4453568 GAAAAAGGGA
*
4453578 AAAAATAAAATAAAAAT
1 AAAAATAAGAT-AAAAT
4453595 AAAAATAAGAGTAAAAT
1 AAAAATAAGA-TAAAAT
4453612 AATAAATAAGATAAAAT
1 AA-AAATAAGATAAAAT
4453629 CACCTTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAAATAAGATAAAAT
Found at i:4454351 original size:17 final size:18
Alignment explanation
Indices: 4454323--4454360 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
4454313 GATTTAACGA
4454323 AAAAATTAAAAAGAATTG
1 AAAAATTAAAAAGAATTG
*
4454341 AAAAATT-AAAAGATTTG
1 AAAAATTAAAAAGAATTG
4454358 AAA
1 AAA
4454361 GCAATATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAAGAATTG
Found at i:4455665 original size:26 final size:27
Alignment explanation
Indices: 4455604--4455666 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
4455594 CCCGGCTCAA
*
4455604 ATATAT-TATGTTATAAAAATTATTAT
1 ATATATATATGTTATAAAAATAATTAT
*
4455630 ATTAATTATATATGTTA-AATAATAATTAT
1 A-T-A-TATATATGTTATAAAAATAATTAT
4455659 ATATATAT
1 ATATATAT
4455667 TTATAATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 2 0.06
29 14 0.45
30 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATATATATGTTATAAAAATAATTAT
Found at i:4455827 original size:39 final size:39
Alignment explanation
Indices: 4455756--4455832 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
4455746 AATTTTTAAT
*
4455756 AAAATATTTATTATATTTATTTGTGTCATTTAATATAAC
1 AAAATATTTATTATATTTATTGGTGTCATTTAATATAAC
**
4455795 AAAATATTTATTATATTTA-TGGTAGTTTTTTAATATAA
1 AAAATATTTATTATATTTATTGGT-GTCATTTAATATAA
4455833 ATACTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 31 0.91
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (39 bp):
AAAATATTTATTATATTTATTGGTGTCATTTAATATAAC
Found at i:4455835 original size:35 final size:35
Alignment explanation
Indices: 4455748--4455835 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 35
4455738 CAATTTAAAA
*
4455748 TTTTTAATA-AAATATTTATTATATTTATTTGTGT
1 TTTTTAATATAAATATTTATTATATTTATTGGTGT
**
4455782 CATTTAATATAACAAAATATTTATTATATTTA-TGGTAGT
1 TTTTTAATAT----AAATATTTATTATATTTATTGGT-GT
4455821 TTTTTAATATAAATA
1 TTTTTAATATAAATA
4455836 CTTTTTAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
34 7 0.16
35 5 0.12
38 3 0.07
39 28 0.65
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (35 bp):
TTTTTAATATAAATATTTATTATATTTATTGGTGT
Found at i:4456024 original size:15 final size:15
Alignment explanation
Indices: 4455983--4456028 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4455973 TTATATTACA
4455983 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
**
4455998 -TTTA-AAATCTTATG
1 TTTTAGTCA-CTTATG
4456012 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
4456027 TT
1 TT
4456029 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (15 bp):
TTTTAGTCACTTATG
Found at i:4457543 original size:89 final size:88
Alignment explanation
Indices: 4457448--4457650 Score: 236
Period size: 89 Copynumber: 2.3 Consensus size: 88
4457438 AAAAGCCCTT
* * *
4457448 AAACTTTTTTAAAAAAAGTAATTAAGCCTCCTT-TTTTTTTTACATTCAATTTAGCA-A-TTGAA
1 AAACTTTTTCAAAAAAAGCAATTAAG-C-CCTTCTTTTTTTTACACTCAA-TT-GCATACTTGAA
*
4457510 CTTTCAAAATGTATCAAAAAGGTCCTC
62 CTTTCAAAATGCATCAAAAAGGTCCTC
* *
4457537 AAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTCACTCAATTGGATACTTGAACTT
1 AAACTTTTTCAAAAAAAGCAATTAAGCCCTT-CTTTTTTTTACACTCAATTGCATACTTGAACTT
**
4457602 TCAAAATGCATCAAAAAGACCCT-
65 TCAAAATGCATCAAAAAGGTCCTC
**
4457625 AAAAATTTTC-AAAAAAGCAATTAAGC
1 AAACTTTTTCAAAAAAAGCAATTAAGC
4457651 TCCATGCTCT
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
87 22 0.22
88 12 0.12
89 66 0.66
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.35
Consensus pattern (88 bp):
AAACTTTTTCAAAAAAAGCAATTAAGCCCTTCTTTTTTTTACACTCAATTGCATACTTGAACTTT
CAAAATGCATCAAAAAGGTCCTC
Found at i:4457772 original size:18 final size:18
Alignment explanation
Indices: 4457729--4457772 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4457719 TAATAAAAAA
4457729 TTTAAAAATTTAAAATTT
1 TTTAAAAATTTAAAATTT
* *
4457747 ATTAAAAA-TTAGAATTT
1 TTTAAAAATTTAAAATTT
4457764 TTTATAAAA
1 TTTA-AAAA
4457773 ATCATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTTAAAAATTTAAAATTT
Found at i:4457989 original size:10 final size:9
Alignment explanation
Indices: 4457974--4458054 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
4457964 TTCTTACGAC
4457974 TTTATAAAAT
1 TTTAT-AAAT
*
4457984 TTTATAAGT
1 TTTATAAAT
* *
4457993 TTTTTATAT
1 TTTATAAAT
*
4458002 TTTATATAT
1 TTTATAAAT
**
4458011 TTTATATTT
1 TTTATAAAT
* *
4458020 TTTATGATT
1 TTTATAAAT
4458029 TTTATAAAAT
1 TTTAT-AAAT
*
4458039 TTTACAATAT
1 TTTATAA-AT
4458049 TTTATA
1 TTTATA
4458055 TTTTTTCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
9 39 0.68
10 18 0.32
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAAAT
Found at i:4458069 original size:18 final size:18
Alignment explanation
Indices: 4457983--4458078 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 18
4457973 CTTTATAAAA
*
4457983 TTTTATAAGTTTTT-TATA
1 TTTTATAA-TTTTTATATT
4458001 TTTTAT-ATATTTTATATT
1 TTTTATAAT-TTTTATATT
* **
4458019 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTAT-ATT
*
4458038 TTTTACAATATTTTATATT
1 TTTTATAAT-TTTTATATT
*
4458057 TTTTCTAATTTTTAATATT
1 TTTTATAATTTTT-ATATT
4458076 TTT
1 TTT
4458079 ATATTTTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.02
17 5 0.08
18 25 0.40
19 26 0.41
20 6 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTATATT
Found at i:4458078 original size:10 final size:9
Alignment explanation
Indices: 4457992--4458085 Score: 61
Period size: 9 Copynumber: 10.4 Consensus size: 9
4457982 ATTTTATAAG
4457992 TTTTTTATA
1 TTTTTTATA
4458001 --TTTTATA
1 TTTTTTATA
*
4458008 TATTTTATA
1 TTTTTTATA
4458017 TTTTTTATGA
1 TTTTTTAT-A
4458027 -TTTTTATAA
1 TTTTTTAT-A
** *
4458036 AATTTTACAA
1 TTTTTTA-TA
*
4458046 TATTTTATA
1 TTTTTTATA
*
4458055 TTTTTTCTA
1 TTTTTTATA
*
4458064 ATTTTTA-A
1 TTTTTTATA
4458072 TATTTTTATA
1 T-TTTTTATA
4458082 TTTT
1 TTTT
4458086 ATTAAAATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 44 0.66
10 15 0.22
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTTATA
Found at i:4458106 original size:27 final size:27
Alignment explanation
Indices: 4458028--4458117 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
4458018 TTTTTATGAT
*
4458028 TTTTA-TAAAATTTTA-CAATATTTTATA
1 TTTTATTAAAATTTAATC-ATA-TTTATA
* ** *
4458055 TTTTTTCTAATTTTTAAT-ATTTTTATA
1 TTTTAT-TAAAATTTAATCATATTTATA
4458082 TTTTATTAAAATTTAATCATATTTATA
1 TTTTATTAAAATTTAATCATATTTATA
4458109 GCTTTTATT
1 --TTTTATT
4458118 GATTTTAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
26 9 0.19
