Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 55 of 438
Found at i:14186613 original size:26 final size:26
Alignment explanation
Indices: 14186567--14186619 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14186557 TCAAACATGC
*
14186567 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
14186593 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
14186619 A
1 A
14186620 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:14188129 original size:26 final size:26
Alignment explanation
Indices: 14188098--14188231 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
14188088 TGAAATGCCC
* *
14188098 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14188124 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14188150 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14188176 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14188202 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14188228 ATCA
1 ATCA
14188232 ATTTGTACCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14188659 original size:3 final size:3
Alignment explanation
Indices: 14188651--14188713 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
14188641 CTAGACTTAA
14188651 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
14188699 TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
14188714 AAATATTAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.93
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14188793 original size:15 final size:16
Alignment explanation
Indices: 14188775--14188807 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14188765 TATGGTTTCT
14188775 TTTAATATTAT-TATA
1 TTTAATATTATATATA
*
14188790 TTTACTATTATATATA
1 TTTAATATTATATATA
14188806 TT
1 TT
14188808 ATATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATATTATATATA
Found at i:14188890 original size:3 final size:3
Alignment explanation
Indices: 14188876--14188935 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
14188866 GTATTTTTAC
* *
14188876 TAT TAT TGT TAT TAT TAT TA- TAT TAT TAT TACA TAT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T
*
14188921 TAT ATAA TAT TAT TA
1 TAT -TAT TAT TAT TA
14188936 ATAGGTACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:14188901 original size:11 final size:11
Alignment explanation
Indices: 14188885--14188935 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
14188875 CTATTATTGT
14188885 TATTATTATTA
1 TATTATTATTA
14188896 TATTATTATTA
1 TATTATTATTA
*
14188907 CA-TATTATTA
1 TATTATTATTA
*
14188917 TATT-TATATAA
1 TATTAT-TATTA
14188928 TATTATTA
1 TATTATTA
14188936 ATAGGTACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 10 0.29
11 23 0.68
12 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATTATTA
Found at i:14189053 original size:26 final size:26
Alignment explanation
Indices: 14189024--14189086 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
14189014 ATTATCTTAG
* * * *
14189024 GTATATATTTTTTAATACTATATTGT
1 GTATATATTTTTCAACACCATATTAT
* *
14189050 GTATGTATTTTTCAACGCCATATTAT
1 GTATATATTTTTCAACACCATATTAT
14189076 GTATATATTTT
1 GTATATATTTT
14189087 AATATTACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.54
Consensus pattern (26 bp):
GTATATATTTTTCAACACCATATTAT
Found at i:14189750 original size:19 final size:21
Alignment explanation
Indices: 14189693--14189762 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
14189683 TGTAATGTGC
*
14189693 ATGTATTTTTAACACTATATT
1 ATGTATTTTTAATACTATATT
14189714 ATGTATATACTCTTAATA-T-TATT
1 ATGTAT-T--T-TTAATACTATATT
14189737 ATGTATTTTTAATAC-ATATGT
1 ATGTATTTTTAATACTATAT-T
14189758 ATGTA
1 ATGTA
14189763 CATACTTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
19 6 0.15
20 4 0.10
21 12 0.29
22 2 0.05
23 10 0.24
24 2 0.05
25 5 0.12
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
ATGTATTTTTAATACTATATT
Found at i:14202099 original size:77 final size:77
Alignment explanation
Indices: 14201991--14202140 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 77
14201981 TTCTGTTTTC
* * * **
14201991 AAAATTCAACTAATATTGCGAGAAATTAGTTGAGCCTCAAGAGACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
14202056 TGTCTTTTAAAA
66 TGTCTTTTAAAA
* ** * *
14202068 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
*
14202133 TGTTTTTT
66 TGTCTTTT
14202141 CAATTTATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (77 bp):
AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
TGTCTTTTAAAA
Found at i:14202142 original size:15 final size:15
Alignment explanation
Indices: 14202122--14202158 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14202112 CACTGAGGTA
* *
14202122 TTTTCAATTTCTGTT
1 TTTTCAATTTATATT
14202137 TTTTCAATTTATATT
1 TTTTCAATTTATATT
14202152 TTTTCAA
1 TTTTCAA
14202159 AAAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:14202321 original size:92 final size:93
Alignment explanation
Indices: 14202067--14202319 Score: 435
Period size: 90 Copynumber: 2.8 Consensus size: 93
14202057 GTCTTTTAAA
*
14202067 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACACTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
*
14202132 CTG--TT-TTTTCAATTTATATTTTTTC
66 CTGTTTTCTTTTCAATTTATATTTTCTC
* *
14202157 AAAAAATCAACTCATATTGCGAGAGGTGCGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
14202222 CTGTTTTCTTTTCAATTTATA-TTTCTC
66 CTGTTTTCTTTTCAATTTATATTTTCTC
14202249 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACACTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
14202313 CTGTTTT
66 CTGTTTT
14202320 TCAAAAAAAT
Statistics
Matches: 154, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
90 65 0.42
91 31 0.20
92 45 0.29
93 13 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (93 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTT
CTGTTTTCTTTTCAATTTATATTTTCTC
Found at i:14202353 original size:74 final size:76
Alignment explanation
Indices: 14202230--14202401 Score: 233
Period size: 74 Copynumber: 2.3 Consensus size: 76
14202220 TTCTGTTTTC
* * * *
14202230 TTTTCAATTTATATTTCTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACA
*
14202293 CA-CTGAGGTA
66 CAGCCGAGGTA
*
14202303 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACA
14202368 CATGCCGAGGTA
66 CA-GCCGAGGTA
* *
14202380 TTTTCAAAATTCCGTTTTTCAA
1 TTTTC-AATTTCTGTTTTTCAA
14202402 TTTCTATTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
73 16 0.19
74 39 0.45
75 5 0.06
77 12 0.14
78 14 0.16
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACA
CAGCCGAGGTA
Found at i:14202434 original size:94 final size:91
Alignment explanation
Indices: 14202303--14202718 Score: 386
Period size: 88 Copynumber: 4.6 Consensus size: 91
14202293 CACTGAGGTA
*
14202303 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
*
14202368 CATGCCGAGGTATTTTCAAAATTCCGT
65 CATGCCGAGGTATTTTCAAAATTCTGT
* *
14202395 TTTTCAATTTCTATTTCTCTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGC
1 TTTTCAATTTCTATTT-T-TC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGC
* * * *
14202459 TTACATGCTGAGGTATTTTC-AATTTATGTT
63 -CACATGCCGAGGTATTTTCAAAATTCTG-T
* * * * * * *
14202489 TTTTCAATTTATACTTTTCAAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCAC
14202554 ATGCCGAGGTATTTTCAAAA-TCTGT
66 ATGCCGAGGTATTTTCAAAATTCTGT
* * * * * *
14202579 TTTGCAAATTCT-GTTTTC-AAAAGTCAACTCATATTGCGAGA-AGTGAGTTGAGTCTTG-GCTC
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCGAGC-C
* * * * *
14202640 ACGTGCTGAGCTATTTTC-AATTTTTGT
64 ACATGCCGAGGTATTTTCAAAATTCTGT
* * * * * * *
14202667 TTTT-AATGTCTAGTTTT-AAAGAGTCAATTCATATTGCAAGAAAT-AGTTGAGC
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGC
14202719 TTAGGATCAC
Statistics
Matches: 270, Mismatches: 42, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
87 15 0.06
88 81 0.30
89 6 0.02
90 10 0.04
91 56 0.21
92 20 0.07
93 10 0.04
94 72 0.27
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (91 bp):
TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCAC
ATGCCGAGGTATTTTCAAAATTCTGT
Found at i:14202514 original size:259 final size:255
Alignment explanation
Indices: 14201986--14202586 Score: 746
Period size: 259 Copynumber: 2.3 Consensus size: 255
14201976 TTTATTTCTG
* * ** * * * **
14201986 TTTTC-AAAATTCAACTAATATTGCGAGAAATTAGTTGAGCCTCAAGAGACGTTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTC
* * *
14202050 AATTTCTGTCTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACAC
66 AATTTCTGT-TTTT-CAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACAC
* * * *
14202115 TGAGGTATTTTCAATTTCTGTTTTTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGCGAG
129 CGAGGTATTTTCAAATTCCGTTTTTTCAATTTATATTTTCTCAAAAAATCAACTCATATTGCGAG
* *
14202180 AGGTGCGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCTTTTCAATTTATA
194 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATG-TTTCTTTTCAATTTATA
14202243 TTTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACACTGAGGTATTTT
1 TTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTT
*
14202307 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GAGCCACAT
65 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG-GACACA-
* *
14202371 GCCGAGGTATTTTCAAAATTCCG-TTTTTCAATTTCTATTTCTCTCAAAAAAATCAACTTATATT
128 -CCGAGGTATTTTC-AAATTCCGTTTTTTCAATTTATATTT-TCTC-AAAAAATCAACTCATATT
* *
14202435 GCGAGAGGTGAGTTGAGCCTCAGCTTACATGCTGAGGTATTTTCAATTTATG-TT-TTTTCAATT
189 GCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATTTATGTTTCTTTTCAATT
14202498 TATA
252 TATA
* * * * *
14202502 CTTTTCAAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
1 -TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTATT
** *
14202567 TTCAAAATCTGTTTTGCAAA
63 TTCAATTTCTGTTTTTCAAA
14202587 TTCTGTTTTC
Statistics
Matches: 300, Mismatches: 30, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
255 1 0.00
256 43 0.14
257 7 0.02
258 55 0.18
259 94 0.31
260 50 0.17
262 50 0.17
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (255 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTC
