Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 55
Found at i:10167813 original size:38 final size:38
Alignment explanation
Indices: 10167742--10167849 Score: 110
Period size: 38 Copynumber: 2.8 Consensus size: 38
10167732 TGAACCTGAT
* * * *
10167742 TATTTCACTT-AAAAAACCCAACCCGAACACGACCCGTA
1 TATTACACTTAAAAAAACCCGACCC-AACCCGACCCGAA
* *
10167780 TATTACACTTAAAAAAACCCGACCCTACCCGACCTGAA
1 TATTACACTTAAAAAAACCCGACCCAACCCGACCCGAA
* * * *
10167818 TATCAAACTTAAAAAAACTCGACCCGACCCGA
1 TATTACACTTAAAAAAACCCGACCCAACCCGA
10167850 TCCTGATTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 46 0.78
39 13 0.22
ACGTcount: A:0.41, C:0.33, G:0.08, T:0.18
Consensus pattern (38 bp):
TATTACACTTAAAAAAACCCGACCCAACCCGACCCGAA
Found at i:10167888 original size:28 final size:29
Alignment explanation
Indices: 10167842--10167907 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
10167832 AAACTCGACC
** *
10167842 CGACCCGAT-CCTGATTTTTTTTAAAAAT
1 CGACCCGATCCCAAATTTTTTTAAAAAAT
10167870 CGACCCGATCCCAAATTTTTTTAAAAAAT
1 CGACCCGATCCCAAATTTTTTTAAAAAAT
10167899 CAGACCCGA
1 C-GACCCGA
10167908 CCCGAATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.27
29 17 0.52
30 7 0.21
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
CGACCCGATCCCAAATTTTTTTAAAAAAT
Found at i:10167957 original size:28 final size:28
Alignment explanation
Indices: 10167926--10167986 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
10167916 TCACACTTAA
*
10167926 AAAAACCCGACCCGAACCCGATTTTTTT
1 AAAAACCCGACCCGAACCCGAATTTTTT
* * *
10167954 AAAAATCCGACCCGATCCTGAATTTTTT
1 AAAAACCCGACCCGAACCCGAATTTTTT
10167982 AAAAA
1 AAAAA
10167987 AAAACTAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (28 bp):
AAAAACCCGACCCGAACCCGAATTTTTT
Found at i:10167978 original size:91 final size:93
Alignment explanation
Indices: 10167806--10167988 Score: 246
Period size: 91 Copynumber: 2.0 Consensus size: 93
10167796 ACCCGACCCT
* * *
10167806 ACCCGACCTGAATATCAAACTTAAAAAAACTCGACCCGACCCGATCCTGATTTTTTTTAAAAATC
1 ACCCGACCCGAATATCAAACTTAAAAAAA--C-ACCCGACCCGAACCCGATTTTTTTTAAAAATC
*
10167871 GACCCGATCCCAAATTTTTTTAAAAAATCAG
63 GACCCGATCCCAAATTTTTTAAAAAAATCAG
*
10167902 ACCCGACCCGAATATCACACTT-AAAAAA-ACCCGACCCGAACCCGA-TTTTTTTAAAAATCCGA
1 ACCCGACCCGAATATCAAACTTAAAAAAACACCCGACCCGAACCCGATTTTTTTTAAAAAT-CGA
**
10167964 CCCGATCCTGAATTTTTTAAAAAAA
65 CCCGATCCCAAATTTTTTAAAAAAA
10167989 AACTAACCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
90 13 0.16
91 40 0.51
95 6 0.08
96 20 0.25
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.25
Consensus pattern (93 bp):
ACCCGACCCGAATATCAAACTTAAAAAAACACCCGACCCGAACCCGATTTTTTTTAAAAATCGAC
CCGATCCCAAATTTTTTAAAAAAATCAG
Found at i:10169768 original size:38 final size:38
Alignment explanation
Indices: 10169713--10169794 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 38
10169703 TCATTAAATC
* *
10169713 TTTTTATATTTTCAATTT-TGTTAAA-AAACTTATATAAA
1 TTTTTATAATTTCAATTTGT-TTAAAGAAA-ATATATAAA
10169751 TTTTTATGAATTT-AATTTGTTTAAAGAAAATATATAAA
1 TTTTTAT-AATTTCAATTTGTTTAAAGAAAATATATAAA
10169789 TATTTT
1 T-TTTT
10169795 CCAACTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
38 26 0.68
39 12 0.32
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (38 bp):
TTTTTATAATTTCAATTTGTTTAAAGAAAATATATAAA
Found at i:10174175 original size:31 final size:31
Alignment explanation
Indices: 10174140--10174473 Score: 546
Period size: 31 Copynumber: 10.8 Consensus size: 31
10174130 TTGCCATTTC
*
10174140 CAATACTAGTGGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
10174171 CAATACTAG-TGAATTGAGCATTATTAACATT
1 CAATACTAGTTG-ATTGAGCATTATTAACATT
*
10174202 CAATACTAG-TGTATTGAGCATTATCAACATT
1 CAATACTAGTTG-ATTGAGCATTATTAACATT
10174233 CAATACTAGTTGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
10174264 CAATACTAGTTGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10174295 CAATACTAGTTGATTGAGCATTATTAATATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10174326 CAATACTAGTTTATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
* *
10174357 CAATAATAGTTTATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10174388 CAATAATAGTTGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
* *
10174419 CAATACTAGTTAATTGAGCATTATTAATATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10174450 CAATACTAGTTGAATGAGCATTAT
1 CAATACTAGTTGATTGAGCATTAT
10174474 CCAATACTAG
Statistics
Matches: 287, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
30 1 0.00
31 284 0.99
32 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (31 bp):
CAATACTAGTTGATTGAGCATTATTAACATT
Found at i:10179835 original size:31 final size:31
Alignment explanation
Indices: 10179797--10180161 Score: 531
Period size: 31 Copynumber: 11.8 Consensus size: 31
10179787 TTGCCATTTC
*
10179797 CAATACTAGTGGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
10179828 CAATACTAG-TGAATTGAGCATTATTAACATT
1 CAATACTAGTTG-ATTGAGCATTATTAACATT
*
10179859 CAATACTAG-TGAATTGAGCATTATGAACATT
1 CAATACTAGTTG-ATTGAGCATTATTAACATT
* *
10179890 CAATACTAG-TGTATTGAGCATTATCAATATT
1 CAATACTAGTTG-ATTGAGCATTATTAACATT
* *
10179921 TAATACTAGTTGATTGAGTATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
* *
10179952 CAATACTAGTTGATTAAGCATTATTAATATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10179983 CAATACTAGTTTATT-AGGCATTATTAACATT
1 CAATACTAGTTGATTGA-GCATTATTAACATT
* *
10180014 CAATACTAGTTGATTGGGCATTATTAATATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
* *
10180045 CAATACTAGTTTATTGAGCATTATTAATATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10180076 CAATACTAGTTTATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
10180107 CAATACTAGTTGATTGAGCATTATTAACATT
1 CAATACTAGTTGATTGAGCATTATTAACATT
*
10180138 CAATACTAGTTGAATGAGCATTAT
1 CAATACTAGTTGATTGAGCATTAT
10180162 CCAATACTAG
Statistics
Matches: 307, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
30 2 0.01
31 303 0.99
32 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (31 bp):
CAATACTAGTTGATTGAGCATTATTAACATT
Found at i:10180573 original size:29 final size:29
Alignment explanation
Indices: 10180541--10180601 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
10180531 AAAGCAGTTA
10180541 GTTAATTCAGATTATTTTTAGATAGAATT
1 GTTAATTCAGATTATTTTTAGATAGAATT
* *
10180570 GTTATTTTAGATTATTTTTAGATAGAATT
1 GTTAATTCAGATTATTTTTAGATAGAATT
10180599 GTT
1 GTT
10180602 CTTGTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (29 bp):
GTTAATTCAGATTATTTTTAGATAGAATT
Found at i:10181344 original size:4 final size:4
Alignment explanation
Indices: 10181337--10181386 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
10181327 TAAAATGTAA
* * *
10181337 ACAT ACAT ACAT ACAT GCAT ATAT ACAT ACAT ACAT ACAT A-AT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10181384 ACA
1 ACA
10181387 CGCATACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 3 0.08
4 37 0.93
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (4 bp):
ACAT
Found at i:10184282 original size:14 final size:14
Alignment explanation
Indices: 10184263--10184292 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10184253 TTTAGATTTT
*
10184263 TTAAAATTACATTA
1 TTAAAAATACATTA
10184277 TTAAAAATACATTA
1 TTAAAAATACATTA
10184291 TT
1 TT
10184293 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:10184334 original size:19 final size:20
Alignment explanation
Indices: 10184297--10184334 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10184287 ATTATTGATA
*
10184297 ATTATAAAATTTTAAAATAT