27 23 0.48
28 2 0.04
29 14 0.29
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTTATTAAAATTTAATCATATTTATA
Found at i:4458324 original size:82 final size:82
Alignment explanation
Indices: 4458176--4458327 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
4458166 GCTTAATTGC
* * *
4458176 TTTTTTGAAAAAGTTTAAGGGTTTTTTTGATGCATTTTGAAAATTAAGTACCCAATTGAGAGCAA
1 TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATTAAGTACCCAAATAAGAGCAA
4458241 AAAAAGTAGGGGCTTAA
66 AAAAAGTAGGGGCTTAA
* * * * **
4458258 TTTTTTTAAAAGGTTTAAGGGCTTTTTTGATGTA-TTTGAAAGTTCAAGTATTCAAATAAGTA-C
1 TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATT-AAGTACCCAAATAAG-AGC
4458321 AAAAAAA
64 AAAAAAA
4458328 AAGAAGTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 9 0.15
82 49 0.83
83 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (82 bp):
TTTTTTGAAAAAGTTTAAGGGCTTTTTTGATGCATTTTGAAAATTAAGTACCCAAATAAGAGCAA
AAAAAGTAGGGGCTTAA
Found at i:4458735 original size:3 final size:3
Alignment explanation
Indices: 4458727--4458769 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4458717 ATAAACAATG
4458727 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4458770 TGTTGTCGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:4468451 original size:262 final size:265
Alignment explanation
Indices: 4467981--4468494 Score: 664
Period size: 262 Copynumber: 2.0 Consensus size: 265
4467971 AAAAATCTTT
* * * **
4467981 AAATAATATAAATTATTTTGAATTGAAAATGATATTTTTGTAATTTTTCTAATTGAGTTGGTGTC
1 AAATAATATAAATTATTTTAAATTCAAAATGATATTTTTATAATTTTTCTAACCGAGTTGGTGTC
* *
4468046 TAGTTGACTCATGACACCAATTCAGTCAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
66 CAGTTGACTCATGACACCAATTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
* * * * * * *
4468111 ATATTAAAATAATAAAATAAAGTTTTGGTTGAGTGATTAATTTAAAGTTTTGCTGATGTAATTGG
131 ATATTAAAATAACAAAATAAAGTTTTGGTTGAGTGATAAATTAAAAGTTTTACTAATGCAATTAG
*
4468176 CATGAGTTCAAATCCCAC-ATATACATAATTTTTTATT-A-TTATTTT-AAATAAAAAACTATAG
196 CATGAGATCAAATCCCACTATATACAT-A-TTTTTATTGATTTATTTTAAAATAAAAAACTATAG
4468237 TACCCTC
259 TACCCTC
* * * *
4468244 AAATAATATGACTTATTTTAAATTCAAAATGATATTTTTATAATTTTTCTAACCGATTTGTTGTC
1 AAATAATATAAATTATTTTAAATTCAAAATGATATTTTTATAATTTTTCTAACCGAGTTGGTGTC
* ** *
4468309 CGGTTGACTTGTGACACCAACTT-GGTAAGG-GTTTAAATAATAGTATAGATACTAAAATAAAAA
66 CAGTTGACTCATGACACCAA-TTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAA
* * *
4468372 TGTATTAAATTAACAAAATAAAGTTTTGGTTGAAG-GGTAAATTAAAAGTTTTACTAATGCAATT
130 TATATTAAAATAACAAAATAAAGTTTTGGTTG-AGTGATAAATTAAAAGTTTTACTAATGCAATT
* * * * *
4468436 AGCATGGGATCAAATCTCACTATGTGCATATTTTTATTGATTTTTTTTAAAATAAAAAA
194 AGCATGAGATCAAATCCCACTATATACATATTTTTATTGATTTATTTTAAAATAAAAAA
4468495 ATAAAGTAGC
Statistics
Matches: 214, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
261 8 0.04
262 103 0.48
263 91 0.43
264 12 0.06
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (265 bp):
AAATAATATAAATTATTTTAAATTCAAAATGATATTTTTATAATTTTTCTAACCGAGTTGGTGTC
CAGTTGACTCATGACACCAATTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
ATATTAAAATAACAAAATAAAGTTTTGGTTGAGTGATAAATTAAAAGTTTTACTAATGCAATTAG
CATGAGATCAAATCCCACTATATACATATTTTTATTGATTTATTTTAAAATAAAAAACTATAGTA
CCCTC
Found at i:4469602 original size:126 final size:127
Alignment explanation
Indices: 4469450--4469762 Score: 378
Period size: 126 Copynumber: 2.4 Consensus size: 127
4469440 GCCAAACGGT
* * * * * ** * * *
4469450 AAATCAAAACCCAGCATGATTGGGCACGATTTGTCGAA-TTTCAAGATACGAAATATTGTCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAA-ACACAAAATATTGCCTCAT
* ** *
4469514 TTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTTGAATG-AAA
65 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
* *
4469576 AAATCGAAACCCAGCACGATTGGGCACGACATCTCAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATTGCCTCATT
*
4469641 TTAATTTAAGAAAACATGGACGAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAAA
66 TTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATG--AAAA
* * * * *
4469705 AAAGTCGAAACCTAGCACGATTGGGCACGATCTCTCAGACTTCCAAACACGAAATATT
1 AAA-TCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATT
4469763 TCCTTACGTT
Statistics
Matches: 159, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
126 101 0.64
127 4 0.03
129 6 0.04
130 48 0.30
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCACGATATCTCAAACTCCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
Found at i:4470116 original size:3 final size:3
Alignment explanation
Indices: 4470085--4470252 Score: 72
Period size: 3 Copynumber: 55.3 Consensus size: 3
4470075 GCATATAAAA
* * * * * *
4470085 AAT AAT AGT AA- AAT AAC AGT AAA AAT AAT AAT AAC AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
4470129 AAT AAT AAT -GT ATAT AAAT AAT AGT AAT AAA AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * ** *
4470175 AGT AAT GAT AAT AAT ATAT AAT AGT AAC GAT AAT AGC AAG AAT ATAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
** * *
4470222 AAT AGC AAG AAT AAT AAT AAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4470253 TATTAGCGAT
Statistics
Matches: 116, Mismatches: 41, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
2 4 0.03
3 101 0.87
4 10 0.09
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4470155 original size:49 final size:46
Alignment explanation
Indices: 4470085--4470201 Score: 121
Period size: 49 Copynumber: 2.5 Consensus size: 46
4470075 GCATATAAAA
* *
4470085 AATAATAGTAAAATAACAGTAA-AAATAATAATAACAGA-AATAGTAAT
1 AATAATAAT-AAATAATAGTAATAAA-AATAATAA-AGATAATAGTAAT
*
4470132 AATAATGTATATAAATAATAGTAATAAAAATAATAATGATAATAGTAAT
1 AATAA--TA-ATAAATAATAGTAATAAAAATAATAAAGATAATAGTAAT
* *
4470181 GATAATAATATATAATAGTAA
1 AATAATAATAAATAATAGTAA
4470202 CGATAATAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
46 13 0.22
47 7 0.12
48 2 0.03
49 34 0.57
50 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (46 bp):
AATAATAATAAATAATAGTAATAAAAATAATAAAGATAATAGTAAT
Found at i:4470181 original size:12 final size:12
Alignment explanation
Indices: 4470085--4470201 Score: 91
Period size: 12 Copynumber: 9.9 Consensus size: 12
4470075 GCATATAAAA
4470085 AATAATAGTAA-
1 AATAATAGTAAT
* *
4470096 AATAACAGTAAA
1 AATAATAGTAAT
* *
4470108 AATAATAATAAC
1 AATAATAGTAAT
4470120 AGA-AATAGTAAT
1 A-ATAATAGTAAT
4470132 AATAAT-GTATAT
1 AATAATAGTA-AT
4470144 AAATAATAGTAAT
1 -AATAATAGTAAT
* *
4470157 AAAAATAATAAT
1 AATAATAGTAAT
*
4470169 GATAATAGTAAT
1 AATAATAGTAAT
* *
4470181 GATAATAAT-AT
1 AATAATAGTAAT
4470192 -ATAATAGTAA
1 AATAATAGTAA
4470202 CGATAATAGC
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.08
11 17 0.20