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACACCG
AGGTATTTTCAAATTCCGTTTTTTCAATTTATATTTTCTCAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATGTTTCTTTTCAATTTATA
Found at i:14202540 original size:185 final size:180
Alignment explanation
Indices: 14202303--14202670 Score: 477
Period size: 179 Copynumber: 2.0 Consensus size: 180
14202293 CACTGAGGTA
* ** *
14202303 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
* * * *
14202368 CATGCCGAGGTATTTTCAAAATTCCGTTTTTCAATTTCTATTTCTCTCAAAAAAATCAACTTATA
66 CATGCCGAGGTATTTTCAAAA-TCCGTTTTGCAAATTCT-GTT-T-TC--AAAAATCAACTCATA
* * *
14202433 TTGCGAGAGGTGAGTTGAGCCTCAGCTTACATGCTGAGGTATTTTCAATTTATGTT
125 TTGCGAGAAGTGAGTTGAGCCTCAGCTCACATGCTGAGCTATTTTCAATTTATGTT
* * * *
14202489 TTTTCAATTTATACTTTTC-AAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
* *
14202553 CATGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTTTCAAAAGTCAACTCATATTGCGA
66 CATGCCGAGGTATTTTCAAAATCCGTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGA
* ** * *
14202618 GAAGTGAGTTGAGTCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGTT
131 GAAGTGAGTTGAGCCTCAGCTCACATGCTGAGCTATTTTCAATTTATGTT
14202668 TTT
1 TTT
14202671 AATGTCTAGT
Statistics
Matches: 160, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
179 64 0.40
181 2 0.01
182 1 0.01
183 2 0.01
184 14 0.09
185 61 0.38
186 16 0.10
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (180 bp):
TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
CATGCCGAGGTATTTTCAAAATCCGTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGA
GAAGTGAGTTGAGCCTCAGCTCACATGCTGAGCTATTTTCAATTTATGTT
Found at i:14202556 original size:91 final size:91
Alignment explanation
Indices: 14202303--14202683 Score: 414
Period size: 94 Copynumber: 4.2 Consensus size: 91
14202293 CACTGAGGTA
* *
14202303 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGC-C
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTC
*
14202367 ACATGCCGAGGTATTTTCAAAATTCCGT
65 ACATGCCGAGGTATTTTC-AAATTCTGT
* *
14202395 TTTTCAATTTCTATTTCTCTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGCT
1 TTTTCAATTTCTATTT-T-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
* * * *
14202460 TACATGCTGAGGTATTTTCAATTTATGTT
64 CACATGCCGAGGTATTTTCAAATTCTG-T
* * * * *
14202489 TTTTCAATTTATACTTTTC-AAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
*
14202553 CATGCCGAGGTATTTTCAAAATCTGT
66 CATGCCGAGGTATTTTCAAATTCTGT
* * * * * * *
14202579 TTTGCAAATTCT-GTTTTC--AAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGTCTTGGCTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* * * * *
14202641 CGTGCTGAGCTATTTTCAATTTTTGT
66 CATGCCGAGGTATTTTCAAATTCTGT
* *
14202667 TTTT-AATGTCTAGTTTT
1 TTTTCAATTTCTATTTTT
14202684 AAAGAGTCAA
Statistics
Matches: 243, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
87 5 0.02
88 65 0.27
89 5 0.02
90 10 0.04
91 60 0.25
92 17 0.07
93 9 0.04
94 72 0.30
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (91 bp):
TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CATGCCGAGGTATTTTCAAATTCTGT
Found at i:14202591 original size:14 final size:13
Alignment explanation
Indices: 14202565--14202600 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
14202555 TGCCGAGGTA
14202565 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
14202578 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
14202592 TTTTCAAAA
1 TTTTCAAAA
14202601 GTCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:14204348 original size:11 final size:11
Alignment explanation
Indices: 14204332--14204452 Score: 81
Period size: 11 Copynumber: 11.1 Consensus size: 11
14204322 TTAATTTTGC
14204332 TATATTATTAT
1 TATATTATTAT
*
14204343 TATATTATTGT
1 TATATTATTAT
*** *
14204354 TATGCAAATAT
1 TATATTATTAT
*
14204365 TAT-TTA-TAC
1 TATATTATTAT
* *
14204374 TAGACTTAATAT
1 TATA-TTATTAT
14204386 TATTATTATTAT
1 TA-TATTATTAT
14204398 TATATTATTAT
1 TATATTATTAT
*
14204409 TACA-TATTAT
1 TATATTATTAT
14204419 TATATT-TATAT
1 TATATTAT-TAT
*
14204430 AATATTATT-T
1 TATATTATTAT
14204440 TAGTATTATTAT
1 TA-TATTATTAT
14204452 T
1 T
14204453 TCTAATATGT
Statistics
Matches: 84, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
9 4 0.05
10 13 0.15
11 51 0.61
12 15 0.18
13 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (11 bp):
TATATTATTAT
Found at i:14204391 original size:3 final size:3
Alignment explanation
Indices: 14204383--14204452 Score: 65
Period size: 3 Copynumber: 23.3 Consensus size: 3
14204373 CTAGACTTAA
*
14204383 TAT TAT TAT TAT TAT TA- TAT TAT TAT TACA TAT TAT TA- TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT
* *
14204428 ATAA TAT TAT T-T TAG TAT TAT TAT T
1 -TAT TAT TAT TAT TAT TAT TAT TAT T
14204453 TCTAATATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
2 6 0.11
3 43 0.78
4 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:14204416 original size:27 final size:30
Alignment explanation
Indices: 14204386--14204452 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 30
14204376 GACTTAATAT
14204386 TATTATTATTA-TTATAT-TATTATTACA-
1 TATTATTATTATTTATATATATTATTACAG
**
14204413 TATTATTA-TATTTATATAATATTATTTTAG
1 TATTATTATTATTTATAT-ATATTATTACAG
14204443 TATTATTATT
1 TATTATTATT
14204453 TCTAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.06
27 14 0.42
29 8 0.24
30 8 0.24
31 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTATTATTATTTATATATATTATTACAG
Found at i:14204416 original size:30 final size:31
Alignment explanation
Indices: 14204379--14204452 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
14204369 TATACTAGAC
14204379 TTAATATTATTATTA-TTAT-T-ATATTATT
1 TTAATATTATTATTATTTATATAATATTATT
14204407 ATTACATATTATTA-TATTTATATAATATTATT
1 -TTA-ATATTATTATTATTTATATAATATTATT
*
14204439 TTAGTATTATTATT
1 TTAATATTATTATT
14204453 TCTAATATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 5 0.13
30 21 0.54
31 5 0.13
32 8 0.21
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (31 bp):
TTAATATTATTATTATTTATATAATATTATT
Found at i:14204452 original size:14 final size:13
Alignment explanation
Indices: 14204386--14204453 Score: 73
Period size: 14 Copynumber: 4.8 Consensus size: 13
14204376 GACTTAATAT
14204386 TATTATTATTATTA
1 TATTATTATT-TTA
**
14204400 TATTATTATTACA
1 TATTATTATTTTA
14204413 TATTATTATATTTA
1 TATTATTAT-TTTA
14204427 TATAATATTATTTTA
1 TAT--TATTATTTTA
14204442 GTATTATTATTT
1 -TATTATTATTT
14204454 CTAATATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.22
14 23 0.50
15 4 0.09
16 9 0.20
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:14204546 original size:26 final size:26
Alignment explanation
Indices: 14204494--14204604 Score: 91
Period size: 26 Copynumber: 4.3 Consensus size: 26
14204484 ATGCTATATC
* * * *
14204494 ATATTTTTATTATATTATCTTAGGTAT
1 ATATTTTT-TAATACTATATTATGTAT
*
14204521 ATATTTTTTAATACTATATTGTGTAT
1 ATATTTTTTAATACTATATTATGTAT
* * ** *
14204547 GTATTTTTCAACGCCATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
* *
14204573 ATA--TTTTAATACTACATTATATAT
1 ATATTTTTTAATACTATATTATGTAT
14204597 ATATTTTT
1 ATATTTTT
14204605 ATGTTATGTA
Statistics
Matches: 64, Mismatches: 18, Indels: 5
0.74 0.21 0.06
Matches are distributed among these distances:
24 18 0.28
26 38 0.59
27 8 0.12
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.55
Consensus pattern (26 bp):
ATATTTTTTAATACTATATTATGTAT
Found at i:14205208 original size:21 final size:20
Alignment explanation
Indices: 14205183--14205252 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 20
14205173 TGTATTGTGC
*
14205183 ATGTATTTTTAACACTATATT
1 ATGTATTTTTAATA-TATATT
14205204 ATGTATATACTCTTAATAT-TATT
1 ATGTAT-T--T-TTAATATATATT
14205227 ATGTATTTTTAATATATATGT
1 ATGTATTTTTAATATATAT-T
14205248 ATGTA
1 ATGTA
14205253 CATACTTATC
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.17
20 4 0.10
21 12 0.29
22 2 0.05
23 10 0.24
24 2 0.05
25 5 0.12
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (20 bp):
ATGTATTTTTAATATATATT
Found at i:14217598 original size:13 final size:13
Alignment explanation
Indices: 14217580--14217605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14217570 TCCCTTGTTT
14217580 CTTTTATGTGAAA
1 CTTTTATGTGAAA
14217593 CTTTTATGTGAAA
1 CTTTTATGTGAAA
14217606 ATATACTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTTTATGTGAAA
Found at i:14218119 original size:99 final size:99
Alignment explanation
Indices: 14217960--14218183 Score: 439
Period size: 99 Copynumber: 2.3 Consensus size: 99
14217950 CTGATTCGCA
*
14217960 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTAGTAGCCTGCACTTA
14218025 GTACTACACACATGACCTCACCATCTGATACATG
66 GTACTACACACATGACCTCACCATCTGATACATG
14218059 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTAGTAGCCTGCACTTA
14218124 GTACTACACACATGACCTCACCATCTGATACATG
66 GTACTACACACATGACCTCACCATCTGATACATG
14218158 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
14218184 CGTGATCGAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 124 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACATGACCTCACCATCTGATACATG
Found at i:14218234 original size:99 final size:98
Alignment explanation
Indices: 14217960--14218288 Score: 376
Period size: 99 Copynumber: 3.3 Consensus size: 98
14217950 CTGATTCGCA
* * * * *
14217960 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCGGTACACATACTAGCCTGCACTTA
14218025 GTACTACACACATGACCTCACCATCTGATACATG
66 GTACTA-ACACATGACCTCACCATCTGATACATG
* * * *
14218059 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCGGTACACATACTAGCCTGCACTTA
14218124 GTACTACACACATGACCTCACCATCTGATACATG
66 GTACTA-ACACATGACCTCACCATCTGATACATG
* * * * **
14218158 TAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAGTCATTGAGTATGCATACTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATC--CG-GTACACATACTAGCCTGCAC
* * * * * *
14218222 TTAATACT-ACACATG-CGACTTAACAGTATGGTACACG
63 TTAGTACTAACACATGAC--CTCACCA-TCTGATACATG