1 ATTATAAAATTCTAAAATAT
*
10184317 ATTA-AAAATTCTATAATA
1 ATTATAAAATTCTAAAATA
10184335 CAACTAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATAAAATTCTAAAATAT
Found at i:10184410 original size:14 final size:14
Alignment explanation
Indices: 10184374--10184419 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10184364 TGTGATAGGA
* *
10184374 TTTAGGGTTTATGA
1 TTTAGGGTTTAAGG
10184388 TTT-GTGGTTTAAGG
1 TTTAG-GGTTTAAGG
10184402 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
10184416 TTTA
1 TTTA
10184420 AGTTATGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:10185035 original size:225 final size:225
Alignment explanation
Indices: 10184644--10185094 Score: 839
Period size: 225 Copynumber: 2.0 Consensus size: 225
10184634 CACAGATTGA
*
10184644 GCTAACATCGACCCATGTTCGCAAATAGAGAAGTTATTAAAGGTGCAATAGAACATACTTTAAAT
1 GCTAACATCGACCCATGTTCGCAAATAGAGAAGTTATTAAAGGTGCAATAGAACATACGTTAAAT
*
10184709 GGAATGTAAGCATGTATGCCATTGACAGGACCAACGGTGAAGCCTGTATACCCGACCATTGCTCT
66 GGAATGTAAGCATGTATGCCATTGACAGGACCAACGGTGAAGCCTGTATACCCGACCATTGCTCC
* *
10184774 ATGAACTGCGACGTGAGCAAGTAGGGCGCAGTAGACATTATCCGAAAGTGTTGGAGTTTGGGTGG
131 ATGAACTGAGACGTGAGCAAATAGGGCGCAGTAGACATTATCCGAAAGTGTTGGAGTTTGGGTGG
*
10184839 AAGGAATGGAGAAGAAGCTGATATATAGTG
196 AAGGAACGGAGAAGAAGCTGATATATAGTG
10184869 GCTAACATCGACCCATGTTCGCAAATAGAGAAGTTATTAAAGGTGCAATAGAACATACGTTAAAT
1 GCTAACATCGACCCATGTTCGCAAATAGAGAAGTTATTAAAGGTGCAATAGAACATACGTTAAAT
* *
10184934 GGAATGTAAGTATGTATGCCATTGACAGGACCAACGGTGAAGCCTGTATACCCGAGCATTGCTCC
66 GGAATGTAAGCATGTATGCCATTGACAGGACCAACGGTGAAGCCTGTATACCCGACCATTGCTCC
10184999 ATGAACTGAGACGTGAGCAAATAGGGCGCAGTAGACATTATCCGAAAGTGTTGGAGTTTGGGTGG
131 ATGAACTGAGACGTGAGCAAATAGGGCGCAGTAGACATTATCCGAAAGTGTTGGAGTTTGGGTGG
10185064 AAGGAACGGAGAAGAAGCTGATATATAGTG
196 AAGGAACGGAGAAGAAGCTGATATATAGTG
10185094 G
1 G
10185095 GGTTTGTCTT
Statistics
Matches: 219, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
225 219 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (225 bp):
GCTAACATCGACCCATGTTCGCAAATAGAGAAGTTATTAAAGGTGCAATAGAACATACGTTAAAT
GGAATGTAAGCATGTATGCCATTGACAGGACCAACGGTGAAGCCTGTATACCCGACCATTGCTCC
ATGAACTGAGACGTGAGCAAATAGGGCGCAGTAGACATTATCCGAAAGTGTTGGAGTTTGGGTGG
AAGGAACGGAGAAGAAGCTGATATATAGTG
Found at i:10185735 original size:12 final size:12
Alignment explanation
Indices: 10185718--10185760 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
10185708 CGAGTTTCAA
*
10185718 TCGAGCTCGAGT
1 TCGAGCTTGAGT
* *
10185730 TCGAGCTTTAAT
1 TCGAGCTTGAGT
10185742 T-GAGCTTGAGT
1 TCGAGCTTGAGT
10185753 TCGAGCTT
1 TCGAGCTT
10185761 TAATTGAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (12 bp):
TCGAGCTTGAGT
Found at i:10185746 original size:23 final size:23
Alignment explanation
Indices: 10185708--10185839 Score: 141
Period size: 23 Copynumber: 6.0 Consensus size: 23
10185698 ACTATGGCTT
*
10185708 CGAG-TTTCAATCGAGCTCGAGTT
1 CGAGCTTT-AATCGAGCTCGAGTC
* * *
10185731 CGAGCTTTAATTGAGCTTGAGTT
1 CGAGCTTTAATCGAGCTCGAGTC
*
10185754 CGAGCTTTAATTGAGCTC-AGTC
1 CGAGCTTTAATCGAGCTCGAGTC
10185776 CGAGC----ATCGAGCTCGAGTC
1 CGAGCTTTAATCGAGCTCGAGTC
*
10185795 CGAGCTTCAATCGAGCTCGAGTC
1 CGAGCTTTAATCGAGCTCGAGTC
* *
10185818 CGAGATTTAATCGAGTTCGAGT
1 CGAGCTTTAATCGAGCTCGAGT
10185840 AGAGTTTCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.08
19 9 0.09
22 8 0.08
23 67 0.71
24 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
CGAGCTTTAATCGAGCTCGAGTC
Found at i:10185748 original size:11 final size:11
Alignment explanation
Indices: 10185732--10185770 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10185722 GCTCGAGTTC
10185732 GAGCTTTAATT
1 GAGCTTTAATT
* *
10185743 GAGCTTGAGTT
1 GAGCTTTAATT
10185754 CGAGCTTTAATT
1 -GAGCTTTAATT
10185766 GAGCT
1 GAGCT
10185771 CAGTCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (11 bp):
GAGCTTTAATT
Found at i:10185788 original size:41 final size:42
Alignment explanation
Indices: 10185708--10185821 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 42
10185698 ACTATGGCTT
* * * * *
10185708 CGAGTTTCAATCGAGCTCGAGTTCGAGCTTTAATTGAGCTTGAGTT
1 CGAGCTTCAATCGAGCTCGAGTCCGAGC----ATCGAGCTCGAGTC
* *
10185754 CGAGCTTTAATTGAGCTC-AGTCCGAGCATCGAGCTCGAGTC
1 CGAGCTTCAATCGAGCTCGAGTCCGAGCATCGAGCTCGAGTC
10185795 CGAGCTTCAATCGAGCTCGAGTCCGAG
1 CGAGCTTCAATCGAGCTCGAGTCCGAG
10185822 ATTTAATCGA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 27 0.47
42 8 0.14
45 8 0.14
46 15 0.26
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (42 bp):
CGAGCTTCAATCGAGCTCGAGTCCGAGCATCGAGCTCGAGTC
Found at i:10186749 original size:21 final size:21
Alignment explanation
Indices: 10186709--10186749 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10186699 AGATAAAATA
* *
10186709 TTATATAAAACATTATTATTT
1 TTATATAAAACATAAATATTT
*
10186730 TTATATAAAATATAAATATT
1 TTATATAAAACATAAATATT
10186750 GTTTTTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATATAAAACATAAATATTT
Found at i:10195263 original size:2 final size:2
Alignment explanation
Indices: 10195256--10195293 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10195246 AATAAGCTTA
10195256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10195294 TAAAAGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10195431 original size:36 final size:34
Alignment explanation
Indices: 10195389--10195598 Score: 127
Period size: 38 Copynumber: 6.1 Consensus size: 34
10195379 ATTTAAAAAC
10195389 TATATATACGTTTTCAAAATATGTTTTCAAAACTATA
1 TATATATACGTTTTCAAAATATGTTTT-AAAAC--TA
* * * *
10195426 TTATATATATGTTTTTAAAAAATGTTTTTAAAACAA
1 -TATATATACGTTTTCAAAATATG-TTTTAAAACTA
*
10195462 GATATTATACGTTTTCAAAA-ATGTTTT---A-TA
1 TATA-TATACGTTTTCAAAATATGTTTTAAAACTA
* *
10195492 TATGT-T---TTTTCAAAA-ATGTTTTTAAAACCA
1 TATATATACGTTTTCAAAATATG-TTTTAAAACTA
* *
10195522 TATATATACATTTTCAAAAATAT-TTTTAAAACCA
1 TATATATACGTTTTC-AAAATATGTTTTAAAACTA
** *
10195556 TATATTATACGTCTTAAAAAATAAGTTTTCAAAAACTA
1 TATA-TATACGT-TTTCAAAATATGTTTT--AAAACTA
10195594 TATAT
1 TATAT
10195599 TATATATTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
25 12 0.09
26 4 0.03
28 1 0.01
29 2 0.01
30 8 0.06
31 2 0.01
34 24 0.18
35 22 0.16
36 22 0.16
37 1 0.01
38 35 0.26
39 4 0.03
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (34 bp):
TATATATACGTTTTCAAAATATGTTTTAAAACTA
Found at i:10195458 original size:12 final size:13
Alignment explanation
Indices: 10195434--10195458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10195424 TATTATATAT
10195434 ATGTTTTTAAAAA
1 ATGTTTTTAAAAA
10195447 ATGTTTTTAAAA
1 ATGTTTTTAAAA
10195459 CAAGATATTA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATGTTTTTAAAAA
Found at i:10195491 original size:61 final size:59
Alignment explanation
Indices: 10195411--10195547 Score: 184
Period size: 60 Copynumber: 2.3 Consensus size: 59
10195401 TTCAAAATAT
* *
10195411 GTTTTCAAAACTATATTATATATATGTTTTTAAAAAATGTTTTTAAAACAAGATATTATAC
1 GTTTTCAAAAATATTTTATATATAT-TTTTTAAAAAATGTTTTTAAAACAAGATA-TATAC
* * * * *
10195472 GTTTTCAAAAATGTTTTATATATGTTTTTTCAAAAATGTTTTTAAAACCATATATATAC
1 GTTTTCAAAAATATTTTATATATATTTTTTAAAAAATGTTTTTAAAACAAGATATATAC
*
10195531 ATTTTCAAAAATATTTT
1 GTTTTCAAAAATATTTT
10195548 TAAAACCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
59 20 0.30
60 26 0.39
61 21 0.31
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (59 bp):
GTTTTCAAAAATATTTTATATATATTTTTTAAAAAATGTTTTTAAAACAAGATATATAC
Found at i:10195497 original size:59 final size:59
Alignment explanation