12 50 0.58
13 9 0.10
14 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (12 bp):
AATAATAGTAAT
Found at i:4470208 original size:28 final size:27
Alignment explanation
Indices: 4470177--4470245 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 27
4470167 ATGATAATAG
*
4470177 TAATGATAATAATATATAATAGTAACG-A
1 TAAT-ATAATAATATATAATAGCAA-GAA
* *
4470205 TAATAGCAAGAATATATAATAGCAAGAA
1 TAATA-TAATAATATATAATAGCAAGAA
4470233 TAATAATAATAAT
1 TAAT-ATAATAAT
4470246 GATAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.06
28 30 0.91
29 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (27 bp):
TAATATAATAATATATAATAGCAAGAA
Found at i:4470225 original size:16 final size:15
Alignment explanation
Indices: 4470204--4470240 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
4470194 AATAGTAACG
4470204 ATAATAGCAAGAATA
1 ATAATAGCAAGAATA
4470219 TATAATAGCAAGAATA
1 -ATAATAGCAAGAATA
4470235 ATAATA
1 ATAATA
4470241 ATAATGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (15 bp):
ATAATAGCAAGAATA
Found at i:4472144 original size:84 final size:84
Alignment explanation
Indices: 4471757--4472554 Score: 987
Period size: 84 Copynumber: 9.4 Consensus size: 84
4471747 TAATTTTTAA
* *
4471757 CCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-CTGTCTTCGATCTACTCCACTACTGTTTAG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGCTGTCTTCGATCTGCTCCACTACTGTTTAG
**
4471821 GGATAAGATCTGTATTTTTTAG
65 GG--AAGATCTGTATTTTCCAG
*
4471843 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCTACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
4471908 GATAAGATCTGTATTTTCCAG
66 G--AAGATCTGTATTTTCCAG
* * * * * * * *
4471929 CCTATTACCCTATTGCTTAGGGAGTTAAGGC-T-CATCGTCTTCAACCTACCCCACTACTGTATA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC-T-GTCTTCGATCTGCTCCACTACTGTTTA
*
4471992 GGGAGATAGTGTCTGTATTTTCCAG
64 -GG-GA-AG-ATCTGTATTTTCCAG
* * *
4472017 CCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATTTGCTCCATTACTGTTTAGA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG-
*
4472082 GG-AGATCTGTATTTTCTAG
65 GGAAGATCTGTATTTTCCAG
*
4472101 CCTGTTACCTTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTACG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTA-G
4472166 GG-AGATCTGTATTTTCCAG
65 GGAAGATCTGTATTTTCCAG
* * * * *
4472185 CCTATTACCCTACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGTTCTGCTCCACTATTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* * *
4472250 GGAGATTTGTATTTTTCAG
66 GAAGATCTGTATTTTCCAG
*
4472269 CCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTATTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* **
4472333 GAATATCTGTATTTTTTTAG
66 GAAGATCTGTA-TTTTCCAG
* * ** *
4472353 CATGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTACCTTCAATCTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
4472418 GAAGATCTGTATTTTCCAG
66 GAAGATCTGTATTTTCCAG
** * * * * * *
4472437 CCTGTTACATTACTGCTTAAGGGGTTAATGCTTACTGTCTTTGATCTACTCCGCTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
*
4472502 GATAAGATCTGTATTTTCCAA
66 G--AAGATCTGTATTTTCCAG
* *
4472523 CTTGTTACCCTACTTCTTAGGGGGTTAAGGCT
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
4472555 CGTGAATTCA
Statistics
Matches: 616, Mismatches: 80, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
83 52 0.08
84 263 0.43
85 57 0.09
86 172 0.28
87 6 0.01
88 63 0.10
89 2 0.00
90 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (84 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
GAAGATCTGTATTTTCCAG
Found at i:4472224 original size:168 final size:167
Alignment explanation
Indices: 4471666--4472554 Score: 982
Period size: 168 Copynumber: 5.2 Consensus size: 167
4471656 TTGTAATCTT
* * * * * * * * * *
4471666 CAGCCTGTTACCCTATTGCTTCGGGGGTTAAAG-TTCACTATCTTTGATCTACTCCCCCACTGCT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-GCTGTCTTCGATCTGCTCCACTACTGTT
* * *
4471730 TAGGGAGATAAGATCCGTAATTTT-TAACCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCTCTG
65 TA-GG-G--AAGATCTGT-ATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TCTG
*
4471794 TCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTATTTTT
124 TCTTCGATCTACTCCACTACTGTTTAGGG--AAGATCTGTATTTTC
* *
4471840 TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCTACTACTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTT
* * * *
4471905 AGGGATAAGATCTGTATTTTCCAGCCTATTACCCTATTGCTTAGGGAGTTAAGGC-TCATCGTCT
66 AGGG--AAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTC-T-GTCT
* * * * *
4471969 TCAACCTACCCCACTACTGTATAGGGAGATAGTGTCTGTATTTTC
127 TCGATCTACTCCACTACTGTTTA-GG-GA-AG-ATCTGTATTTTC
* * *
4472014 CAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATTTGCTCCATTACTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTT
*
4472079 AGAGG-AGATCTGTATTTTCTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTC
66 AG-GGAAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-CTGTCTTC
*
4472143 GATCTGCTCCACTACTGTTTACGGG-AGATCTGTATTTTC
129 GATCTACTCCACTACTGTTTA-GGGAAGATCTGTATTTTC
* * * * *
4472182 CAGCCTATTACCCTACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGTTCTGCTCCACTATTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTT
* *
4472247 AGGGGAGATTTGTATTTT-TCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGCTGTCTTC
66 AGGGAAGATCTGTATTTTCT-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-CTGTCTTC
* * * *
4472310 GATCTGCTCCACTACTATTTAGGGAATATCTGTATTTTTT
129 GATCTACTCCACTACTGTTTAGGGAAGATCTGTA-TTTTC
* * * ** *
4472350 TAGCATGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTACCTTCAATCTGCTCCACTACTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTT
* ** * * *
4472415 AGGGAAGATCTGTATTTTCCAGCCTGTTACATTACTGCTTAAGGGGTTAATGCTTACTGTCTTTG
66 AGGGAAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-CTGTCTTCG
*
4472480 ATCTACTCCGCTACTGTTTAGGGATAAGATCTGTATTTTC
130 ATCTACTCCACTACTGTTTAGGG--AAGATCTGTATTTTC
* * *
4472520 CAACTTGTTACCCTACTTCTTAGGGGGTTAAGGCT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
4472555 CGTGAATTCA
Statistics
Matches: 612, Mismatches: 84, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
166 3 0.00
167 53 0.09
168 195 0.32
169 42 0.07
170 36 0.06
171 16 0.03
172 130 0.21
173 8 0.01
174 125 0.20
175 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (167 bp):
CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTT
AGGGAAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTCTGTCTTCGA
TCTACTCCACTACTGTTTAGGGAAGATCTGTATTTTC
Found at i:4472725 original size:64 final size:64
Alignment explanation
Indices: 4472624--4472748 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