14218259 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
14218289 TATTCACAAT
Statistics
Matches: 207, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
98 5 0.02
99 135 0.65
100 6 0.03
101 61 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCGGTACACATACTAGCCTGCACTTA
GTACTAACACATGACCTCACCATCTGATACATG
Found at i:14218280 original size:50 final size:49
Alignment explanation
Indices: 14217960--14218286 Score: 329
Period size: 50 Copynumber: 6.6 Consensus size: 49
14217950 CTGATTCGCA
* *
14217960 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC-ATCTGGTACACG
** * * *
14218009 TAGTAGCCTGCACTTAGTACTACACACATGACCTCACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAACATCTGGTACACG
* * *
14218059 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAAAAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTC-AACATCTGGTACACG
** * * *
14218108 TAGTAGCCTGCACTTAGTACTACACACATGACCTCACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAACATCTGGTACACG
* ** *
14218158 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTCAT-TGAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTC-AA--CATCTG-GTACACG
* * * * *
14218209 TACTAGCCTGCACTTAATACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCAACA-TCTGGTACACG
14218259 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
14218287 TGTATTCACA
Statistics
Matches: 225, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.01
49 70 0.31
50 111 0.49
51 40 0.18
52 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACTCAACATCTGGTACACG
Found at i:14230214 original size:40 final size:42
Alignment explanation
Indices: 14230156--14230349 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 42
14230146 GGATATAGCG
* * *
14230156 ACTCGCTCG-ATTGTCTTCGGGACATT-GCCCGG-TTATAGTG
1 ACTCGCACGAATTGCCTTCGGGACATTAGCCCGGATT-TAGTA
*
14230196 A-TCCGCAC-AATTGCCTTCGAGA-ATTAGCCCGGATTTAGTA
1 ACT-CGCACGAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* * *
14230236 ACTCGCACGAA-TGCCTTCGGGAC-TTAACCCGGTTTTGGTA
1 ACTCGCACGAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* * * * *
14230276 ACTCGCAC-AAATGCCTTCGGAAC-TTAACCCGGTTTTAGTC
1 ACTCGCACGAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* **
14230316 ACTTAGCAC-AAAAGCCTTCGGGAC-TTAGCCCGGA
1 AC-TCGCACGAATTGCCTTCGGGACATTAGCCCGGA
14230350 CACCATTCGA
Statistics
Matches: 129, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
39 6 0.05
40 92 0.71
41 31 0.24
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (42 bp):
ACTCGCACGAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
Found at i:14230269 original size:80 final size:80
Alignment explanation
Indices: 14230130--14230348 Score: 212
Period size: 80 Copynumber: 2.7 Consensus size: 80
14230120 GAATCACGTA
* * ** * * *
14230130 CCTTCGGAATTTAA-CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATA
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGAC-TTAGCCCGGTTATA
* *
14230193 GTGA-TCCGCACAATTG
65 GTAACT-CGCACAAATG
* * * *
14230209 CCTTCGAGAA-TTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTG
1 CCTTCG-GAACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATA
14230273 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * *
14230289 CCTTCGGAACTTAACCCGGTTTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 CCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
14230349 ACACCATTCG
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 14 0.12
80 74 0.64
81 27 0.23
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:14230336 original size:41 final size:40
Alignment explanation
Indices: 14230199--14230348 Score: 176
Period size: 40 Copynumber: 3.7 Consensus size: 40
14230189 TATAGTGATC
* * *
14230199 CGCACAATTGCCTTCGAGAA-TTAGCCCGGATTTAGTAACT
1 CGCACAAATGCCTTCG-GAACTTAACCCGGTTTTAGTAACT
* * *
14230239 CGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACT
1 CGCACAAATGCCTTCGGAACTTAACCCGGTTTTAGTAACT
*
14230279 CGCACAAATGCCTTCGGAACTTAACCCGGTTTTAGTCACTT
1 CGCACAAATGCCTTCGGAACTTAACCCGGTTTTAGTAAC-T
* * * *
14230320 AGCACAAAAGCCTTCGGGACTTAGCCCGG
1 CGCACAAATGCCTTCGGAACTTAACCCGG
14230349 ACACCATTCG
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 66 0.70
41 26 0.28
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGAACTTAACCCGGTTTTAGTAACT
Found at i:14232694 original size:16 final size:15
Alignment explanation
Indices: 14232673--14232706 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14232663 TTTGAGAAAG
*
14232673 AAAAATAATAAAACAA
1 AAAAATAAGAAAA-AA
14232689 AAAAATAAGAAAAAA
1 AAAAATAAGAAAAAA
14232704 AAA
1 AAA
14232707 TGTGCTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAATAAGAAAAAA
Found at i:14233901 original size:23 final size:23
Alignment explanation
Indices: 14233873--14233918 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
14233863 ATATTCCGGT
14233873 TGATCAATAAAATATGCTCTCTC
1 TGATCAATAAAATATGCTCTCTC
14233896 TGATCAATAAAATATGCTCTCTC
1 TGATCAATAAAATATGCTCTCTC
14233919 ATTCTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
TGATCAATAAAATATGCTCTCTC
Found at i:14237515 original size:12 final size:11
Alignment explanation
Indices: 14237498--14237527 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
14237488 CAAAATATTC
14237498 AAAATTTTCATA
1 AAAATTTTCA-A
14237510 AAAATTTTCAA
1 AAAATTTTCAA
14237521 AAAATTT
1 AAAATTT
14237528 CTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTTTCAA
Found at i:14237532 original size:21 final size:21
Alignment explanation
Indices: 14237484--14237552 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
14237474 ATCAAAATCA
* * *
14237484 TTCTCAAAATATTC-AAAATT
1 TTCTAAAAATTTTCAAAAAAT
14237504 TTCATAAAAATTTTCAAAAAAT
1 TTC-TAAAAATTTTCAAAAAAT
* *
14237526 TTCTAAAATTTATTTAAAAAA-
1 TTCTAAAAATT-TTCAAAAAAT
14237547 TTCTAA
1 TTCTAA
14237553 GGAATATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.07
21 22 0.54
22 16 0.39
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCTAAAAATTTTCAAAAAAT
Found at i:14238388 original size:17 final size:17
Alignment explanation
Indices: 14238366--14238399 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14238356 CTCTCACCCC
14238366 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
14238383 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
14238400 GAAAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
ACTTATGTATTATATGG
Found at i:14238551 original size:18 final size:19
Alignment explanation
Indices: 14238485--14238551 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 19
14238475 AGGGATGAGA
*
14238485 TAAAGAAAAATAA-TAAATT
1 TAAAGAAAAATAATTTAA-T
14238504 TAAA-AATAAA-AA-TTAAT
1 TAAAGAA-AAATAATTTAAT
*
14238521 TAAAGAAATATAATTTAA-
1 TAAAGAAAAATAATTTAAT
*
14238539 TAAATAAAAATAA
1 TAAAGAAAAATAA
14238552 ACTAGAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.17
18 22 0.55
19 11 0.28
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAGAAAAATAATTTAAT
Found at i:14242027 original size:40 final size:40
Alignment explanation
Indices: 14241982--14242149 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
14241972 CGGAATATAA
14241982 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
14242022 CCGGATAGAATGTCGCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
14242062 CCGGATGTAGCCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
* ** * * *
14242102 CCGGATATAATCTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACGTGCACAAATGCCTTCGGG-TCTTAGC
14242142 CCGGATAT
1 CCGGATAT
14242150 CATTCAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
40 101 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:14242132 original size:80 final size:80
Alignment explanation
Indices: 14241998--14242147 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
14241988 ATAATCACGT
* *
14241998 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCGCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCGCGCACGAATGCCTTCGGGAT-TTAGC
14242062 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
14242078 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCGC-GCACGAA-TGCCTTCGGGATTTAG
14242141 CCCGGAT
64 CCCGGAT
14242148 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCGCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14250003 original size:40 final size:40
Alignment explanation
Indices: 14249958--14250125 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
14249948 CGGAATATAA
14249958 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
14249998 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
14250038 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
14250078 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
14250118 CCGGATAT
1 CCGGATAT
14250126 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14250108 original size:80 final size:80
Alignment explanation
Indices: 14249974--14250123 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
14249964 ATAATCACGT
*
14249974 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
14250038 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
14250054 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
14250117 CCCGGAT
64 CCCGGAT
14250124 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14262134 original size:40 final size:40
Alignment explanation
Indices: 14262089--14262256 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
14262079 CGGAATATAA
*
14262089 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGAGCACAAATGCCTTCGGGTCTTAGC
* ** *
14262129 CCGGATAGAATGTCGAGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
14262169 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACGAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
14262209 CCGGATATAATCTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACGAGCACAAATGCCTTCGGG-TCTTAGC
14262249 CCGGATAT
1 CCGGATAT
14262257 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