Indices: 10195411--10195547 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
10195401 TTCAAAATAT
*
10195411 GTTTTCAAAACTATATTATATATATG-TTTTTAAAAAATGTTTTTAAAACAAGATATTATAC
1 GTTTTCAAAA--ATATTTTATATATGTTTTTTAAAAAATGTTTTTAAAACAAGATA-TATAC
* * * *
10195472 GTTTTCAAAAATGTTTTATATATGTTTTTTCAAAAATGTTTTTAAAACCATATATATAC
1 GTTTTCAAAAATATTTTATATATGTTTTTTAAAAAATGTTTTTAAAACAAGATATATAC
*
10195531 ATTTTCAAAAATATTTT
1 GTTTTCAAAAATATTTT
10195548 TAAAACCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 32 0.47
60 26 0.38
61 10 0.15
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (59 bp):
GTTTTCAAAAATATTTTATATATGTTTTTTAAAAAATGTTTTTAAAACAAGATATATAC
Found at i:10195527 original size:34 final size:34
Alignment explanation
Indices: 10195498--10195615 Score: 119
Period size: 34 Copynumber: 3.3 Consensus size: 34
10195488 TATATATGTT
*
10195498 TTTTCAAAAATGTTTTTAAAACCATATATATACA
1 TTTTCAAAAATATTTTTAAAACCATATATATACA
*
10195532 TTTTCAAAAATATTTTTAAAACCATATATTATACG
1 TTTTCAAAAATATTTTTAAAACCATATA-TATACA
* * * * *
10195567 TCTTAAAAAATAAGTTTTCAAAAACTATATATTATATA
1 TTTTCAAAAAT-A-TTTT-TAAAACCATATA-TATACA
*
10195605 TTTTTAAAAAT
1 TTTTCAAAAAT
10195616 TATATTTGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 27 0.39
35 14 0.20
36 1 0.01
37 4 0.06
38 24 0.34
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (34 bp):
TTTTCAAAAATATTTTTAAAACCATATATATACA
Found at i:10210430 original size:22 final size:22
Alignment explanation
Indices: 10210404--10210483 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
10210394 ATAGGGCAGA
*
10210404 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
*
10210426 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
* *
10210449 GGGAACCGTTTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
10210468 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
10210484 CTGGGGTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.29
21 1 0.02
22 14 0.27
23 21 0.41
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:10210446 original size:23 final size:23
Alignment explanation
Indices: 10210404--10210465 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
10210394 ATAGGGCAGA
* *
10210404 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
10210426 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
10210449 GGGAACCGTTTCCCCCT
1 GGGAACCGATTCCCCCT
10210466 AGGGGAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:10213043 original size:22 final size:23
Alignment explanation
Indices: 10213018--10213061 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10213008 AATTAAGTTT
10213018 TAATATTA-AAA-TAATTTCAAAA
1 TAATATTACAAAGT-ATTTCAAAA
*
10213040 TAATTTTACAAAGTATTTCAAA
1 TAATATTACAAAGTATTTCAAA
10213062 CCGTTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATATTACAAAGTATTTCAAAA
Found at i:10232431 original size:18 final size:18
Alignment explanation
Indices: 10232408--10232452 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
10232398 TAATACTAAC
10232408 TTGATGTTCGGTTTCATT
1 TTGATGTTCGGTTTCATT
10232426 TTGATGTTCGGTTTCATT
1 TTGATGTTCGGTTTCATT
*
10232444 TAGATGTTC
1 TTGATGTTC
10232453 TTACAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.22, T:0.53
Consensus pattern (18 bp):
TTGATGTTCGGTTTCATT
Found at i:10237796 original size:24 final size:20
Alignment explanation
Indices: 10237743--10237800 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
10237733 TTCCCATTGA
*
10237743 AGTGCATCGGTGCATTCTTC
1 AGTGCATCGATGCATTCTTC
10237763 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TT--C
10237786 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
10237801 CTACCATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
23 2 0.06
24 13 0.39
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTTC
Found at i:10241805 original size:20 final size:22
Alignment explanation
Indices: 10241780--10241839 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 22
10241770 TTCCCATTGA
10241780 AGTGCATCGATGCACTC-TT-C
1 AGTGCATCGATGCACTCTTTAC
*
10241800 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCACTCTTT-AC
10241823 ATGTGCATCGATGCACT
1 A-GTGCATCGATGCACT
10241840 ACCAGGCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
23 2 0.06
24 14 0.41
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
AGTGCATCGATGCACTCTTTAC
Found at i:10245853 original size:3 final size:3
Alignment explanation
Indices: 10245815--10245866 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
10245805 GTTCTGCTCA
* * * * *
10245815 AAT AAT AAA AAT ATT AAT ACT AAT ACT AAG AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10245863 AAT A
1 AAT A
10245867 TCGGAACGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10247188 original size:21 final size:21
Alignment explanation
Indices: 10247162--10247206 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10247152 GATTTCTGGG
* *
10247162 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
10247183 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
10247204 CAA
1 CAA
10247207 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:10248055 original size:31 final size:31
Alignment explanation
Indices: 10248013--10248137 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
10248003 AGGGTCGAGG
10248013 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10248044 GTTTACTTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10248075 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
10248106 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
10248137 G
1 G
10248138 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:10255758 original size:3 final size:3
Alignment explanation
Indices: 10255750--10255775 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10255740 TTATACCACA
10255750 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
10255776 AACCCAATTC
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:10260047 original size:21 final size:21
Alignment explanation
Indices: 10260021--10260081 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
10260011 ATTATCAAAT
*
10260021 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
10260042 AAACTTGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
10260063 AAACTTGAAATCCATAACA
1 AAACTTGAAATCCATAACA
10260082 CAACCAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:10262251 original size:21 final size:21
Alignment explanation
Indices: 10262225--10262269 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10262215 GATTTCTGGG
* *
10262225 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
10262246 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
10262267 CAA
1 CAA
10262270 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:10262874 original size:18 final size:18
Alignment explanation
Indices: 10262851--10262885 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10262841 CTAGGAGATT
10262851 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
10262869 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
10262886 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:10264050 original size:151 final size:149
Alignment explanation
Indices: 10263778--10264094 Score: 521
Period size: 151 Copynumber: 2.1 Consensus size: 149
10263768 AAGTCGAGGG
* * *
10263778 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAA
*
10263843 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
10263908 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
10263927 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACAC
1 TCTACGCGGTCCTTCGGG--ACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACAC
*
10263992 AAACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTTTGTGGTCCTTATGGACATCA
64 AAA-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCA
10264056 TTATATGGCACTACGGTGCAAT
128 TTATATGGCACTACGGTGCAAT
10264078 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
10264095 TGCAATTATA
Statistics
Matches: 157, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
149 18 0.11
150 1 0.01
151 137 0.87
152 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAA
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:10264095 original size:23 final size:23
Alignment explanation
Indices: 10264062--10264106 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10264052 ATCATTATAT
*
10264062 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
10264085 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
10264107 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:10267389 original size:21 final size:21
Alignment explanation
Indices: 10267363--10267407 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10267353 GATTTCTGGG
* *
10267363 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
10267384 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
10267405 CAA
1 CAA
10267408 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:10268012 original size:18 final size:18
Alignment explanation
Indices: 10267989--10268023 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10267979 CTAGGAGATT
10267989 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
10268007 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
10268024 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:10269192 original size:149 final size:149
Alignment explanation
Indices: 10268922--10269236 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
10268912 GAGTCGAGGG
* * *
10268922 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACAT
*
10268987 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
10269052 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
10269071 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGAGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACAT
10269136 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
10269200 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
10269220 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
10269237 TGCAATTATA
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACAT
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:10269237 original size:23 final size:23
Alignment explanation
Indices: 10269204--10269248 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10269194 ATCATTATAT
*
10269204 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
10269227 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
10269249 AGCTATGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:10273600 original size:16 final size:16
Alignment explanation
Indices: 10273579--10273613 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10273569 CCGTATCTCG
10273579 TTGACTCATCCGATAC
1 TTGACTCATCCGATAC
10273595 TTGACTCATCCGATAC
1 TTGACTCATCCGATAC
10273611 TTG
1 TTG
10273614 CTTTAGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (16 bp):
TTGACTCATCCGATAC
Found at i:10274399 original size:9 final size:10
Alignment explanation
Indices: 10274378--10274402 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10274368 CATCTTTGAG
10274378 TTTTAAGCTT
1 TTTTAAGCTT
10274388 TTTTAAGCTT
1 TTTTAAGCTT
10274398 TTTTA
1 TTTTA
10274403 TCATCTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTTAAGCTT
Found at i:10279318 original size:26 final size:26
Alignment explanation
Indices: 10279289--10279342 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10279279 AGTAAGAATT
10279289 TTCGGGCTCAAAATGTAATTTCTGGG
1 TTCGGGCTCAAAATGTAATTTCTGGG
10279315 TTCGGGCTCAAAATGTAATTTCTGGG
1 TTCGGGCTCAAAATGTAATTTCTGGG
10279341 TT
1 TT
10279343 GTGTGCATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (26 bp):
TTCGGGCTCAAAATGTAATTTCTGGG
Found at i:10281057 original size:16 final size:16
Alignment explanation
Indices: 10281036--10281068 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10281026 TGCATGATCA
10281036 CAATAATTCCCTTAAG
1 CAATAATTCCCTTAAG
10281052 CAATAATTCCCTTAAG
1 CAATAATTCCCTTAAG
10281068 C
1 C
10281069 TATCTTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (16 bp):
CAATAATTCCCTTAAG
Found at i:10283702 original size:53 final size:53
Alignment explanation
Indices: 10283644--10283747 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
10283634 ATTTAGAATG
* *
10283644 CTTAGACATTTGAGCAGAAGCTAAACAAAGACTGTTTAAGGTACAAAGAAATA
1 CTTAGACATTTGAGCAGAAGCTAAACAAAAACTGTATAAGGTACAAAGAAATA
*
10283697 CTTAGACATTTGAGCAGAAGCTAAACAAAAATTGTATAAGGTACAAAGAAA
1 CTTAGACATTTGAGCAGAAGCTAAACAAAAACTGTATAAGGTACAAAGAAA
10283748 GAGGAGGACG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (53 bp):
CTTAGACATTTGAGCAGAAGCTAAACAAAAACTGTATAAGGTACAAAGAAATA
Found at i:10286182 original size:83 final size:82
Alignment explanation
Indices: 10285830--10286284 Score: 251
Period size: 83 Copynumber: 5.5 Consensus size: 82
10285820 AAGAAAATAT
* * * * * * *
10285830 CACTATAGATT-AACTTTATTAC-GTTGTTTGTATAAAAACACCACTAATA-TATTATTTTATTG
1 CACTATAGATTAAAC-CTATTACAG-TGTTTGTATAAAAACGCCGCTAA-AGTACTACTCTGTTG
* * *
10285892 CGGTGTTTGTTGAAAAAAGAT
63 CGGCGTTTGTTGAAAAACG-C
* * * * ** * * * *
10285913 CATTATAGATGAATCCTATTGCAAAGTTTGAATAAAAACGCCGCTTACGTACTACTCTGTTACGG
1 CACTATAGATTAAACCTATTACAGTGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGG
* * * *
10285978 CATTTTTTGAAAAATTGT
66 CGTTTGTTGAAAAA-CGC
* *** * * * * * *
10285996 CACTATAGA-TAAACTCTATTTCAACATTT-TTTCAACAAACACAGCTAAAGTATTATTCCGTTG
1 CACTATAGATTAAAC-CTATTACAGTGTTTGTAT-AA-AAACGCCGCTAAAGTACTACTCTGTTG
*
10286059 CGGCGTTTGTTGAGAAAACAC
63 CGGCGTTTGTTGA-AAAACGC
* *
10286080 CACTATA-AATAAACTCTATTACAGTGTTTGTATAAAAACTCCGC-AAACGTACTACTCTGTTGC
1 CACTATAGATTAAAC-CTATTACAGTGTTTGTATAAAAACGCCGCTAAA-GTACTACTCTGTTGC
**
10286143 GGTTTTTGTTGAAAACACGC
64 GGCGTTTGTTGAAAA-ACGC
* * * * * * *
10286163 CACTATAGATTAATCCTATTGCGGTGTTTTTTGTAAAAA-GCCGCTAAATTACTACTTTGTTGCG
1 CACTATAGATTAAACCTATTACAGTG-TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCG
* * *
10286227 ACGTTTGTTGAAGAAATGT
65 GCGTTTGTTGAA-AAACGC
* * * *
10286246 CATTATAGATGAACCCTATTACAGCGTTTGTATAAAAAC
1 CACTATAGATTAAACCTATTACAGTGTTTGTATAAAAAC
10286285 ATAGTTACAG
Statistics
Matches: 278, Mismatches: 77, Indels: 34
0.71 0.20 0.09
Matches are distributed among these distances:
82 20 0.07
83 174 0.63
84 78 0.28
85 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (82 bp):
CACTATAGATTAAACCTATTACAGTGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGG
CGTTTGTTGAAAAACGC
Found at i:10289679 original size:16 final size:16
Alignment explanation
Indices: 10289655--10289695 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
10289645 ATGGACGAAA
*
10289655 CTCCACCCGACCTCCG
1 CTCCCCCCGACCTCCG
*
10289671 CTCCCCCCGACCTCTG
1 CTCCCCCCGACCTCCG
10289687 CTCCCCCCG
1 CTCCCCCCG
10289696 GTGACCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.66, G:0.12, T:0.15
Consensus pattern (16 bp):
CTCCCCCCGACCTCCG
Found at i:10292996 original size:3 final size:3
Alignment explanation
Indices: 10292988--10293080 Score: 161
Period size: 3 Copynumber: 31.0 Consensus size: 3
10292978 CAGTTTGTTT