4472614 TCCTGTATCT
* *
4472624 ATGCTTATGCCAAATAATTAGGATGCTATTATCGAAATGAATCAAATGCTTCTAACTAGATATA
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
* *
4472688 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGGATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
4472749 GTATCATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
Found at i:4480876 original size:53 final size:53
Alignment explanation
Indices: 4480796--4480901 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
4480786 TGCATAACCC
4480796 ACACTCACATTGCCAACTTTGCTTTCTTTCTTCTTCGGGGCTGACATCCTGGT
1 ACACTCACATTGCCAACTTTGCTTTCTTTCTTCTTCGGGGCTGACATCCTGGT
*
4480849 ACACTCACATTGCCAACTTTGCTTTCTTTCTTCTTCGGGGCTGACGTCCTGGT
1 ACACTCACATTGCCAACTTTGCTTTCTTTCTTCTTCGGGGCTGACATCCTGGT
4480902 GCTTTCCCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (53 bp):
ACACTCACATTGCCAACTTTGCTTTCTTTCTTCTTCGGGGCTGACATCCTGGT
Found at i:4486029 original size:3 final size:3
Alignment explanation
Indices: 4485999--4486171 Score: 91
Period size: 3 Copynumber: 56.3 Consensus size: 3
4485989 GCATATAAAA
* * * * * *
4485999 AAT AAT AGT AAA AAA AAT AGT AAA AAT AAT AAT AAT AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
4486044 AAT AAT AAT -GT ATAT AAAT AATT AAT AGT AAT AAA AAT AAT AAT GAA-
1 AAT AAT AAT AAT A-AT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * **
4486091 AAT AGT AAT GAT AAT AAT AAT ATAT AAT AGT AAT GAT AAT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
** * *
4486137 AAT ATAT AAT AGC AAG AAT AAT AAT AAT GAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4486172 TATTAGCGAT
Statistics
Matches: 125, Mismatches: 35, Indels: 20
0.69 0.19 0.11
Matches are distributed among these distances:
2 4 0.03
3 105 0.84
4 15 0.12
5 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4486146 original size:28 final size:25
Alignment explanation
Indices: 4486014--4486164 Score: 114
Period size: 24 Copynumber: 5.8 Consensus size: 25
4486004 TAGTAAAAAA
** *
4486014 AATAGTAAAAATAATAATAATAGA-
1 AATAGTAATGATAATAATAATATAT
*
4486038 AATAGTAATAATAATGTATATAA-ATAATT
1 AATAGTAATGATAA--TA-ATAATAT-A-T
* *
4486067 AATAGTAATAAAAATAATAATGA-A-
1 AATAGTAATGATAATAATAAT-ATAT
4486091 AATAGTAATGATAATAATAATATAT
1 AATAGTAATGATAATAATAATATAT
4486116 AATAGTAATGATAATAGCAATAATATAT
1 AATAGTAATGATAAT---AATAATATAT
*
4486144 AATAGCAA-GAATAATAATAAT
1 AATAGTAATG-ATAATAATAAT
4486165 GATAATATAT
Statistics
Matches: 107, Mismatches: 6, Indels: 27
0.76 0.04 0.19
Matches are distributed among these distances:
23 1 0.01
24 33 0.31
25 21 0.20
26 8 0.07
27 8 0.07
28 23 0.21
29 13 0.12
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (25 bp):
AATAGTAATGATAATAATAATATAT
Found at i:4486147 original size:16 final size:16
Alignment explanation
Indices: 4486106--4486162 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
4486096 TAATGATAAT
4486106 AATAATATATAATAG-
1 AATAATATATAATAGC
*
4486121 --TAAT-GATAATAGC
1 AATAATATATAATAGC
4486134 AATAATATATAATAGC
1 AATAATATATAATAGC
*
4486150 AAGAATA-ATAATA
1 AATAATATATAATA
4486163 ATGATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
15 10 0.29
16 14 0.40
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.30
Consensus pattern (16 bp):
AATAATATATAATAGC
Found at i:4489763 original size:20 final size:22
Alignment explanation
Indices: 4489718--4489763 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
4489708 TAAAAATAAA
*
4489718 AATTAATAAAGTTATAGAAAAT
1 AATTAATAAAATTATAGAAAAT
4489740 -ATTAA-AAAATTATA-AAAAT
1 AATTAATAAAATTATAGAAAAT
4489759 AATTA
1 AATTA
4489764 TAGAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTAATAAAATTATAGAAAAT
Found at i:4490056 original size:4 final size:4
Alignment explanation
Indices: 4490047--4490096 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
4490037 TAGGGAATGT
4490047 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
4490095 TA
1 TA
4490097 TTCACTATAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:4490350 original size:29 final size:26
Alignment explanation
Indices: 4490284--4490351 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
4490274 GTTTGGGTAG
* *
4490284 AAATTGGTTTGATAAACAAAGCAAGA
1 AAATTGGGTTGATAAACAAAACAAGA
* *
4490310 AAATTAGGTTGATAAGCAAAACTAATGA
1 AAATTGGGTTGATAAACAAAAC-AA-GA
4490338 AACATTGGGTTGAT
1 AA-ATTGGGTTGAT
4490352 TATGATCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 18 0.53
27 2 0.06
28 4 0.12
29 10 0.29
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (26 bp):
AAATTGGGTTGATAAACAAAACAAGA
Found at i:4490419 original size:9 final size:9
Alignment explanation
Indices: 4490391--4490602 Score: 92
Period size: 9 Copynumber: 22.6 Consensus size: 9
4490381 AAAATAATTT
*
4490391 TTTTTACAA
1 TTTTTATAA
*
4490400 ATTTTAT-A
1 TTTTTATAA
4490408 TTTTTATAA
1 TTTTTATAA
*
4490417 TTTTCTTACAA
1 -TTT-TTATAA
*
4490428 TTTTATAAAA
1 TTTT-TATAA
*
4490438 TTTTATAAAA
1 TTTT-TATAA
4490448 TTTTCTAT-A
1 TTTT-TATAA
*
4490457 TTTCTAT-A
1 TTTTTATAA
4490465 TATTTTATAA
1 T-TTTTATAA
*
4490475 TTTTTACAA
1 TTTTTATAA
*
4490484 TTTTTTTAAA
1 TTTTTAT-AA
* *
4490494 ATTTTACAA
1 TTTTTATAA
*
4490503 TTTTTTCTAA
1 -TTTTTATAA
*
4490513 TTTTTAACAA
1 TTTTT-ATAA
* *
4490523 CTTTTAAATAT
1 -TTTT-TATAA
4490534 TTTTTATTAAA
1 TTTTTA-T-AA
** *
4490545 ACTTAATAA
1 TTTTTATAA
4490554 TTTTTATAA
1 TTTTTATAA
4490563 TTTTTATAA
1 TTTTTATAA
*
4490572 CTTTTACTAA
1 TTTTTA-TAA
4490582 TTTTTAT--
1 TTTTTATAA
*
4490589 TTTTTATCA
1 TTTTTATAA
4490598 TTTTT
1 TTTTT
4490603 CGCCACATGC
Statistics
Matches: 154, Mismatches: 33, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
7 7 0.05
8 12 0.08
9 64 0.42
10 56 0.36
11 15 0.10
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4490441 original size:10 final size:10
Alignment explanation
Indices: 4490426--4490451 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4490416 ATTTTCTTAC
4490426 AATTTTATAA
1 AATTTTATAA
4490436 AATTTTATAA
1 AATTTTATAA
4490446 AATTTT
1 AATTTT
4490452 CTATATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTTTATAA
Found at i:4490489 original size:19 final size:19
Alignment explanation
Indices: 4490408--4490586 Score: 87
Period size: 19 Copynumber: 9.2 Consensus size: 19
4490398 AAATTTTATA
4490408 TTTTTATAATTTTCTTACAAT
1 TTTTTATAA-TTT-TTACAAT
* * *
4490429 TTTATAAAATTTTATAAAAT
1 TTTTTATAATTTT-TACAAT
* * *
4490449 TTTCTAT-ATTTCTA-TAT
1 TTTTTATAATTTTTACAAT
*
4490466 ATTTTATAATTTTTACAAT
1 TTTTTATAATTTTTACAAT
*
4490485 TTTTT-TAAAATTTTACAAT
1 TTTTTAT-AATTTTTACAAT
*
4490504 TTTTTCTAATTTTTAACAACT
1 TTTTTATAATTTTT-ACAA-T
** * * *
4490525 TTTAAATATTTTTTATTAAA
1 TTTTTATAATTTTTA-CAAT