40 103 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACGAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14262239 original size:80 final size:80
Alignment explanation
Indices: 14262105--14262254 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
14262095 ATAATCACGT
* * *
14262105 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCGAGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCCAGCACGAATGCCTTCGGGAT-TTAGC
14262169 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
14262185 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCAGCA-TAATTGTCTTCGGGATTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCCAGCACGAA-TGCCTTCGGGATTTAGC
14262249 CCGGAT
65 CCGGAT
14262255 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 2 0.03
80 58 0.95
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCCAGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14265277 original size:13 final size:13
Alignment explanation
Indices: 14265261--14265287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14265251 CTAAATTTGT
14265261 TTTACTAACCACC
1 TTTACTAACCACC
14265274 TTTACTAACCACC
1 TTTACTAACCACC
14265287 T
1 T
14265288 GATCATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:14274304 original size:24 final size:24
Alignment explanation
Indices: 14274272--14274323 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
14274262 AATCAAAGTC
* *
14274272 AAATATATTATACTTATAAATGCT
1 AAATATATTATACTCATAAATACT
14274296 AAATATATTATACTCATAAATACT
1 AAATATATTATACTCATAAATACT
14274320 AAAT
1 AAAT
14274324 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTCATAAATACT
Found at i:14276202 original size:13 final size:13
Alignment explanation
Indices: 14276184--14276210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14276174 CTGAAGTAGT
14276184 TTTACTAACCACC
1 TTTACTAACCACC
14276197 TTTACTAACCACC
1 TTTACTAACCACC
14276210 T
1 T
14276211 GATCGTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:14279234 original size:19 final size:18
Alignment explanation
Indices: 14279200--14279263 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 18
14279190 ATTTTAAAAC
*
14279200 AATTTTAATTTTGATTGAA
1 AATTTTAA-CTTGATTGAA
14279219 AATATTTAACTTGATTGAA
1 AAT-TTTAACTTGATTGAA
14279238 ACCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
14279257 AAGTTTT
1 AA-TTTT
14279264 TCCAAAAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.10
19 16 0.40
20 17 0.43
21 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:14293154 original size:42 final size:42
Alignment explanation
Indices: 14293107--14293218 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
14293097 ACTCATAGGA
**
14293107 CACACTGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCT
1 CACACTGCCTGGGCACACGCCCATGTCCTTGCCCCTGTGGCT
14293149 CACACTGCCTGGGCACACGCCCATGTCCTTGCCCCTGTGGCT
1 CACACTGCCTGGGCACACGCCCATGTCCTTGCCCCTGTGGCT
* * *
14293191 CACA-TGGCCTAGACACATGCCCATGTCC
1 CACACT-GCCTGGGCACACGCCCATGTCC
14293219 CTGGCCATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.21
Consensus pattern (42 bp):
CACACTGCCTGGGCACACGCCCATGTCCTTGCCCCTGTGGCT
Found at i:14295690 original size:57 final size:57
Alignment explanation
Indices: 14295557--14295804 Score: 168
Period size: 57 Copynumber: 4.4 Consensus size: 57
14295547 TCATACAACA
* * * * **
14295557 GGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCTAAGAGTTTTGTCAT
1 GGATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAAGCTTAATCAT
* * * * *
14295614 -GATTATCAGTCTAGGCTAAATCCTTTTTGTGACAAATACTCTAAAAAGCTTAATC-T
1 GGATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCT-AAAAGCTTAATCAT
* * * * * * *
14295670 GGATTACCAGTCCAGGCTAAATCC-AGACTTTAACATATGCTC-AAAGGCTCAATTA-
1 GGATTACCAGTCCAGGCTAAATCCTA-TCTGTAACAAATACTCTAAAAGCTTAATCAT
* * * * * * * *
14295725 GGATTACCAATCCAGGCTAAATCCTAAT-TGCAACATATGCTCGAGAGGCTTGTATCA-
1 GGATTACCAGTCCAGGCTAAATCCT-ATCTGTAACAAATACTCTAAAAGCTT-AATCAT
*
14295782 GGATTACCAGTCCGGGCTAAATC
1 GGATTACCAGTCCAGGCTAAATC
14295805 GTTTCGATAA
Statistics
Matches: 150, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
55 44 0.29
56 42 0.28
57 64 0.43
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (57 bp):
GGATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAAGCTTAATCAT
Found at i:14295760 original size:55 final size:57
Alignment explanation
Indices: 14295661--14295804 Score: 163
Period size: 55 Copynumber: 2.6 Consensus size: 57
14295651 ACTCTAAAAA
* *
14295661 GCTT-AATCTGGATTACCAGTCCAGGCTAAATCCAGACTTTAACATATGCTC-AAAG
1 GCTTCAATCAGGATTACCAGTCCAGGCTAAATCCAGACTTCAACATATGCTCGAAAG
* * *
14295716 GC-TCAATTAGGATTACCAATCCAGGCTAAATCCTA-A-TTGCAACATATGCTCGAGAG
1 GCTTCAATCAGGATTACCAGTCCAGGCTAAATCC-AGACTT-CAACATATGCTCGAAAG
** *
14295772 GCTTGTATCAGGATTACCAGTCCGGGCTAAATC
1 GCTTCAATCAGGATTACCAGTCCAGGCTAAATC
14295805 GTTTCGATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
54 3 0.04
55 40 0.54
56 6 0.08
57 25 0.34
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (57 bp):
GCTTCAATCAGGATTACCAGTCCAGGCTAAATCCAGACTTCAACATATGCTCGAAAG
Found at i:14312282 original size:3 final size:3
Alignment explanation
Indices: 14312276--14312310 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14312266 CCACCACCAC
14312276 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
14312311 AGAATCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:14315461 original size:19 final size:19
Alignment explanation
Indices: 14315430--14315490 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
14315420 TTAAAACAAT
14315430 TTTAACTTTGATTGAAAATG
1 TTTAAC-TTGATTGAAAATG
14315450 TTTAACTTGATTGAAACCAT-
1 TTTAACTTGATTGAAA--ATG
14315470 TTTAACTTGATT-AAAA-G
1 TTTAACTTGATTGAAAATG
14315487 TTTA
1 TTTA
14315491 TTCAAAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.13
19 13 0.34
20 18 0.47
21 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (19 bp):
TTTAACTTGATTGAAAATG
Found at i:14316312 original size:2 final size:2
Alignment explanation
Indices: 14316305--14316331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14316295 CCTAAAAATA
14316305 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14316332 ATTTCTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14323433 original size:24 final size:24
Alignment explanation
Indices: 14323406--14323455 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14323396 TTGTCCTATT
14323406 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
14323430 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
14323454 AG
1 AG
14323456 CTCTCCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (24 bp):
AGGATATCTCAAAACTTTATTTGC
Found at i:14326704 original size:18 final size:18
Alignment explanation
Indices: 14326564--14326710 Score: 70
Period size: 18 Copynumber: 8.2 Consensus size: 18
14326554 ATCTTTGCGA
*
14326564 AGCTCGCATGTTT-GATG
1 AGCTCGCAAGTTTGGATG
* * * *
14326581 AGCTCGTAATTTTGGTTA
1 AGCTCGCAAGTTTGGATG
*
14326599 AGCTCGC-AGCTTTCGATG
1 AGCTCGCAAG-TTTGGATG
* * **
14326617 AACTTGCAA-TTATGTTTG
1 AGCTCGCAAGTT-TGGATG
* * *
14326635 AGCTCGTAACTTTGAATG
1 AGCTCGCAAGTTTGGATG
* *
14326653 AGCTCG-TAGTTTTCGATG
1 AGCTCGCAAG-TTTGGATG
*
14326671 AGCTCGCATA-TCTGGATG
1 AGCTCGCA-AGTTTGGATG
*
14326689 AGCTCGCAAGTTTGGATA
1 AGCTCGCAAGTTTGGATG
14326707 AGCT
1 AGCT
14326711 AACAACTTTG
Statistics
Matches: 92, Mismatches: 29, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
17 15 0.16
18 73 0.79
19 3 0.03
20 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (18 bp):
AGCTCGCAAGTTTGGATG
Found at i:14334012 original size:19 final size:18
Alignment explanation
Indices: 14333990--14334032 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
14333980 TTTTAATTTA
14333990 TTTTTAATTCATTTAGAATT
1 TTTTTAATT--TTTAGAATT
*
14334010 TTTTTAAATTTTTAGGATT
1 TTTTT-AATTTTTAGAATT
14334029 TTTT
1 TTTT
14334033 AAAGTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 5 0.24
21 4 0.19
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTTAATTTTTAGAATT
Found at i:14334486 original size:22 final size:22
Alignment explanation
Indices: 14334460--14334512 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
14334450 AATTTCTCTC
*
14334460 AATTTTTGTC-AAAGCTCTCTTT
1 AATTTTTG-CAAAAGCTCTATTT
14334482 AATTTTTGCAAAAAAGCTCTATTT
1 AATTTTTGC--AAAAGCTCTATTT
14334506 AATTTTT
1 AATTTTT
14334513 TTGAATTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
24 18 0.67
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (22 bp):
AATTTTTGCAAAAGCTCTATTT
Found at i:14336200 original size:30 final size:30
Alignment explanation
Indices: 14336164--14336277 Score: 131
Period size: 30 Copynumber: 3.8 Consensus size: 30
14336154 ACGCGAGCCT
* *
14336164 ATCAACAGCTTCC-ACACAGTCACCAGGCTC
1 ATCAACAGC-GCCGACACAGTCACCAGGCCC
* * *
14336194 ATCAACAGCGCCTACACAGTTACCGGGCCC
1 ATCAACAGCGCCGACACAGTCACCAGGCCC
*
14336224 ATTAACAGCGCCGACACAGTCACCAGGCCC
1 ATCAACAGCGCCGACACAGTCACCAGGCCC
* * *
14336254 ATCAACAGTGCCCACATAGTCACC
1 ATCAACAGCGCCGACACAGTCACC
14336278 GGACCCAACA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 2 0.03
30 69 0.97
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.14
Consensus pattern (30 bp):
ATCAACAGCGCCGACACAGTCACCAGGCCC
Found at i:14339100 original size:46 final size:46
Alignment explanation
Indices: 14339033--14339293 Score: 389
Period size: 46 Copynumber: 5.7 Consensus size: 46
14339023 GGCAACCTGA
14339033 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
14339079 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
14339125 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
14339171 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
14339217 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
14339263 GAGTAAGACCATAG-TGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
14339294 TCATGTCAAA
Statistics
Matches: 199, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
45 15 0.08
46 184 0.92
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:14343787 original size:126 final size:126