10292988 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10293036 TACA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10293081 AATAAAAAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.02
3 82 0.95
4 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10294405 original size:21 final size:22
Alignment explanation
Indices: 10294359--10294403 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10294349 TCATTGTTTA
10294359 TTTATAT-TTTAATTTTATATG
1 TTTATATATTTAATTTTATATG
10294380 TTTATATATTTAATTATTAT-TG
1 TTTATATATTTAATT-TTATATG
10294402 TT
1 TT
10294404 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATATTTAATTTTATATG
Found at i:10294821 original size:129 final size:129
Alignment explanation
Indices: 10294573--10294826 Score: 445
Period size: 129 Copynumber: 2.0 Consensus size: 129
10294563 AGAAATAAAC
* *
10294573 TGTCTTAAAGCACCTAGAAGTCGTTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
1 TGTCTTAAAGCACCTAAAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
*
10294638 ATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATTGGGT
66 ATTATATATTAATGTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATTGGGT
* * * *
10294702 TGTCTTAAAGCACCTAAAAGTCCTTTTCTGATATTTTTAGATAAATAAATATCTTGTTTTTATAA
1 TGTCTTAAAGCACCTAAAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
10294767 ATTATATATTAATGTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATT
66 ATTATATATTAATGTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATT
10294827 TATTAATATT
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (129 bp):
TGTCTTAAAGCACCTAAAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
ATTATATATTAATGTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATTGGGT
Found at i:10294906 original size:23 final size:24
Alignment explanation
Indices: 10294880--10294929 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
10294870 ATTTTCTGAC
* *
10294880 ATTTCTAAGTAAATAAATATAT-T
1 ATTTATAAATAAATAAATATATAT
* *
10294903 ATTTATAAATATATATATATATAT
1 ATTTATAAATAAATAAATATATAT
10294927 ATT
1 ATT
10294930 AATATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTATAAATAAATAAATATATAT
Found at i:10295477 original size:2 final size:2
Alignment explanation
Indices: 10295470--10295504 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10295460 TTATACTAAT
10295470 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 T
10295505 TCTTTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10299896 original size:2 final size:2
Alignment explanation
Indices: 10299884--10299915 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10299874 ATCCTTTCAA
*
10299884 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10299916 CCCTTGTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10302568 original size:12 final size:12
Alignment explanation
Indices: 10302551--10302577 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10302541 TGAATATTTG
10302551 GGCATTCTTGGA
1 GGCATTCTTGGA
10302563 GGCATTCTTGGA
1 GGCATTCTTGGA
10302575 GGC
1 GGC
10302578 TCATCTCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.30
Consensus pattern (12 bp):
GGCATTCTTGGA
Found at i:10302757 original size:40 final size:40
Alignment explanation
Indices: 10302670--10302769 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 40
10302660 CAGATCCATG
* * ** *
10302670 TGGGCCATTTTGAAGGCTCACATCAGTATGGAAGAAAAGT
1 TGGGGCATTTTGAAAGCTCACATCAACATAGAAGAAAAGT
*
10302710 TGAGGCATTTTGAAAGCTCACATCAACA-AGAAGCAAATA-T
1 TGGGGCATTTTGAAAGCTCACATCAACATAGAAG-AAA-AGT
**
10302750 TGGGGCATACTGAAAGCTCA
1 TGGGGCATTTTGAAAGCTCA
10302770 TTTCAATCAG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.08
40 44 0.90
41 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (40 bp):
TGGGGCATTTTGAAAGCTCACATCAACATAGAAGAAAAGT
Found at i:10303767 original size:54 final size:53
Alignment explanation
Indices: 10303684--10303845 Score: 207
Period size: 54 Copynumber: 3.0 Consensus size: 53
10303674 TGATTGAGAA
* *
10303684 ATCTGGGCAGAATCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
1 ATCTGGGCAGAAACCACAAGAAA-GATGAATGTATTGTCAAATGTTTTACGAAC
* * *
10303738 ATCTGGGCAGAAGCCACAAGAAAGAATGAATGTATTGTCAAATGTTTTACTAGC
1 ATCTGGGCAGAAACCACAAGAAAG-ATGAATGTATTGTCAAATGTTTTACGAAC
* * * * *
10303792 ATCTGAGCAGAAACCACATGAGATGATGAATGTGTTGTCAAATGTTTTATGAAC
1 ATCTGGGCAGAAACCACAAGA-AAGATGAATGTATTGTCAAATGTTTTACGAAC
10303846 TAGTTATTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.97
55 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (53 bp):
ATCTGGGCAGAAACCACAAGAAAGATGAATGTATTGTCAAATGTTTTACGAAC
Found at i:10304240 original size:22 final size:22
Alignment explanation
Indices: 10304213--10304295 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
10304203 TTCTACATTC
* *
10304213 TTCAAAGATGATAGATTTTATA
1 TTCAAAGATGATAGATTCTCTA
* *
10304235 TTCAAATATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTA
*
10304257 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTA
*
10304279 TTCAAAGATGAAAGATT
1 TTCAAAGATGATAGATT
10304296 TATTGGATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTA
Found at i:10304283 original size:44 final size:44
Alignment explanation
Indices: 10304211--10304295 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
10304201 ACTTCTACAT
* * *
10304211 TCTTCAAAGATGATAGATTTTATATTCAAATATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTATATTCAAAGATGAAAGATTCTC
* *
10304255 TCTTCAAAGATGATAGATTCTCTTTTCAAAGATGAAAGATT
1 TCTTCAAAGATGATAGATTCTATATTCAAAGATGAAAGATT
10304296 TATTGGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (44 bp):
TCTTCAAAGATGATAGATTCTATATTCAAAGATGAAAGATTCTC
Found at i:10305235 original size:45 final size:45
Alignment explanation
Indices: 10305171--10305267 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
10305161 CTTTTTGATA
* ** *
10305171 TTTAAAGCCTCCAGGTCATCTGTAAGACCTACAGTGCATGATGTT
1 TTTAAAACCTCCAGGTCATCCATAAGACCTACAGTGCAGGATGTT
10305216 TTTAAAACCTCCAGGTCATCCATAAGACCTACAGTGCAGGATGTT
1 TTTAAAACCTCCAGGTCATCCATAAGACCTACAGTGCAGGATGTT
*
10305261 TTCAAAA
1 TTTAAAA
10305268 AGCCTTTAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
TTTAAAACCTCCAGGTCATCCATAAGACCTACAGTGCAGGATGTT
Found at i:10305285 original size:119 final size:119
Alignment explanation
Indices: 10304952--10305332 Score: 617
Period size: 119 Copynumber: 3.2 Consensus size: 119
10304942 CTATTTCCCA
* *
10304952 CATCTGTAAGACCTACAGTGCATGATGTTTTTAAAACCTCCGGGTCATCCATAAGACCTACAGTG
1 CATCTGTAAGACCTACAGTGCAAGATGTTTTTAAAACCTCCAGGTCATCCATAAGACCTACAGTG
10305017 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTTAAAGCCTCCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTTAAAGCCTCCGGGT
* * *
10305071 CATCTGTAAGACCTACAGTGCAAGATG---ATAAGACCT-CAGGGTCATCCATAAAACCTACAGT
1 CATCTGTAAGACCTACAGTGCAAGATGTTTTTAAAACCTCCA-GGTCATCCATAAGACCTACAGT
* * *
10305132 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCAGGT
65 GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTTAAAGCCTCCGGGT
*
10305187 CATCTGTAAGACCTACAGTGCATGATGTTTTTAAAACCTCCAGGTCATCCATAAGACCTACAGTG
1 CATCTGTAAGACCTACAGTGCAAGATGTTTTTAAAACCTCCAGGTCATCCATAAGACCTACAGTG
** *
10305252 CAGGATGTTTTCAAAAAGCCTTTAGGAGCTTTTTGATTTTTAAAGCCTCTGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTTAAAGCCTCCGGGT
10305306 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGACCTACAGTGCAAGATG
10305333 ATAAGACCTA
Statistics
Matches: 238, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
115 1 0.00
116 106 0.45
119 129 0.54