** * *
4490545 ACTTAATAATTTTTATAA-
1 TTTTTATAATTTTTACAAT
*
4490563 TTTTTATAACTTTTACTAAT
1 TTTTTATAATTTTTAC-AAT
4490583 TTTT
1 TTTT
4490587 ATTTTTTATC
Statistics
Matches: 119, Mismatches: 29, Indels: 21
0.70 0.17 0.12
Matches are distributed among these distances:
17 7 0.06
18 20 0.17
19 38 0.32
20 34 0.29
21 20 0.17
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTTACAAT
Found at i:4490527 original size:20 final size:18
Alignment explanation
Indices: 4490407--4490588 Score: 89
Period size: 20 Copynumber: 9.4 Consensus size: 18
4490397 CAAATTTTAT
4490407 ATTTTTATAATTTTCTTACA
1 ATTTTTATAA-TTT-TTACA
* *
4490427 ATTTTATAAAATTTTATAAA
1 ATTTT-TATAATTTT-TACA
* *
4490447 ATTTTCTAT-ATTTCTA-T
1 ATTTT-TATAATTTTTACA
4490464 ATATTTTATAATTTTTACA
1 AT-TTTTATAATTTTTACA
* *
4490483 ATTTTTTTAAAATTTTACA
1 ATTTTTAT-AATTTTTACA
*
4490502 ATTTTTTCTAATTTTTAACA
1 A-TTTTTATAATTTTT-ACA
* * *
4490522 ACTTTTAAATATTTTTTATTAA
1 A-TTTT-TATAATTTTTA--CA
** * *
4490544 AACTTAATAATTTTTATA
1 ATTTTTATAATTTTTACA
*
4490562 ATTTTTATAACTTTTACTA
1 ATTTTTATAATTTTTAC-A
4490581 ATTTTTAT
1 ATTTTTAT
4490589 TTTTTATCAT
Statistics
Matches: 124, Mismatches: 26, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
17 5 0.04
18 29 0.23
19 32 0.26
20 43 0.35
21 13 0.10
22 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATAATTTTTACA
Found at i:4497878 original size:9 final size:10
Alignment explanation
Indices: 4497854--4497878 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4497844 AAAAATTATT
4497854 TAAAAAGCTA
1 TAAAAAGCTA
4497864 TAAAAAGCTA
1 TAAAAAGCTA
4497874 TAAAA
1 TAAAA
4497879 TATTAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
TAAAAAGCTA
Found at i:4498478 original size:34 final size:34
Alignment explanation
Indices: 4498440--4498506 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
4498430 ATAGTATTTA
* *
4498440 ATTATGCTTTTAACAAAACAATACGGTAGCAATC
1 ATTATGCTTATAACAAAACAATACAGTAGCAATC
**
4498474 ATTATGCTTATAACAATTCAATACAGTAGCAAT
1 ATTATGCTTATAACAAAACAATACAGTAGCAAT
4498507 TAATACACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (34 bp):
ATTATGCTTATAACAAAACAATACAGTAGCAATC
Found at i:4508923 original size:21 final size:21
Alignment explanation
Indices: 4508884--4508923 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4508874 TTTACATGAG
* *
4508884 ATGAAACAAAATACCTATAAT
1 ATGAAACAAAAAAACTATAAT
*
4508905 ATGAAACAAAAAAATTATA
1 ATGAAACAAAAAAACTATA
4508924 TGAGTATGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (21 bp):
ATGAAACAAAAAAACTATAAT
Found at i:4519784 original size:22 final size:22
Alignment explanation
Indices: 4519737--4519786 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4519727 ATTTAATTTT
* *
4519737 AAAAAATTGAATGACTAAATTA
1 AAAAAATTGAATAACTAAATGA
*
4519759 AAAAAATT-AATAATTAAATGA
1 AAAAAATTGAATAACTAAATGA
*
4519780 CAAAAAT
1 AAAAAAT
4519787 ATAACTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (22 bp):
AAAAAATTGAATAACTAAATGA
Found at i:4520109 original size:45 final size:45
Alignment explanation
Indices: 4520045--4520137 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
4520035 CAAAAATGTC
4520045 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
1 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
4520090 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
1 TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
4520135 TTT
1 TTT
4520138 AACCTTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (45 bp):
TTTCTGTGTTGTGTAATTAAAATAAGTTATATTATTTAAGAATAT
Found at i:4523391 original size:18 final size:18
Alignment explanation
Indices: 4523368--4523404 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4523358 GTGACCATCA
*
4523368 ATAACTAACTAACAGAAG
1 ATAACTAACTAACAAAAG
*
4523386 ATAACTAATTAACAAAAG
1 ATAACTAACTAACAAAAG
4523404 A
1 A
4523405 ATGAATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (18 bp):
ATAACTAACTAACAAAAG
Found at i:4530707 original size:3 final size:3
Alignment explanation
Indices: 4530699--4530760 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
4530689 GAATTAGTCC
* * *
4530699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4530747 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
4530761 CCTATTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4536754 original size:14 final size:14
Alignment explanation
Indices: 4536737--4536767 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4536727 ACTGCAGTTC
4536737 TAGGCAGTCCTAAA
1 TAGGCAGTCCTAAA
4536751 TAGGCAGTCCTAAA
1 TAGGCAGTCCTAAA
4536765 TAG
1 TAG
4536768 ATTAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (14 bp):
TAGGCAGTCCTAAA
Found at i:4543735 original size:25 final size:25
Alignment explanation
Indices: 4543701--4543750 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4543691 TGATCTACAG
4543701 ATGTTAACTGAGCTTGTTCCTGTAT
1 ATGTTAACTGAGCTTGTTCCTGTAT
4543726 ATGTTAACTGAGCTTGTTCCTGTAT
1 ATGTTAACTGAGCTTGTTCCTGTAT
4543751 GTTTTAGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (25 bp):
ATGTTAACTGAGCTTGTTCCTGTAT
Found at i:4545589 original size:42 final size:42
Alignment explanation
Indices: 4545530--4545613 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4545520 ACCAACAAGG
4545530 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
1 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
4545572 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
1 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
4545614 ATTTTCTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.29
Consensus pattern (42 bp):
TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
Found at i:4548961 original size:21 final size:22
Alignment explanation
Indices: 4548932--4548978 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4548922 CAGAAGGAGT
*
4548932 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4548954 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4548975 GAGT
1 GAGT
4548979 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4552094 original size:25 final size:24
Alignment explanation
Indices: 4552043--4552102 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
4552033 GTCTTAAATA
* * **
4552043 TAAAATATATACATAAAGGGATTT
1 TAAAATAAATACATAAAGGCAGCT
4552067 TAAAATAAATACTATAAAGGCAGCT
1 TAAAATAAATAC-ATAAAGGCAGCT
*
4552092 TAAAGTAAATA
1 TAAAATAAATA
4552103 AAAAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (24 bp):
TAAAATAAATACATAAAGGCAGCT
Found at i:4552628 original size:22 final size:22
Alignment explanation
Indices: 4552596--4552647 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
4552586 AAGTAAAAAT
*