Alignment explanation
Indices: 14343563--14343831 Score: 369
Period size: 126 Copynumber: 2.1 Consensus size: 126
14343553 CAAATAGTAA
* * * ** * * * * *
14343563 ACTACTGTAGTAAAAGAGCGTTCGTGTGAGAGGTTTTTTCTGTAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGAAAGTGCATCCT
* * *
14343628 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTT-TTAAAT
66 GCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTAAAT
*
14343688 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGACAAGTGCATCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGA-AAGTGCATCC
* *
14343753 TGCTTAAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTTAAT
65 TGCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTAAAT
*
14343815 ACTACTGCAGCAAAAAA
1 ACTACTGTAGCAAAAAA
14343832 AATAAAAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
125 45 0.36
126 59 0.47
127 21 0.17
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGAAAGTGCATCCT
GCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTAAAT
Found at i:14343934 original size:72 final size:64
Alignment explanation
Indices: 14343892--14344022 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
14343882 TTAACCCTAA
*
14343892 TAACCCT-AAA-CCTTAAACCCTAATTTAATTGATTCTTTTAAATTAATAGTTAATTTAATTAAT
1 TAACCCTAAAATCC-TAAACCCTAATTTAATTGATTTTTTTAAATTAATAGTTAATTTAATTAAT
* *
14343955 AAACCCTAAAATCCTAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAAT
1 TAACCCTAAAATCCTAAACCCTAATTTAATTGATTTTTTTAAATTAATAGTTAATTTAATTAAT
14344019 TAAC
1 TAAC
14344023 TCTCAACCCT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
63 6 0.10
64 54 0.87
65 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (64 bp):
TAACCCTAAAATCCTAAACCCTAATTTAATTGATTTTTTTAAATTAATAGTTAATTTAATTAAT
Found at i:14343958 original size:56 final size:57
Alignment explanation
Indices: 14343898--14344045 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 57
14343888 CTAATAACCC
*
14343898 TAAACCT-TAAACCCTAATTTAATTGATTCTTTTAAATTAATAGTTAATTTAATTAA
1 TAAACCTCTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAATTAA
*
14343954 TAAACCCTAAAATCCTAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAA
1 TAAA-CC-----T-CTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAATTAA
* *
14344018 TTAA-CTCTCAACCCTAATTTAATTAATT
1 TAAACCTCTAAACCCTAATTTAATTAATT
14344046 TTCCTTTAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
56 25 0.31
57 3 0.04
62 2 0.03
64 50 0.62
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (57 bp):
TAAACCTCTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAATTAA
Found at i:14344083 original size:16 final size:14
Alignment explanation
Indices: 14344056--14344108 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 14
14344046 TTCCTTTAAA
14344056 AAACACTAAAACCTT
1 AAAC-CTAAAACCTT
*
14344071 AAACTCTTAAAACCCT
1 AAAC-C-TAAAACCTT
14344087 AAACCT-AAACCTT
1 AAACCTAAAACCTT
*
14344100 AACCCTAAA
1 AAACCTAAA
14344109 CCAATCAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.34
14 3 0.09
15 6 0.19
16 12 0.38
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTAAAACCTT
Found at i:14345964 original size:14 final size:16
Alignment explanation
Indices: 14345933--14345966 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
14345923 AGTCTTTGTG
14345933 TATTATTTTTATATTA
1 TATTATTTTTATATTA
14345949 TATTA-TTTTA-ATTA
1 TATTATTTTTATATTA
14345963 TATT
1 TATT
14345967 GTAATGACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATTTTTATATTA
Found at i:14347774 original size:3 final size:3
Alignment explanation
Indices: 14347759--14347830 Score: 67
Period size: 3 Copynumber: 24.7 Consensus size: 3
14347749 TTTTAACATC
* * *
14347759 ATT ATT TTT ATT ATT ATT ACT ATT -TT -TT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
14347805 ATT ATC ACT ACT ATT ATT ATA ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
14347831 CATAGTATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:14347821 original size:21 final size:20
Alignment explanation
Indices: 14347795--14347845 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
14347785 TTACTATTAT
14347795 TATTATTATTATTATCACTAC
1 TATTATTATTATTATCA-TAC
* *
14347816 TATTATTATAATTATCATAG
1 TATTATTATTATTATCATAC
*
14347836 TATTTTTATT
1 TATTATTATT
14347846 TAAAAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTATTATTATTATCATAC
Found at i:14348567 original size:146 final size:145
Alignment explanation
Indices: 14348283--14348706 Score: 616
Period size: 146 Copynumber: 2.8 Consensus size: 145
14348273 AATTTTATTA
* * *
14348283 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTATTACCACTGGTTATTTTA
1 TTGTTAAACCC-TTTTTTCACATGATCGTTATTTATTTACT---TGATTACCATTAGTTATTTTA
14348348 AAATTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTAT
62 AAATTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTG---------AT
14348413 TCGTTCGTTCTCGTTTTCCTTGTTGTAT
118 TCGTTCGTTCTCGTTTTCCTTGTTGTAT
*
14348441 TTGTTAAACCCTTTTTTCACATGATCGTTATTTTTTTTTACTTGATTACCATTAGTTATTTTAAA
1 TTGTTAAACCCTTTTTTCACATGATCGTTA--TTTATTTACTTGATTACCATTAGTTATTTTAAA
*
14348506 A-TTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTATGATTAATTTGATTCGTTCGTTCT
64 ATTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCGTTCGTTCT
14348570 CGTTTTCCTTGTTGTAT
129 CGTTTTCCTTGTTGTAT
* * *
14348587 TTGTTAAACCATTTTTTTCACATGATCGTTATTTATTTACTCGATTACTATTAGTTATTTTAAAA
1 TTGTTAAACC-CTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
*
14348652 TTTTGAATTTCTTAGCTTACTTATTATTTTTTTCTTTTTATGATTAATTTGATTC
65 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTC
14348707 ATTTATTCGT
Statistics
Matches: 251, Mismatches: 11, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
145 31 0.12
146 92 0.37
147 19 0.08
155 49 0.20
156 21 0.08
157 19 0.08
158 11 0.04
159 9 0.04
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.56
Consensus pattern (145 bp):
TTGTTAAACCCTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCGTTCGTTCTCG
TTTTCCTTGTTGTAT
Found at i:14350422 original size:11 final size:11
Alignment explanation
Indices: 14350408--14350447 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
14350398 GTTTTCTCCC
14350408 TATTTTGCTAT
1 TATTTTGCTAT
*
14350419 TATTTTACTAT
1 TATTTTGCTAT
* *
14350430 TATGTTGCTAC
1 TATTTTGCTAT
14350441 TATTTTG
1 TATTTTG
14350448 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:14351065 original size:45 final size:45
Alignment explanation
Indices: 14350970--14351181 Score: 232
Period size: 45 Copynumber: 4.7 Consensus size: 45
14350960 AGGTAGAGGG
* ** * *
14350970 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACA
1 TATATATAATATTTGTCGGTTTCACCAACTAGTGCTGGGCACAT--A
*
14351017 TATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCACATA
1 TATATATAATATTTGTCGGTTTCACCAACTAGTGCTGGGCACATA
* * * *
14351062 TATATAGTAAT-TTT-T-GGTTTTACCAACCAGTGCTGGGCATAAA
1 TATATA-TAATATTTGTCGGTTTCACCAACTAGTGCTGGGCACATA
* * **
14351105 TATATATAATATTTGTCGGTTTCACCGACTAGTGCTTGGCACACG
1 TATATATAATATTTGTCGGTTTCACCAACTAGTGCTGGGCACATA
* *
14351150 TATATGTAATATTTGTTGGTTTCACCAACTAG
1 TATATATAATATTTGTCGGTTTCACCAACTAG
14351182 CGCTAGGTGC
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.03
43 32 0.23
44 2 0.01
45 60 0.43
46 4 0.03
47 38 0.27
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (45 bp):
TATATATAATATTTGTCGGTTTCACCAACTAGTGCTGGGCACATA
Found at i:14351073 original size:90 final size:89
Alignment explanation
Indices: 14350970--14351178 Score: 287
Period size: 90 Copynumber: 2.3 Consensus size: 89
14350960 AGGTAGAGGG
* * *
14350970 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCG
1 TATATATAATAATTGTTGGTTTCACCAACCAGTGCTGGG--CATAAATATATATAATATTTGTCG
14351035 GTTTCACCAACTAGTG-TTGGGCACA-
64 GTTTCACCAACTAGTGCTT-GGCACAC
* * *
14351060 TATATATAGTAATTTTTGGTTTTACCAACCAGTGCTGGGCATAAATATATATAATATTTGTCGGT
1 TATATATAATAATTGTTGGTTTCACCAACCAGTGCTGGGCATAAATATATATAATATTTGTCGGT
*
14351125 TTCACCGACTAGTGCTTGGCACAC
66 TTCACCAACTAGTGCTTGGCACAC
* *
14351149 GTATATGTAATATTTGTTGGTTTCACCAAC
1 -TATATATAATAATTGTTGGTTTCACCAAC
14351179 TAGCGCTAGG
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
88 44 0.42
89 2 0.02
90 58 0.56
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (89 bp):
TATATATAATAATTGTTGGTTTCACCAACCAGTGCTGGGCATAAATATATATAATATTTGTCGGT
TTCACCAACTAGTGCTTGGCACAC
Found at i:14351129 original size:88 final size:89
Alignment explanation
Indices: 14350970--14351178 Score: 271
Period size: 88 Copynumber: 2.3 Consensus size: 89
14350960 AGGTAGAGGG
* * * * *
14350970 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCG
1 TATATATAGTAATTTTTGGTTTCACCAACCAGTGCTGGG-ACATAAATATATATAATATTTGTCG
14351035 GTTTCACCAACTAGTG-TTGGGCACA
65 GTTTCACCAACTAGTGCTT-GGCACA
*
14351060 TATATATAGTAATTTTTGGTTTTACCAACCAGTGCTGGG-CATAAATATATATAATATTTGTCGG
1 TATATATAGTAATTTTTGGTTTCACCAACCAGTGCTGGGACATAAATATATATAATATTTGTCGG
*
14351124 TTTCACCGACTAGTGCTTGGCACA
66 TTTCACCAACTAGTGCTTGGCACA
**
14351148 CGTATAT-GTAATATTTGTTGGTTTCACCAAC
1 TATATATAGT-A-ATTT-TTGGTTTCACCAAC
14351179 TAGCGCTAGG
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
87 2 0.02
88 50 0.48
89 6 0.06
90 47 0.45
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (89 bp):
TATATATAGTAATTTTTGGTTTCACCAACCAGTGCTGGGACATAAATATATATAATATTTGTCGG
TTTCACCAACTAGTGCTTGGCACA
Found at i:14352721 original size:17 final size:17
Alignment explanation
Indices: 14352681--14352722 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14352671 CCGTGTGACC
14352681 CTTGTTTTCAAAATTTT
1 CTTGTTTTCAAAATTTT
**
14352698 CAAGTTTTCCAAAATTTT
1 CTTGTTTT-CAAAATTTT
14352716 -TTGTTTT
1 CTTGTTTT
14352723 ATTTCAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (17 bp):
CTTGTTTTCAAAATTTT
Found at i:14354987 original size:51 final size:52
Alignment explanation
Indices: 14354885--14354988 Score: 174
Period size: 51 Copynumber: 2.0 Consensus size: 52
14354875 AAAAAAAAAA
*
14354885 GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
1 GATAAAATTGAGTATTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
* *
14354937 GATAAAATTGAGTATTGACTAAA-TTGTGAAAGGGCCATTCCAGTAGGCTTG
1 GATAAAATTGAGTATTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
14354988 G
1 G
14354989 CTTGCCAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 27 0.55
52 22 0.45
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (52 bp):
GATAAAATTGAGTATTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
Found at i:14357149 original size:49 final size:47
Alignment explanation
Indices: 14357084--14357193 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 47
14357074 AGTGATAATT
*
14357084 TTAAATTTTCAATTCTATTCGATATTTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATTCTATTCGATA-TTTTATTAATTTATGC-AATTATAA
* *
14357133 TTAAATTTGCAATTCTATTTGATATTTTATTGATTTATGCAATTATAA
1 TTAAATTT-CAATTCTATTCGATATTTTATTAATTTATGCAATTATAA
14357181 TTAAAATTTCAAT
1 TT-AAATTTCAAT
14357194 ATTGCTTGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
47 4 0.07
48 26 0.47
49 25 0.45
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (47 bp):
TTAAATTTCAATTCTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:14357203 original size:48 final size:46
Alignment explanation
Indices: 14357109--14357217 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 46
14357099 TATTCGATAT
* *
14357109 TTTTTTTAATTTATGCAAATTTAATTAAATTTGCAATTCTATTTGA
1 TTTTTTTGATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
*
14357155 TATTTTATTGATTTATGC-AATTATAATTAAAATTT-CAATAT-TGCTTGA
1 T-TTTT-TTGATTTATGCAAATT-TAATT-AAATTTGCAAT-TCTACTTGA
*
14357203 TTTTTTTTATTTATG
1 TTTTTTTGATTTATG
14357218 ATGTTTGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
46 10 0.19
47 12 0.22
48 25 0.46
49 7 0.13
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (46 bp):
TTTTTTTGATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
Found at i:14359474 original size:17 final size:17
Alignment explanation
Indices: 14359427--14359476 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
14359417 TGGATTGTCC
*
14359427 TTTTAATCTTAT-TTTTA
1 TTTTAAT-TTATGTTTTT
* *
14359444 TTTCAATTGA-GTTTTT
1 TTTTAATTTATGTTTTT
14359460 TTTTAATTTATGTTTTT
1 TTTTAATTTATGTTTTT
14359477 ATTCGTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTAATTTATGTTTTT
Found at i:14359507 original size:22 final size:23
Alignment explanation
Indices: 14359454--14359508 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
14359444 TTTCAATTGA
* *
14359454 GTTTTTTTTTAATTTATGTTTTT
1 GTTTTTTTTTAATTTAAGATTTT
* **
14359477 ATTCGTTTTT-ATTTAAGATTTT
1 GTTTTTTTTTAATTTAAGATTTT
14359499 GTTTTTTTTT
1 GTTTTTTTTT
14359509 TTAAATTATC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (23 bp):
GTTTTTTTTTAATTTAAGATTTT
Found at i:14359663 original size:34 final size:30
Alignment explanation
Indices: 14359603--14359704 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 30
14359593 TATTATGTAA
* *
14359603 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTTTTATTTTAAAATTTAT-ATTATACAT
*
14359633 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TATTTTTATTTT-AAAATTTAT--ATTATACAT
*
14359667 TATATATTATTTTAAAATTTATATTATACAT
1 TAT-TTTTATTTTAAAATTTATATTATACAT
14359698 TATTTTT
1 TATTTTT
14359705 TATATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.05
31 22 0.36
32 7 0.11
33 13 0.21
34 16 0.26
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTTATTTTAAAATTTATATTATACAT
Found at i:14359741 original size:14 final size:14
Alignment explanation
Indices: 14359667--14359741 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
14359657 CATTATACAT
14359667 TATATATTATTTTA
1 TATATATTATTTTA
* *
14359681 -AAAT-TTATATTA
1 TATATATTATTTTA
*
14359693 TACATTATT-TTTTA
1 TATA-TATTATTTTA
*
14359707 TATATATTA-TTGA
1 TATATATTATTTTA
*
14359720 TTTCATATTATTTTA
1 TAT-ATATTATTTTA
*
14359735 TGTATAT
1 TATATAT
14359742 ATCACTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
12 7 0.15
13 14 0.30
14 18 0.39
15 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:14359836 original size:2 final size:2
Alignment explanation
Indices: 14359824--14359854 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14359814 CTTACTTTAT
*
14359824 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14359855 TTTAACACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14366194 original size:16 final size:16
Alignment explanation
Indices: 14366173--14366208 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
14366163 ATACCTTAAG
*
14366173 CATTTAAAAAAAAGAT
1 CATTTAAAAAAAAGAA
14366189 CATTTAAAAAAAAGAA
1 CATTTAAAAAAAAGAA
14366205 CATT
1 CATT
14366209 CTCATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (16 bp):
CATTTAAAAAAAAGAA
Found at i:14366367 original size:63 final size:64
Alignment explanation
Indices: 14366239--14366429 Score: 285
Period size: 63 Copynumber: 3.0 Consensus size: 64
14366229 TCATTCATAA
*
14366239 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * *
14366303 CACATCTAGTTAGGAGCATTTGATTCATTTTGA-CATTGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * * * * *
14366366 CACATCTGGTTAGGAGTATTGGATTTATTTTGATCACAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
14366430 GATACATGAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 57 0.50
64 56 0.50
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
Found at i:14366649 original size:45 final size:45
Alignment explanation
Indices: 14366599--14366758 Score: 167
Period size: 45 Copynumber: 3.4 Consensus size: 45
14366589 ATCTCCCTAG
14366599 AGTTGCAATGGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGA
1 AGTTGCAATGGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGA
* * * * * * *
14366644 AGTTGCAGTGGAACAGACCGAATCTATAAATAAACAGATCTTATCTCTCTGA
1 AGTTGCAATGG---AG-CAG-A-CTGTAAAT-AGCAAATCTTATTTCCCTGA
*
14366696 AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGA
1 AGTTGCAATGGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGA
* *
14366741 AGTTGCAGTGGAACAGAC
1 AGTTGCAATGGAGCAGAC
14366759 CGAATCTATA
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
45 41 0.46
46 7 0.08
47 1 0.01
48 4 0.04
49 4 0.04
50 1 0.01
51 7 0.08
52 25 0.28
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (45 bp):
AGTTGCAATGGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGA
Found at i:14366696 original size:52 final size:52
Alignment explanation
Indices: 14366629--14366799 Score: 203
Period size: 52 Copynumber: 3.4 Consensus size: 52
14366619 TAAATAGCAA
*
14366629 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
* * * * * * *
14366681 ATCTTATCTCTCTGAAGTTGCAAT---AGAG-CAG-A-CTGTAAAT-AGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
*
14366726 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
*
14366778 ATCTTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCA
14366800 ATAGAGCAGA
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 24 0.26
46 7 0.07
47 1 0.01
48 5 0.05
49 5 0.05
50 1 0.01
51 7 0.07
52 44 0.47
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAG
Found at i:14366753 original size:97 final size:97
Alignment explanation
Indices: 14366599--14366845 Score: 430
Period size: 97 Copynumber: 2.6 Consensus size: 97
14366589 ATCTCCCTAG
*
14366599 AGTTGCAATGGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCG
1 AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCG
14366664 AATCTATAAATAAACAGATCTTATCTCTCTGA
66 AATCTATAAATAAACAGATCTTATCTCTCTGA
14366696 AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCG
1 AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCG
14366761 AATCTATAAATAAACAGATCTTATCTCTCTGA
66 AATCTATAAATAAACAGATCTTATCTCTCTGA
* * *
14366793 AGTTGCAATAGAGCAGA---T-CATAGCAAAACTTATCTCCCTGAAGTTGCAGTGGA
1 AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGA
14366846 GCAAGTTGAA
Statistics
Matches: 146, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
93 32 0.22
94 1 0.01
97 113 0.77
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (97 bp):
AGTTGCAATAGAGCAGACTGTAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACCG
AATCTATAAATAAACAGATCTTATCTCTCTGA
Found at i:14367186 original size:177 final size:177
Alignment explanation
Indices: 14366883--14367656 Score: 1029
Period size: 177 Copynumber: 4.4 Consensus size: 177
14366873 CCTGAAGTTT
* * * * * * *
14366883 TAGTGGAGCAGACCAAAGACGGCAAATCTTATCTACATGTATCGACAATTGAGCAGATTT-TGCC
1 TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
** ** *
14366947 ACTGGCCTTATCTCTCTGAGGTAACAAGAGAGCATATTGGC-AGTTGTAGTCTTATCTTCCTGAG
66 ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGA-TTGTAGTCTTATCTTCCTGAG
14367011 GTAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
130 GTAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
* * * *
14367059 TAGTGGAGCAGATCGAACATGGCGAATCTTATCTTCATGTATTGGCAATGGAGCAGATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
* * * * *
14367124 ACTAGCCTTATCTGTCTGAGTTAGCAAGAGAGCAGTTTGACGATTGTAGTCTTATCTTCCTGAGG
66 ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGG
* *
14367189 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCAAAGCAG
131 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
*
14367236 TAGTGGAGCGGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
* * * * *
14367301 ACCAGCCTTATCTCTCTGAGGCAGCAAGAGAGTAGGTTGAAGATTG-AGTCTTATCTTTCTGAGG
66 ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGG
* *
14367365 TAGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAG
131 TAG-AAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
* * * * *
14367412 TAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTTAGCC
1 TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
* * * * *
14367477 ACCAGCCTTATCTTTCTAACGTAACAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGA
66 ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGG
* * * *
14367542 TAGCAAGGAAGCAGATTGAAGATTGAATATC-TATTTCCCTAAGCAG