120 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (119 bp):
CATCTGTAAGACCTACAGTGCAAGATGTTTTTAAAACCTCCAGGTCATCCATAAGACCTACAGTG
CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATTTTTAAAGCCTCCGGGT
Found at i:10305354 original size:22 final size:22
Alignment explanation
Indices: 10305312--10305354 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10305302 GGGTCATCTG
*
10305312 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTACAAGATGA
*
10305334 TAAGACCTACAGTACATGATG
1 TAAGACCTACAGTACAAGATG
10305355 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (22 bp):
TAAGACCTACAGTACAAGATGA
Found at i:10305435 original size:98 final size:96
Alignment explanation
Indices: 10305237--10305439 Score: 327
Period size: 96 Copynumber: 2.1 Consensus size: 96
10305227 CAGGTCATCC
* *
10305237 ATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTAGGAGCTTTTTGATTTTTAAAGCCTCT
1 ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATTTTTAAAGCCTCT
*
10305302 GGGTCATCTGTAAGACCTACAGTGCAAGATG
66 GAGTCATCTGTAAGACCTACAGTGCAAGATG
* *
10305333 ATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCT
1 ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGAT-TTTT-AAAGCCT
10305398 -TCGAGTCATCTGTAAGACCTACAGTGCAAGATG
64 CT-GAGTCATCTGTAAGACCTACAGTGCAAGATG
10305431 ATAAGACCT
1 ATAAGACCT
10305440 CAGGGCCATC
Statistics
Matches: 99, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
96 48 0.48
97 5 0.05
98 46 0.46
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (96 bp):
ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATTTTTAAAGCCTCT
GAGTCATCTGTAAGACCTACAGTGCAAGATG
Found at i:10305541 original size:118 final size:118
Alignment explanation
Indices: 10305333--10305577 Score: 427
Period size: 118 Copynumber: 2.1 Consensus size: 118
10305323 GTGCAAGATG
*
10305333 ATAAGACCTACAGTACATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCT
1 ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCT
*
10305398 TCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCC
66 CCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCC
* *
10305451 ATAAGACCTATAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTTCAAAGCCT
1 ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCT
* * *
10305516 CCGGGTCATTTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATTC
66 CCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCC
10305569 ATAAGACCT
1 ATAAGACCT
10305578 CTGGGCAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (118 bp):
ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCT
CCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCC
Found at i:10305729 original size:3 final size:3
Alignment explanation
Indices: 10305721--10305798 Score: 79
Period size: 3 Copynumber: 26.0 Consensus size: 3
10305711 CATATTGCTT
* ** * *
10305721 TTA TTA TTA TTA TT- TT- TTA TTA TTA TTA TTA ATA AGA ATA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
10305765 TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
10305799 AATAAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.86
4 5 0.08
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10305740 original size:13 final size:14
Alignment explanation
Indices: 10305719--10305798 Score: 58
Period size: 13 Copynumber: 5.8 Consensus size: 14
10305709 TTCATATTGC
10305719 TTTTATTATTATTA
1 TTTTATTATTATTA
10305733 TTTT-TTATTATTA
1 TTTTATTATTATTA
* ** *
10305746 TTATTAATAAGAATA
1 TT-TTATTATTATTA
**
10305761 -TACATTATTATTA
1 TTTTATTATTATTA
10305774 TTATTATTATTA-TA
1 TT-TTATTATTATTA
*
10305788 TATTATTATTA
1 TTTTATTATTA
10305799 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
13 26 0.53
14 11 0.22
15 12 0.24
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:10305740 original size:16 final size:16
Alignment explanation
Indices: 10305719--10305750 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10305709 TTCATATTGC
10305719 TTTTATTATTATTATT
1 TTTTATTATTATTATT
10305735 TTTTATTATTATTATT
1 TTTTATTATTATTATT
10305751 AATAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTATTATTATT
Found at i:10305749 original size:25 final size:25
Alignment explanation
Indices: 10305721--10305798 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
10305711 CATATTGCTT
* *
10305721 TTATTATTATTATTTTTTATTATTA
1 TTATTATTATTATTATATATTATTA
* ** * *
10305746 TTATTAATAAGAATATACATTATTA
1 TTATTATTATTATTATATATTATTA
10305771 TTATTATTATTATTATATATTATTA
1 TTATTATTATTATTATATATTATTA
10305796 TTA
1 TTA
10305799 AATAAAAAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (25 bp):
TTATTATTATTATTATATATTATTA
Found at i:10305811 original size:47 final size:44
Alignment explanation
Indices: 10305721--10305811 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 44
10305711 CATATTGCTT
*
10305721 TTATTATTATTATTTTTTATTATTATTATTAATAAGAATATACA
1 TTATTATTATTATTTTTTATTATTATTATTAATAAGAAAATACA
10305765 TTATTATTATTATTATTATTATATATTATTATTAAATAA-AAAATACA
1 TTATTATTATTATT-TT-TTAT-TATTATTATT-AATAAGAAAATACA
10305812 AACCCTGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
44 14 0.33
45 2 0.05
46 4 0.10
47 17 0.40
48 5 0.12
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (44 bp):
TTATTATTATTATTTTTTATTATTATTATTAATAAGAAAATACA
Found at i:10307288 original size:23 final size:23
Alignment explanation
Indices: 10307262--10307330 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
10307252 CACCACAGCT
*
10307262 CATAGAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGTAGTGCCA
*
10307285 CATAGAATTGCACCGTAGTGCCG
1 CATAGAATTGCACCGTAGTGCCA
*
10307308 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGTAGTGCCA
10307331 TATAATAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CATAGAATTGCACCGTAGTGCCA
Found at i:10307464 original size:18 final size:18
Alignment explanation
Indices: 10307441--10307476 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10307431 GAATACATAT
10307441 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10307459 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10307477 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10307551 original size:121 final size:121
Alignment explanation
Indices: 10307337--10307700 Score: 656
Period size: 121 Copynumber: 3.0 Consensus size: 121
10307327 GCCATATAAT
** *
10307337 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
10307402 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * *
10307458 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
10307523 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
*
10307579 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
*
10307644 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAATGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
10307700 A
1 A
10307701 TAGACCCTCG
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 232 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (121 bp):
AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:10307554 original size:62 final size:62
Alignment explanation
Indices: 10307367--10307683 Score: 172
Period size: 62 Copynumber: 5.2 Consensus size: 62
10307357 ATCATTCCTT
* * *
10307367 AAGAAT-CATATACATATACTAGGGATCAAGTATGCGTCTCACCAGACTTCACACATGTTCCA
1 AAGAATACATATA-ATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
* * * * * *
10307429 AAGAATACATAT-ATGTCCCGAAGGACCACA--A--TGTC-C-CGAAGGAC--CACATATCATTC
1 AAGAATACATATAATATACC-AAGGATCA-AGTATGTGTCTCAC-CA-GACTTCACACAT-GTTC
*
10307485 CTT
61 C-A
*