4552596 ATACA-AA-AAAAAATTTTAAA
1 ATACATAATAAAAAAGTTTAAA
* *
4552616 ATACATAATAAAATAGTTTAGA
1 ATACATAATAAAAAAGTTTAAA
*
4552638 ATAAATAATA
1 ATACATAATA
4552648 CAATTTAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 19 0.73
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
ATACATAATAAAAAAGTTTAAA
Found at i:4553262 original size:22 final size:21
Alignment explanation
Indices: 4553222--4553262 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4553212 TCATTTAAGC
* *
4553222 TAAAAAATTTCCTTTTTTTTT
1 TAAAAAATTTCATTCTTTTTT
4553243 TAAAAAGATTTCATTCTTTT
1 TAAAAA-ATTTCATTCTTTT
4553263 ACTGCTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (21 bp):
TAAAAAATTTCATTCTTTTTT
Found at i:4553833 original size:17 final size:17
Alignment explanation
Indices: 4553793--4553837 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
4553783 TATCTATTTT
*
4553793 TTCTTTCTTGTTTTTTGC
1 TTCTTT-TTGTTTTCTGC
4553811 -TC--TTTGTTTTCTGC
1 TTCTTTTTGTTTTCTGC
4553825 TTCTTTTTGTTTT
1 TTCTTTTTGTTTT
4553838 TTTGCTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
17 10 0.43
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.73
Consensus pattern (17 bp):
TTCTTTTTGTTTTCTGC
Found at i:4556981 original size:46 final size:46
Alignment explanation
Indices: 4556931--4557103 Score: 258
Period size: 46 Copynumber: 3.8 Consensus size: 46
4556921 ATGGTTGAGC
*
4556931 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
4556977 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
* * * * *
4557023 GTCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
**
4557069 GCCCGAGA-TCGTTGAGTTGAGTCCGAGTTCACTTA
1 ATCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTA
4557104 GGGGCGGGTT
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
46 116 0.99
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
Found at i:4558681 original size:46 final size:46
Alignment explanation
Indices: 4558628--4558896 Score: 264
Period size: 46 Copynumber: 5.8 Consensus size: 46
4558618 TATTTGGGCA
4558628 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
4558674 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
4558719 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
4558767 TCCGAACTCGTTAAGTTGAGTCC-AGGTT-AGTGA--GATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGA-GTTCACTTATGGATGCAAAT-G
* * *
4558811 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
4558860 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4558897 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
43 13 0.07
44 1 0.01
45 8 0.04
46 86 0.48
47 53 0.29
48 8 0.04
49 1 0.01
50 11 0.06
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:4558762 original size:93 final size:92
Alignment explanation
Indices: 4558624--4558888 Score: 422
Period size: 93 Copynumber: 2.8 Consensus size: 92
4558614 GGGATATTTG
*
4558624 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
4558689 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCC-AGTTCGTGAGATGTAACTA
*
4558717 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
*
4558782 TTGAGTCCAGGTTAGTGAGATGTAACTA
66 TTGAGTCCA-GTTCGTGAGATGTAACTA
* * * * * *
4558810 GACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
4558875 TTGAGTCCAAGTTC
66 TTGAGTCC-AGTTC
4558889 ACTTATGGGC
Statistics
Matches: 159, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 157 0.99
94 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCAGTTCGTGAGATGTAACTA
Found at i:4571170 original size:53 final size:53
Alignment explanation
Indices: 4571090--4571195 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
4571080 ATCCCGTTCC
* *
4571090 GGTTCAATATTTTTATTGCTCGGTTCAGCTGATTTGGTAACCGGTTTAGAGTT
1 GGTTCAATATTTTTATTGCTCAGTTCAGCTGATTTCGTAACCGGTTTAGAGTT
4571143 GGTTCAATATTTTTATTGCTCAGTTCAGCTGATTTCGTAACCGGTTTAGAGTT
1 GGTTCAATATTTTTATTGCTCAGTTCAGCTGATTTCGTAACCGGTTTAGAGTT
4571196 TTTTGCGTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (53 bp):
GGTTCAATATTTTTATTGCTCAGTTCAGCTGATTTCGTAACCGGTTTAGAGTT
Found at i:4582354 original size:46 final size:46
Alignment explanation
Indices: 4582304--4582479 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
4582294 TGGTTGAGCA
4582304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4582350 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
4582395 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4582443 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4582480 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4582460 original size:93 final size:93
Alignment explanation
Indices: 4582301--4582472 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
4582291 GGATGGTTGA
* *
4582301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4582366 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
4582394 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4582459 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4582473 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4589858 original size:46 final size:46
Alignment explanation
Indices: 4589808--4589983 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
4589798 TGGTTGAGCA
4589808 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4589854 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
4589899 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
4589947 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4589984 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4589964 original size:93 final size:93
Alignment explanation
Indices: 4589805--4589975 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
4589795 GGATGGTTGA
* *
4589805 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4589870 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
4589898 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4589963 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4589976 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4591566 original size:30 final size:32
Alignment explanation
Indices: 4591506--4591569 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
4591496 CACTTATTTT
4591506 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
4591539 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
4591570 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:4591879 original size:41 final size:41
Alignment explanation
Indices: 4591795--4592035 Score: 429
Period size: 41 Copynumber: 6.0 Consensus size: 41
4591785 CTAGACTCCT