131 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
* * * * * *
14367588 TTGTGGAGCAGATCAAGGATGG-AAATCTTATCTCCGTGTATCGGAAATGGAGCAAATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
14367652 ACCAG
66 ACCAG
14367657 TCCTATTTCC
Statistics
Matches: 526, Mismatches: 67, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
175 42 0.08
176 239 0.45
177 244 0.46
178 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (177 bp):
TAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGG
TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
Found at i:14367202 original size:44 final size:45
Alignment explanation
Indices: 14367130--14367225 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
14367120 AGCCACTAGC
* ** * *
14367130 CTTATCTGTCTGAGTTAGCAAGAGAGCAGTTTGACGATTGTAG-T
1 CTTATCTGTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
14367174 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTGT-CTGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAGAT
14367219 CTTATCT
1 CTTATCT
14367226 CCCAAAGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 34 0.77
45 8 0.18
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTATCTGTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
Found at i:14367467 original size:353 final size:353
Alignment explanation
Indices: 14366883--14367656 Score: 1092
Period size: 353 Copynumber: 2.2 Consensus size: 353
14366873 CCTGAAGTTT
* * * * * *
14366883 TAGTGGAGCAGACCAAAGACGGCAAATCTTATCTACATGTATCGACAATTGAGCAGATTT-TGCC
1 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
** * * *
14366947 ACTGGCCTTATCTCTCTGAGGTAACAAGAGAGCATATTGGCAGTTGTAGTCTTATCTTCCTGAGG
66 ACCAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGG
* * *
14367012 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAC
131 TAGAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAC
* * * *
14367077 ATGGCGAATCTTATCTTCATGTATTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTGTCTG
196 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGTCTA
* * *
14367142 A-GTTAGCAAGAGAGCAGTTTGACGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
261 ACG-TAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACT
14367206 GAAGATTGAAGATCTTATCTCCCAAAGCAG
325 GAAGATTGAAGATC-TATCTCCCAAAGCAG
* *
14367236 TAGTGGAGCGGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
* * * *
14367301 ACCAGCCTTATCTCTCTGAGGCAGCAAGAGAGTAGGTT-GAAGATTG-AGTCTTATCTTTCTGAG
66 ACCAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAG-TTGTAGTCTTATCTTCCTGAG
14367364 GTAGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGA
130 GTAG-AAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGA
* * * * *
14367428 AGATGGTGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTTTC
194 ACATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGTC
* *
14367493 TAACGTAACAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGAT
259 TAACGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGAC
* * *
14367558 TGAAGATTGAATATCTATTTCCCTAAGCAG
324 TGAAGATTGAAGATCTATCTCCCAAAGCAG
* * * * *
14367588 TTGTGGAGCAGATCAAGGATGG-AAATCTTATCTCCGTGTATCGGAAATGGAGCAAATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
14367652 ACCAG
66 ACCAG
14367657 TCCTATTTCC
Statistics
Matches: 373, Mismatches: 44, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
351 43 0.12
352 32 0.09
353 257 0.69
354 41 0.11
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (353 bp):
TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
ACCAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGG
TAGAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAC
ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGTCTA
ACGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTG
AAGATTGAAGATCTATCTCCCAAAGCAG
Found at i:14369053 original size:22 final size:23
Alignment explanation
Indices: 14369022--14369064 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14369012 AATCGAGTTT
* *
14369022 TTTTTAATTTATGTTTTTATTCG
1 TTTTTAATTTAAGATTTTATTCG
14369045 TTTTT-ATTTAAGATTTTATT
1 TTTTTAATTTAAGATTTTATT
14369065 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTAATTTAAGATTTTATTCG
Found at i:14369231 original size:34 final size:30
Alignment explanation
Indices: 14369169--14369270 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 30
14369159 TATTACGTAA
* *
14369169 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTTTTATTTTAAAATTTAT-ATTATACAT
*
14369199 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TATTTTTATTTT-AAAATTTAT--ATTATACAT
*
14369233 TATATATTATTTTAAAATTTATATTATACAT
1 TAT-TTTTATTTTAAAATTTATATTATACAT
14369264 TATTTTT
1 TATTTTT
14369271 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.05
31 22 0.36
32 7 0.11
33 13 0.21
34 16 0.26
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTTATTTTAAAATTTATATTATACAT
Found at i:14369308 original size:14 final size:14
Alignment explanation
Indices: 14369233--14369308 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
14369223 CATTATACAT
14369233 TATATATTATTTTA
1 TATATATTATTTTA
* *
14369247 -AAAT-TTATATTA
1 TATATATTATTTTA
* *
14369259 TACATTATTTTTTTA
1 TATA-TATTATTTTA
*
14369274 TATATATTA-TTGA
1 TATATATTATTTTA
*
14369287 TTTCATATTATTTTA
1 TAT-ATATTATTTTA
*
14369302 TGTATAT
1 TATATAT
14369309 ATCACTTCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 15 0.33
15 14 0.30
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:14370731 original size:5 final size:5
Alignment explanation
Indices: 14370721--14370747 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14370711 ATAGAATAAT
14370721 ATTGC ATTGC ATTGC ATTGC ATTGC AT
1 ATTGC ATTGC ATTGC ATTGC ATTGC AT
14370748 GACCGCTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTGC
Found at i:14371160 original size:7 final size:7
Alignment explanation
Indices: 14371148--14371194 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
14371138 TAATCGTTTC
14371148 GTATTTA
1 GTATTTA
14371155 GTATTTA
1 GTATTTA
14371162 GTATTTA
1 GTATTTA
14371169 GTATTTA
1 GTATTTA
14371176 GTATTTA
1 GTATTTA
14371183 GTATTTA
1 GTATTTA
14371190 GTATT
1 GTATT
14371195 ATGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:14371810 original size:18 final size:18
Alignment explanation
Indices: 14371787--14371825 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14371777 ATGCCAGGTG
*
14371787 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
14371805 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
14371823 TGT
1 TGT
14371826 TTCATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:14375604 original size:125 final size:126
Alignment explanation
Indices: 14375289--14375670 Score: 570
Period size: 126 Copynumber: 3.0 Consensus size: 126
14375279 ATTTATATCC
*
14375289 TTATTTTTCTACGAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGC
1 TTATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGC
* * * *
14375354 TGACAGTGCATCCTACTTGAAG-AGTTTTCGACACTATTTGTTCAGAAATGTCTACTTATAA
66 TGACAGTGCATCCTGCTTGAAGCA-TTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAA
* * * * * *
14375415 TTATTTTTGTACAAACAACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTCTCAGGAATTTTGC
1 TTATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGC
*
14375480 TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTATTCAG-AACGTCTACTCAAAA
66 TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAA
* * *
14375540 TTATTTTCCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGC
1 TTATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGC
* * * *
14375605 TAACAGTGCTTCCTGCTTGAAGCGTTTTCGACACTATCTGTTCAGAAACGTCTACTCAAAA
66 TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAA
14375666 TTATT
1 TTATT
14375671 CTTGCAGAAA
Statistics
Matches: 228, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 108 0.47
126 119 0.52
127 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (126 bp):
TTATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGC
TGACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAA
Found at i:14376227 original size:19 final size:19
Alignment explanation
Indices: 14376205--14376286 Score: 107
Period size: 19 Copynumber: 4.4 Consensus size: 19
14376195 ACCATTATGT
14376205 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
14376224 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAA-TTA
* *
14376244 ATCAATTAACCTTAATTTA
1 ATCAATTAACCCTAAATTA
*
14376263 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAAATTA
14376279 ATCAATTA
1 ATCAATTA
14376287 TCCTTAATAC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
16 14 0.25
17 1 0.02
18 1 0.02
19 24 0.42
20 17 0.30
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:14376284 original size:35 final size:38
Alignment explanation
Indices: 14376205--14376294 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
14376195 ACCATTATGT
* *
14376205 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCTTAATTTAATCAATT-ACCCTAAATTTA
14376244 ATCAATTAACCTTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCTTAATTTAATCAATTACCCTAAATTTA
*
14376279 ATCAATTATCCTTAAT
1 ATCAATTAACCTTAAT
14376295 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 4 0.08
38 1 0.02
39 22 0.46
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (38 bp):
ATCAATTAACCTTAATTTAATCAATTACCCTAAATTTA
Found at i:14376397 original size:22 final size:21
Alignment explanation
Indices: 14376384--14376431 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
14376374 ACCTTAAACT
14376384 TAAACCCTAAAAACCCTAACC
1 TAAACCCTAAAAACCCTAACC
* *
14376405 TAAATCCTAAAAAACTCTAACCC
1 TAAACCCT-AAAAACCCTAA-CC
14376428 TAAA
1 TAAA
14376432 TCAATTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 10 0.43
23 6 0.26
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAAAACCCTAACC
Found at i:14384123 original size:12 final size:12
Alignment explanation
Indices: 14384092--14384116 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14384082 TTGTGTGTTC