10307488 AAGAAT-CATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
1 AAGAATACATATA-ATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
* * * * * *
10307550 AAGAATACATAT-ATGTCCCGAAGGACCACA--A--TGTC-C-CGAAGGAC--CACATATCATTC
1 AAGAATACATATAATATACC-AAGGATCA-AGTATGTGTCTCAC-CA-GACTTCACACAT-GTTC
*
10307606 CTT
61 C-A
* *
10307609 AAGAAT-CATATATATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
1 AAGAATACATATA-ATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
10307671 AAGAATACATATA
1 AAGAATACATATA
10307684 TGTCCCGAAT
Statistics
Matches: 187, Mismatches: 33, Indels: 69
0.65 0.11 0.24
Matches are distributed among these distances:
57 14 0.07
58 24 0.13
59 38 0.20
60 11 0.06
61 11 0.06
62 45 0.24
63 30 0.16
64 14 0.07
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (62 bp):
AAGAATACATATAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
Found at i:10307585 original size:18 final size:18
Alignment explanation
Indices: 10307562--10307597 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10307552 GAATACATAT
10307562 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10307580 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10307598 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10309004 original size:21 final size:21
Alignment explanation
Indices: 10308978--10309021 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10308968 ATTTTATTCG
* *
10308978 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
10308999 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
10309020 CT
1 CT
10309022 AGCCCAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:10310376 original size:21 final size:22
Alignment explanation
Indices: 10310330--10310374 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10310320 TCATTGTTTA
10310330 TTTATAT-TTTAATTTTATATG
1 TTTATATATTTAATTTTATATG
10310351 TTTATATATTTAATTATTAT-TG
1 TTTATATATTTAATT-TTATATG
10310373 TT
1 TT
10310375 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATATTTAATTTTATATG
Found at i:10310679 original size:129 final size:129
Alignment explanation
Indices: 10310541--10310799 Score: 482
Period size: 129 Copynumber: 2.0 Consensus size: 129
10310531 TATTAAGAAA
*
10310541 TGGGTTGTCTTAAAGCACCTAGAAGTCCTTTTATGATATTCTTAAATAAATAAATATCATATTTT
1 TGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTATGATATTCTTAAATAAATAAATATCATATTTT
10310606 TATAAATTATATATTAATTTATTTTAATTATATTTAGAGAAATGTTTTATTAATATTTATTTAT
66 TATAAATTATATATTAATTTATTTTAATTATATTTAGAGAAATGTTTTATTAATATTTATTTAT
* *
10310670 TGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATATCATGTTTT
1 TGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTATGATATTCTTAAATAAATAAATATCATATTTT
*
10310735 TATAAATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTAT
66 TATAAATTATATATTAATTTATTTTAATTATATTTAGAGAAATGTTTTATTAATATTTATTTAT
10310799 T
1 T
10310800 TTTTAATATT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (129 bp):
TGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTATGATATTCTTAAATAAATAAATATCATATTTT
TATAAATTATATATTAATTTATTTTAATTATATTTAGAGAAATGTTTTATTAATATTTATTTAT
Found at i:10314233 original size:20 final size:20
Alignment explanation
Indices: 10314184--10314234 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
10314174 AATTTATAAT
10314184 TTTATGAAA-ATATATATTAA
1 TTTA-GAAATATATATATTAA
* *
10314204 TTTA-ATAATATATTTATTTA
1 TTTAGA-AATATATATATTAA
10314224 TTTAGAAATAT
1 TTTAGAAATAT
10314235 CAAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 1 0.04
19 2 0.08
20 22 0.85
21 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTAGAAATATATATATTAA
Found at i:10315724 original size:29 final size:29
Alignment explanation
Indices: 10315682--10315738 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
10315672 GGATCTAACC
10315682 TAGATCCAACGGCTGGCAAGGAGAGCGGT
1 TAGATCCAACGGCTGGCAAGGAGAGCGGT
10315711 TAGATCCAACGGCTGGCAAGGAGAGCGG
1 TAGATCCAACGGCTGGCAAGGAGAGCGG
10315739 CGGCTGGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.39, T:0.12
Consensus pattern (29 bp):
TAGATCCAACGGCTGGCAAGGAGAGCGGT
Found at i:10315910 original size:3 final size:3
Alignment explanation
Indices: 10315856--10315895 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
10315846 TAATTTTTTT
* *
10315856 TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10315896 TAAATATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:10317050 original size:79 final size:80
Alignment explanation
Indices: 10316902--10317051 Score: 178
Period size: 79 Copynumber: 1.9 Consensus size: 80
10316892 ATATTTTCGG
* * * ***
10316902 TAAAATATTATTTAAATTATTATTATTTTTATCAATTTTATTATTATTGGACGCTTTACCGATTT
1 TAAAATATTATCTAAAATATTATTATTTTTATCAATTTTATTATTATTGGACACTTTACCGAAAA
10316967 TATTAATATATATGA
66 TATTAATATATATGA
* ** **
10316982 TAAAATATTATCTAAAATATTATT-TTTTTA-CTGATTTTATTATTATTGGTTACTTTATTGAAA
1 TAAAATATTATCTAAAATATTATTATTTTTATC-AATTTTATTATTATTGGACACTTTACCGAAA
10317045 ATATTAA
65 ATATTAA
10317052 AAAATATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.02
79 35 0.60
80 22 0.38
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (80 bp):
TAAAATATTATCTAAAATATTATTATTTTTATCAATTTTATTATTATTGGACACTTTACCGAAAA
TATTAATATATATGA
Found at i:10326218 original size:120 final size:119
Alignment explanation
Indices: 10326005--10326243 Score: 451
Period size: 120 Copynumber: 2.0 Consensus size: 119
10325995 TGGTTTCCTT
*
10326005 GTGAGCCAAAAGAGTGCTCATTTATTGTCTGAGTCAACGGATTTGTCATTATAGCAGAGCTGCAG
1 GTGAGCCAAAAGAGTGCTCATTTATTGTCTGAGTCAACGGATTTGTCAGTATAGCAGAGCTGCAG
*
10326070 AATACAAGTTAAATAATTTAAATGATCTTTAAATGAATAAATGATATGAAATATA
66 AATACAAGTTAAATAATTCAAATGATCTTTAAATGAA-AAATGATATGAAATATA
10326125 GTGAGCCAAAAGAGTGCTCATTTATTGTCTGAGTCAACGGATTTGTCAGTATAGCAGAGCTGCAG
1 GTGAGCCAAAAGAGTGCTCATTTATTGTCTGAGTCAACGGATTTGTCAGTATAGCAGAGCTGCAG
10326190 AATACAAGTTAAATAATTCAAATGATCTTTAAATGAAAAATGATATGAAATATA
66 AATACAAGTTAAATAATTCAAATGATCTTTAAATGAAAAATGATATGAAATATA
10326244 TTCTCATACT
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 17 0.15
120 100 0.85
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (119 bp):
GTGAGCCAAAAGAGTGCTCATTTATTGTCTGAGTCAACGGATTTGTCAGTATAGCAGAGCTGCAG
AATACAAGTTAAATAATTCAAATGATCTTTAAATGAAAAATGATATGAAATATA
Found at i:10329134 original size:16 final size:16
Alignment explanation
Indices: 10329088--10329138 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 16
10329078 TTTAATTTTC
10329088 TTTTCTCTCTGTTTGCCCT
1 TTTTCTCTCT-TTT--CCT
*
10329107 TTATTCTTTCTTTTCCT
1 TT-TTCTCTCTTTTCCT
10329124 TTTTCTCTCTTTTCC
1 TTTTCTCTCTTTTCC
10329139 ATTTCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 12 0.41
17 5 0.17
19 5 0.17
20 7 0.24
ACGTcount: A:0.02, C:0.29, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTCTCTCTTTTCCT
Found at i:10332724 original size:25 final size:25
Alignment explanation
Indices: 10332690--10332742 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
10332680 ATATCGCAAT
* *
10332690 GCACTACTAAAGCGGCGACCGAAAC
1 GCACCACTAAAGCAGCGACCGAAAC
*
10332715 GCACCACTAAAGCAGCGACTGAAAC
1 GCACCACTAAAGCAGCGACCGAAAC
10332740 GCA
1 GCA
10332743 TCACAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.32, G:0.23, T:0.08
Consensus pattern (25 bp):
GCACCACTAAAGCAGCGACCGAAAC
Found at i:10332973 original size:30 final size:32
Alignment explanation
Indices: 10332921--10332983 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
10332911 TTAAACTTAG
10332921 TTTTATTTTTTTGACAACCATGTAAAC-AGTT
1 TTTTATTTTTTTGACAACCATGTAAACAAGTT