4591795 CGGC-TTAAGCCTGCTAGACTTATAGTC-GAAATGTGTCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4591834 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4591875 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4591916 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4591957 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT-T-TCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
* *
4591996 CGGCATTAAGCCTGCTAGACTTA-AGTCTGAATTATGTCAC
1 CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4592036 TAACGATAAA
Statistics
Matches: 197, Mismatches: 1, Indels: 7
0.96 0.00 0.03
Matches are distributed among these distances:
38 9 0.05
39 32 0.16
40 28 0.14
41 128 0.65
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
CGGCATTAAGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
Found at i:4599258 original size:32 final size:31
Alignment explanation
Indices: 4599220--4599283 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
4599210 ACACTTATTT
4599220 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
4599252 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
4599283 T
1 T
4599284 ACATATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:4599647 original size:39 final size:41
Alignment explanation
Indices: 4599522--4599711 Score: 246
Period size: 41 Copynumber: 4.6 Consensus size: 41
4599512 CCGCTAGCCT
4599522 GACTTATAGTC-GAAATGTGTATCACCGGCATTAAGCCTGCCGCTA
1 GACTTATAGTCTGAAATGTG--TCACCGGCATTAAGCCT---GCTA
4599567 GACTTATAGTCTGAAATGTGTCACCGGCATTAAGCCTGCTA
1 GACTTATAGTCTGAAATGTGTCACCGGCATTAAGCCTGCTA
4599608 GACTTATAGTCTGAAATGTGTCA-C-GCATTAAGCCTGCTA
1 GACTTATAGTCTGAAATGTGTCACCGGCATTAAGCCTGCTA
4599647 GACTTATAGTCTGAATAAT-T-TCACCGGCATTAAGCCTGCTA
1 GACTTATAGTCTG-A-AATGTGTCACCGGCATTAAGCCTGCTA
* * * *
4599688 GACGTAAAGTCTGAATTATGTCAC
1 GACTTATAGTCTGAAATGTGTCAC
4599712 TAACGATAAA
Statistics
Matches: 135, Mismatches: 3, Indels: 18
0.87 0.02 0.12
Matches are distributed among these distances:
39 33 0.24
40 6 0.04
41 60 0.44
44 17 0.13
45 11 0.08
46 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
GACTTATAGTCTGAAATGTGTCACCGGCATTAAGCCTGCTA
Found at i:4599655 original size:80 final size:82
Alignment explanation
Indices: 4599522--4599711 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 82
4599512 CCGCTAGCCT
4599522 GACTTATAGTC-GAAATGTGTATCACCGGCATTAAGCCTGCCGCTAGACTTATAGTCTG-A-AAT
1 GACTTATAGTCTGAAATGTG--TCA-CGGCATTAAGCCT--CGCTAGACTTATAGTCTGAATAAT
4599584 GTGTCACCGGCATTAAGCCTGCTA
61 -T-TCACCGGCATTAAGCCTGCTA
4599608 GACTTATAGTCTGAAATGTGTCAC-GCATTAAGCCT-GCTAGACTTATAGTCTGAATAATTTCAC
1 GACTTATAGTCTGAAATGTGTCACGGCATTAAGCCTCGCTAGACTTATAGTCTGAATAATTTCAC
4599671 CGGCATTAAGCCTGCTA
66 CGGCATTAAGCCTGCTA
* * * *
4599688 GACGTAAAGTCTGAATTATGTCAC
1 GACTTATAGTCTGAAATGTGTCAC
4599712 TAACGATAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
80 58 0.60
81 2 0.02
82 3 0.03
83 11 0.11
84 1 0.01
85 3 0.03
86 11 0.11
87 8 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (82 bp):
GACTTATAGTCTGAAATGTGTCACGGCATTAAGCCTCGCTAGACTTATAGTCTGAATAATTTCAC
CGGCATTAAGCCTGCTA
Found at i:4602007 original size:30 final size:30
Alignment explanation
Indices: 4601973--4602069 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
4601963 AGCTCACTCC
4601973 TAGCTCATA-TTTAGCTCACGAGCTAAAGCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
* * * **
4602003 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
4602033 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
4602063 TAGCTCA
1 TAGCTCA
4602070 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 4 0.08
30 45 0.87
31 3 0.06
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:4603781 original size:13 final size:14
Alignment explanation
Indices: 4603763--4603799 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
4603753 GAGAAGAAAT
4603763 TCGAAAAAAAAAA-
1 TCGAAAAAAAAAAG
4603776 TCGAAAAAAAAAAG
1 TCGAAAAAAAAAAG
4603790 T-GAAAAAAAA
1 TCGAAAAAAAA
4603800 TCGAGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.08
Consensus pattern (14 bp):
TCGAAAAAAAAAAG
Found at i:4604728 original size:6 final size:6
Alignment explanation
Indices: 4604708--4604753 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
4604698 GTAAAGAGAA
4604708 AAAAAG -AAAAG -AAAAG AAAAAG AAAAAG CAAGAGAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AA-A-AAG AAAAAG AAA
4604754 TGAAATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.28
6 17 0.47
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4604854 original size:11 final size:12
Alignment explanation
Indices: 4604839--4604870 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4604829 TTTGAAAAGC
4604839 AAAAAGAAAATG
1 AAAAAGAAAATG
4604851 AAAAAGAAAATG
1 AAAAAGAAAATG
4604863 -AAAAGAAA
1 AAAAAGAAA
4604871 TTTGAGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:4606991 original size:30 final size:30
Alignment explanation
Indices: 4606957--4607053 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
4606947 AGCTCACTCC
4606957 TAGCTCATA-TTTAGCTCACGAGCTAAAGCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
* * * **
4606987 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
4607017 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
4607047 TAGCTCA
1 TAGCTCA
4607054 TTTTAGTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 4 0.08
30 45 0.87
31 3 0.06
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:4607984 original size:22 final size:20
Alignment explanation
Indices: 4607952--4608000 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
4607942 GCCGAATTTA
4607952 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
4607975 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
4607995 TGAACA
1 TGAACA
4608001 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:4616121 original size:46 final size:45
Alignment explanation
Indices: 4616028--4616113 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
4616018 TACATCTCAC
* * *
4616028 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
4616074 GAACTCGGGCTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
4616114 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:4616572 original size:30 final size:30
Alignment explanation
Indices: 4616536--4616614 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
4616526 ACTTTAAAAA
*
4616536 AATTACACTTTTTCCCCTAAAATTTTGCAT
1 AATTACACTTTTGCCCCTAAAATTTTGCAT
* *
4616566 AATTACACTTTTGCCCCTAAACTTTTTCAT
1 AATTACACTTTTGCCCCTAAAATTTTGCAT
4616596 AATTACACTTTTGCCCCTA
1 AATTACACTTTTGCCCCTA
4616615 GGCTCGGGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.28, C:0.27, G:0.04, T:0.42
Consensus pattern (30 bp):
AATTACACTTTTGCCCCTAAAATTTTGCAT
Found at i:4618893 original size:30 final size:30