14384092 TTTATTTTATTT
1 TTTATTTTATTT
14384104 TTTATTTTATTT
1 TTTATTTTATTT
14384116 T
1 T
14384117 ATTTTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:14391983 original size:21 final size:22
Alignment explanation
Indices: 14391957--14392011 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
14391947 ATTTTTCTCA
*
14391957 TAAAAATTATAAAAAGTA-TGT
1 TAAAAATTATAAAAAGTATTAT
*
14391978 TAAAAA-TA-AAAAATTATTAT
1 TAAAAATTATAAAAAGTATTAT
14391998 TAAAAATTATAAAA
1 TAAAAATTATAAAA
14392012 TAAGATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 8 0.28
22 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TAAAAATTATAAAAAGTATTAT
Found at i:14392012 original size:21 final size:20
Alignment explanation
Indices: 14391957--14392012 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
14391947 ATTTTTCTCA
* *
14391957 TAAAAATTATAAAAAGTATGT
1 TAAAAATTAT-AAAATTATAT
*
14391978 TAAAAA-TAAAAAATTATTAT
1 TAAAAATTATAAAATTA-TAT
14391998 TAAAAATTATAAAAT
1 TAAAAATTATAAAAT
14392013 AAGATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 13 0.45
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAATTATAAAATTATAT
Found at i:14395060 original size:22 final size:22
Alignment explanation
Indices: 14395035--14395076 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14395025 TATTTAAACT
14395035 TATTTTTGTCAT-AAATGGTACC
1 TATTTTTGTC-TCAAATGGTACC
*
14395057 TATTTTTTTCTCAAATGGTA
1 TATTTTTGTCTCAAATGGTA
14395077 GCTCTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (22 bp):
TATTTTTGTCTCAAATGGTACC
Found at i:14396915 original size:47 final size:47
Alignment explanation
Indices: 14396856--14396978 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
14396846 GCATTGGCAC
*
14396856 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
14396903 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
14396950 TAAGACAAGGATATCATGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
14396979 CCAGGCATGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:14397020 original size:54 final size:54
Alignment explanation
Indices: 14396956--14397173 Score: 228
Period size: 54 Copynumber: 4.0 Consensus size: 54
14396946 TTGGTAAGAC
* *
14396956 AAGGATATCATGTAAGACCATGTCCAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
* * *
14397010 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTATTATAAGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGG-A
* * * * *
14397066 AAGG-T-TCCATGTAAGACCAT-TCTAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 AAGGATAT-CATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCTATAAGGA
* * * * * *
14397118 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
14397172 AA
1 AA
14397174 AGGTTCCCGA
Statistics
Matches: 137, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
52 4 0.03
53 37 0.27
54 53 0.39
55 38 0.28
56 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
Found at i:14414345 original size:2 final size:2
Alignment explanation
Indices: 14414335--14414366 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14414325 GAATGAAAAA
14414335 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14414367 GTGTGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14420219 original size:12 final size:12
Alignment explanation
Indices: 14420202--14420241 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
14420192 CACTGTTATT
14420202 CCTGTTTTGGAA
1 CCTGTTTTGGAA
14420214 CCTGTTTT----
1 CCTGTTTTGGAA
14420222 CCTGTTTTGGAA
1 CCTGTTTTGGAA
14420234 CCTGTTTT
1 CCTGTTTT
14420242 TCCTATCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
8 8 0.33
12 16 0.67
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.50
Consensus pattern (12 bp):
CCTGTTTTGGAA
Found at i:14420244 original size:21 final size:21
Alignment explanation
Indices: 14420194--14420245 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
14420184 CCTACAGCCA
*
14420194 CTGTTATTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
14420215 CTG-TTTTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
14420235 CTGTTTTTCCT
1 CTGTTTTTCCT
14420246 ATCTCCACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (21 bp):
CTGTTTTTCCTGTTTTGGAAC
Found at i:14427268 original size:18 final size:18
Alignment explanation
Indices: 14427245--14427292 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14427235 ATGAAAAAGG
14427245 TTATTTATATTAATATTT
1 TTATTTATATTAATATTT
*
14427263 TTATTT-TTTATAATATTT
1 TTATTTATAT-TAATATTT
*
14427281 TTA-ATATATTAA
1 TTATTTATATTAA
14427293 ATCATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTATATTAATATTT
Found at i:14429306 original size:2 final size:2
Alignment explanation
Indices: 14429294--14429334 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
14429284 CAAACTTGGT
*
14429294 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14429335 TTAAATTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14430082 original size:16 final size:15
Alignment explanation
Indices: 14430058--14430103 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
14430048 ATTTCTTATT
14430058 TAAATTATTTTTTTA
1 TAAATTATTTTTTTA
14430073 TAAATATATTTTTTTA
1 TAAAT-TATTTTTTTA
14430089 TATAATTATGTTTTT
1 TA-AATTAT-TTTTT
14430104 CATCCACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.18
16 15 0.54
17 8 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAAATTATTTTTTTA
Found at i:14430092 original size:18 final size:18
Alignment explanation
Indices: 14430053--14430103 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
14430043 ATACCATTTC
*
14430053 TTATTTAAAT-TA-TTTT
1 TTATATAAATATATTTTT
14430069 TT-TATAAATATATTTTT
1 TTATATAAATATATTTTT
* *
14430086 TTATATAATTATGTTTTT
1 TTATATAAATATATTTTT
14430104 CATCCACATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 6 0.21
18 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATATAAATATATTTTT
Found at i:14432588 original size:3 final size:3
Alignment explanation
Indices: 14432582--14432607 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14432572 AGTGACCAAT
14432582 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
14432608 TTCGTCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:14438691 original size:23 final size:23
Alignment explanation
Indices: 14438623--14438709 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
14438613 CCTGATCAGT
* *
14438623 ATACGACACATAAAGTGACT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
14438645 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
*
14438665 ATACGACACACGAAGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
14438688 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
14438710 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.58
22 1 0.02
23 20 0.38
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:14439106 original size:15 final size:14
Alignment explanation
Indices: 14439082--14439131 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
14439072 CATATATATT
14439082 ATATAATTCAATCA
1 ATATAATTCAATCA
14439096 ATATGAATTCAATCA
1 ATAT-AATTCAATCA
*
14439111 AAATAATTTCAATCA
1 ATATAA-TTCAATCA
14439126 ATATAA
1 ATATAA
14439132 ATTAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 6 0.19
15 26 0.81
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:14439531 original size:19 final size:19
Alignment explanation
Indices: 14439493--14439545 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
14439483 AATAACATTG
*
14439493 TATTATTACTTAT-T-TAT
1 TATTATTACATATGTATAT
*
14439510 TATT-TATACATGTGTATAT
1 TATTAT-TACATATGTATAT
14439529 TATTATTACATATGTAT
1 TATTATTACATATGTAT
14439546 CCATAGATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 1 0.03
17 9 0.31
18 1 0.03
19 17 0.59
20 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTATTACATATGTATAT
Found at i:14439640 original size:17 final size:20
Alignment explanation
Indices: 14439619--14439659 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
14439609 ATTATTTAAT
14439619 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
14439639 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
14439659 T
1 T
14439660 TAAATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:14441799 original size:13 final size:13
Alignment explanation
Indices: 14441781--14441805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14441771 TCATACTCAC
14441781 AAAATTCCCCAAT
1 AAAATTCCCCAAT
14441794 AAAATTCCCCAA
1 AAAATTCCCCAA
14441806 CTGCTGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATTCCCCAAT
Found at i:14443307 original size:12 final size:12
Alignment explanation
Indices: 14443285--14443331 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
14443275 TGTTAAGTTT
14443285 TTTAGATTTTGTG
1 TTTAGATTTTG-G
14443298 TTTA-ATTTTGG
1 TTTAGATTTTGG
* **
14443309 TTTTGATTTTCT
1 TTTAGATTTTGG
14443321 TTTAGATTTTG
1 TTTAGATTTTG
14443332 TTAAGTTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.66
Consensus pattern (12 bp):
TTTAGATTTTGG
Found at i:14443329 original size:24 final size:25
Alignment explanation
Indices: 14443284--14443331 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
14443274 TTGTTAAGTT
*
14443284 TTTTAGATTTTGTGTTTAATTTTGG
1 TTTTAGATTTTCTGTTTAATTTTGG
14443309 TTTT-GATTTTCT-TTTAGATTTTG
1 TTTTAGATTTTCTGTTTA-ATTTTG
14443332 TTAAGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.67
Consensus pattern (25 bp):
TTTTAGATTTTCTGTTTAATTTTGG
Found at i:14444520 original size:13 final size:13
Alignment explanation
Indices: 14444502--14444562 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
14444492 AGTTTGGCAA
14444502 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
14444515 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
14444528 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
14444541 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
14444554 TGCTTTTGA
1 TGCTTTTGA
14444563 AAAATTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Done.