Alignment explanation
Indices: 4618859--4618955 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
4618849 TAAACTAAAA
4618859 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
4618889 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
4618919 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
4618949 TGAGCTA
1 TGAGCTA
4618956 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:4619008 original size:20 final size:20
Alignment explanation
Indices: 4618962--4619016 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
4618952 GCTAGGAGTG
* * *
4618962 AGCTCGATTTAGCTCAAGCA
1 AGCTGGATTGAGCTCAAACA
* *
4618982 AGATGGATTGAGCTCAAATA
1 AGCTGGATTGAGCTCAAACA
4619002 AGCTGGATTTGAGCT
1 AGCTGGA-TTGAGCT
4619017 GGATGGAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
AGCTGGATTGAGCTCAAACA
Found at i:4620542 original size:45 final size:44
Alignment explanation
Indices: 4620382--4620552 Score: 193
Period size: 45 Copynumber: 3.8 Consensus size: 44
4620372 GGTTGAGCAT
4620382 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * * *
4620427 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTAACTAG-GCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
4620475 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
4620520 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4620553 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.33
46 30 0.29
47 30 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:4625720 original size:20 final size:20
Alignment explanation
Indices: 4625697--4625743 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4625687 GGGTTAAGAT
*
4625697 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
4625717 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
4625737 TGAGCTG
1 TGAGCTG
4625744 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:4628584 original size:10 final size:9
Alignment explanation
Indices: 4628571--4628606 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
4628561 TTTTCACTTT
4628571 TTTTTTGTTC
1 TTTTTT-TTC
4628581 TTTTTTTTAC
1 TTTTTTTT-C
4628591 TTTTTTTTC
1 TTTTTTTTC
4628600 TTTTTTT
1 TTTTTTT
4628607 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4628619 original size:22 final size:19
Alignment explanation
Indices: 4628578--4628626 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
4628568 TTTTTTTTTG
*
4628578 TTCTTTTTTTTACTTTTTT
1 TTCTTTTTTTTACTTCTTT
4628597 TTCTTTTTTTGCTCACTTCTTT
1 TTCTTTTTTT--T-ACTTCTTT
*
4628619 TTGTTTTT
1 TTCTTTTT
4628627 GAATTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (19 bp):
TTCTTTTTTTTACTTCTTT
Found at i:4630159 original size:20 final size:20
Alignment explanation
Indices: 4630136--4630192 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4630126 GGGTTAAGAT
*
4630136 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
4630156 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
*
4630176 TGAGCTGGAAATGAGCT
1 TGAGCT-GAATTGAGCT
4630193 AAACGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:4633984 original size:93 final size:92
Alignment explanation
Indices: 4633826--4633995 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
4633816 GGATGGTTGA
* *
4633826 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
4633891 GAGTCCGAGTTCGTGAAATGTAACTAG
66 GAGTCCGAGTTCGTGAAATGTAACTAG
*
4633918 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4633983 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
4633996 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 50 0.68
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4633994 original size:46 final size:46
Alignment explanation
Indices: 4633830--4634000 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
4633820 GGTTGAGCAT
* *
4633830 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
4633875 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
4633920 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
4633968 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4634001 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 23 0.22
46 39 0.37
47 28 0.27
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:4641554 original size:47 final size:47
Alignment explanation
Indices: 4641496--4641667 Score: 219
Period size: 47 Copynumber: 3.7 Consensus size: 47
4641486 ATCCATAAGT
4641496 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
4641543 GAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
4641590 GAACTCGAACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
4641636 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
4641668 TCAACCATCC
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 28 0.26
47 71 0.65
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:4641652 original size:46 final size:46
Alignment explanation
Indices: 4641444--4641664 Score: 179
Period size: 47 Copynumber: 4.8 Consensus size: 46
4641434 TAACCCGCCC
* * * * *
4641444 CTAAGTGAACTCAGACTCAACTCAATGAGCTCAGG-CGT--TTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACCTAGTTACAT
4641488 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
4641538 CTCA-CGAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
4641585 CTCA-CGAACTCGAACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
4641628 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
4641665 TGCTCAACCA
Statistics
Matches: 150, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 5 0.03
46 56 0.37
47 71 0.47
48 4 0.03
49 1 0.01
50 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:4642121 original size:30 final size:30
Alignment explanation
Indices: 4642087--4642146 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
4642077 ATTTAATACG
4642087 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
4642117 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
4642147 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:4644851 original size:43 final size:43
Alignment explanation
Indices: 4644769--4644916 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 43
4644759 TAAGATATCA
* * * * * *
4644769 TGTAAGACCATGTTTGGGACACAGGCCTTGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACAGAGACATCGATAT-TGATTTACG
* **
4644812 TATAAGACCATGTCTGGGACATCGACATCG-TATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACAGAGACATCGATAT-TGATTTACG
* * * * *
4644854 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTACG
*
4644897 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
4644917 GTCGGCATTG
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
42 32 0.39
43 50 0.61
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTACG
Done.