* * *
10332952 TTTTGTTTTTTTTA-AATCATGTAAACAAGTT
1 TTTTATTTTTTTGACAACCATGTAAACAAGTT
10332983 T
1 T
10332984 AAATGCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTTATTTTTTTGACAACCATGTAAACAAGTT
Found at i:10344690 original size:39 final size:37
Alignment explanation
Indices: 10344639--10344722 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 37
10344629 GAACCCGAAA
*
10344639 ATATTTATATATAATTAATATAAAAAATATAAAATATAT
1 ATATATATATATAATTAATAT-AAAAATATAAAA-ATAT
10344678 ATATATATATATAATTAATATAAAAATATAAAAATAT
1 ATATATATATATAATTAATATAAAAATATAAAAATAT
10344715 -TATATATA
1 ATATATATA
10344723 GTCGGGACGG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 8 0.18
37 4 0.09
38 12 0.27
39 20 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
ATATATATATATAATTAATATAAAAATATAAAAATAT
Found at i:10348777 original size:13 final size:13
Alignment explanation
Indices: 10348759--10348784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10348749 ATGAAACGAG
10348759 AAAATATAATAAT
1 AAAATATAATAAT
10348772 AAAATATAATAAT
1 AAAATATAATAAT
10348785 TTAGATTTGA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:10353675 original size:21 final size:20
Alignment explanation
Indices: 10353641--10353710 Score: 52
Period size: 26 Copynumber: 3.2 Consensus size: 20
10353631 TATAATCTAA
*
10353641 AAAAATAAAA-AAATAATAT
1 AAAATTAAAATAAATAATAT
*
10353660 AAAATTATAACTAAATTTAATAT
1 AAAATTA-AAATAAA--TAATAT
10353683 AATTAAGATTAAAATAAATAATAT
1 -A--AA-ATTAAAATAAATAATAT
10353707 AAAA
1 AAAA
10353711 AATAATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
19 6 0.15
20 3 0.08
21 5 0.12
23 7 0.17
24 7 0.17
26 8 0.20
27 4 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (20 bp):
AAAATTAAAATAAATAATAT
Found at i:10354094 original size:17 final size:16
Alignment explanation
Indices: 10354072--10354119 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
10354062 TTTTTACTTT
*
10354072 TTTTTAATAATAAAATA
1 TTTTT-ATAAAAAAATA
10354089 TTTTTATAAAAAAATAA
1 TTTTTATAAAAAAAT-A
10354106 TTTATT-TAAAAAAA
1 TTT-TTATAAAAAAA
10354120 ACCTCCAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.32
17 17 0.61
18 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTTATAAAAAAATA
Found at i:10354097 original size:16 final size:17
Alignment explanation
Indices: 10354072--10354104 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10354062 TTTTTACTTT
*
10354072 TTTTTAATAATAAAATA
1 TTTTTAATAAAAAAATA
10354089 TTTTT-ATAAAAAAATA
1 TTTTTAATAAAAAAATA
10354105 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTTAATAAAAAAATA
Found at i:10355993 original size:20 final size:20
Alignment explanation
Indices: 10355952--10355995 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10355942 CAAGCAGGGG
*
10355952 GTATCGATACCAAGTGTCTA
1 GTATCGATACCAAGGGTCTA
*
10355972 GTATCGATACTGAAGGGT-TA
1 GTATCGATAC-CAAGGGTCTA
10355992 GTAT
1 GTAT
10355996 TGGTACCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (20 bp):
GTATCGATACCAAGGGTCTA
Found at i:10359528 original size:18 final size:18
Alignment explanation
Indices: 10359478--10359528 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
10359468 AATTGGATTC
* *
10359478 CAATTC-CTGACAGATTT
1 CAATTCACTCACAAATTT
*
10359495 CAATTCATTCACAAATTT
1 CAATTCACTCACAAATTT
* *
10359513 CAATTCCCTCAGAAAT
1 CAATTCACTCACAAAT
10359529 ATTCCAGCGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (18 bp):
CAATTCACTCACAAATTT
Found at i:10389287 original size:106 final size:106
Alignment explanation
Indices: 10389151--10389365 Score: 430
Period size: 106 Copynumber: 2.0 Consensus size: 106
10389141 AACTTATTTC
10389151 TGGCCTTCAATTGAATTTGAAGAAAAGCAGATATTTGGTGTTAATACGACTGCGGAGGAGGTTGA
1 TGGCCTTCAATTGAATTTGAAGAAAAGCAGATATTTGGTGTTAATACGACTGCGGAGGAGGTTGA
10389216 GGAGTGGGCCTCGTCTATTGGTTGTGCAGTGGGAATTTCCA
66 GGAGTGGGCCTCGTCTATTGGTTGTGCAGTGGGAATTTCCA
10389257 TGGCCTTCAATTGAATTTGAAGAAAAGCAGATATTTGGTGTTAATACGACTGCGGAGGAGGTTGA
1 TGGCCTTCAATTGAATTTGAAGAAAAGCAGATATTTGGTGTTAATACGACTGCGGAGGAGGTTGA
10389322 GGAGTGGGCCTCGTCTATTGGTTGTGCAGTGGGAATTTCCA
66 GGAGTGGGCCTCGTCTATTGGTTGTGCAGTGGGAATTTCCA
10389363 TGG
1 TGG
10389366 TGTTAATACG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (106 bp):
TGGCCTTCAATTGAATTTGAAGAAAAGCAGATATTTGGTGTTAATACGACTGCGGAGGAGGTTGA
GGAGTGGGCCTCGTCTATTGGTTGTGCAGTGGGAATTTCCA
Found at i:10389408 original size:71 final size:73
Alignment explanation
Indices: 10389292--10389436 Score: 276
Period size: 71 Copynumber: 2.0 Consensus size: 73
10389282 AGCAGATATT
10389292 TGGTGTTAATACGACTGCGGAGGAGGTTGAGGAGTGGGCCTCGTCTATTGGTTGTGCAG-TGGGA
1 TGGTGTTAATACGACTGCGGAGGAGGTTGAGGAGTGGGCCTCGTCTATTGGTTGTGCAGTTGGGA
10389356 A-TTTCCA
66 ATTTTCCA
10389363 TGGTGTTAATACGACTGCGGAGGAGGTTGAGGAGTGGGCCTCGTCTATTGGTTGTGCAGTTGGGA
1 TGGTGTTAATACGACTGCGGAGGAGGTTGAGGAGTGGGCCTCGTCTATTGGTTGTGCAGTTGGGA
10389428 ATTTTCCA
66 ATTTTCCA
10389436 T
1 T
10389437 CTGAATATCT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 59 0.82
72 6 0.08
73 7 0.10
ACGTcount: A:0.18, C:0.14, G:0.37, T:0.31
Consensus pattern (73 bp):
TGGTGTTAATACGACTGCGGAGGAGGTTGAGGAGTGGGCCTCGTCTATTGGTTGTGCAGTTGGGA
ATTTTCCA
Found at i:10392912 original size:51 final size:51
Alignment explanation
Indices: 10392850--10392951 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
10392840 TTGGAATTTT
*
10392850 TTTCTAGTAGAGTTTTTAATCTAATGTTTCTATTAAAATATTTTTATCAGG
1 TTTCTAATAGAGTTTTTAATCTAATGTTTCTATTAAAATATTTTTATCAGG
*
10392901 TTTCTAATAGAGTTTTTAATCTAATGTTTTTATTAAAATATTTTTATCAGG
1 TTTCTAATAGAGTTTTTAATCTAATGTTTCTATTAAAATATTTTTATCAGG
10392952 CCAAACTTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (51 bp):
TTTCTAATAGAGTTTTTAATCTAATGTTTCTATTAAAATATTTTTATCAGG
Found at i:10394637 original size:291 final size:290
Alignment explanation
Indices: 10394113--10394693 Score: 1144
Period size: 291 Copynumber: 2.0 Consensus size: 290
10394103 TTAAGGGAAC
*
10394113 AAATTGAAAGGAAGTACAGCTATTTTAGGGCAACCCATGAAACTAACATCCAGTGTGCCATTCAA
1 AAATTGAAAGGAAGTACAACTATTTTAGGGCAACCCATGAAACTAACATCCAGTGTGCCATTCAA
10394178 AGGACATAATGATTGATATTAACATTTTTATGAAGGCAATGTTTCCTCCAGAAAAAAGAATGGTT
66 AGGACATAATGATTGATATTAACATTTTTATGAAGGCAATGTTTCCTCCAGAAAAAAGAATGGTT
10394243 TTGACTCTCTTTGTGCATGCTACTTTGGACTTAGTTGCATACCTCTCCTCGGAACCAAAACGAAT
131 TTGACTCTCTTTGTGCATGCTACTTTGGACTTAGTTGCATACCTCTCCTCGGAACCAAAACGAAT
10394308 TGCAGATCCTTTTTCTCAGTAATACGAGGCTCAAGATTCTGGTGTCATATAGTTTGTTATCAAGT
196 TGCAGATCCTTTTTCTCAGTAATACGAGGCTCAAGATTCTGGTGTCATATAG-TTGTTATCAAGT
10394373 TTGTCTTAAATTGAAACAATATGGGAGGACT
260 TTGTCTTAAATTGAAACAATATGGGAGGACT
10394404 AAATTGAAAGGAAGTACAACTATTTTAGGGCAACCCATGAAACTAACATCCAGTGTGCCATTCAA
1 AAATTGAAAGGAAGTACAACTATTTTAGGGCAACCCATGAAACTAACATCCAGTGTGCCATTCAA
10394469 AGGACATAATGATTGATATTAACATTTTTATGAAGGCAATGTTTCCTCCAGAAAAAAGAATGGTT
66 AGGACATAATGATTGATATTAACATTTTTATGAAGGCAATGTTTCCTCCAGAAAAAAGAATGGTT
10394534 TTGACTCTCTTTGTGCATGCTACTTTGGACTTAGTTGCATACCTCTCCTCGGAACCAAAACGAAT
131 TTGACTCTCTTTGTGCATGCTACTTTGGACTTAGTTGCATACCTCTCCTCGGAACCAAAACGAAT
10394599 TGCAGATCCTTTTTCTCAGTAATACGAGGCTCAAGATTCTGGTGTCATATAGTTGTTATCAAGTT
196 TGCAGATCCTTTTTCTCAGTAATACGAGGCTCAAGATTCTGGTGTCATATAGTTGTTATCAAGTT
10394664 TGTCTTAAATTGAAACAATATGGGAGGACT
261 TGTCTTAAATTGAAACAATATGGGAGGACT
10394694 TTTGTGGAAG
Statistics
Matches: 289, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
290 43 0.15
291 246 0.85
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (290 bp):
AAATTGAAAGGAAGTACAACTATTTTAGGGCAACCCATGAAACTAACATCCAGTGTGCCATTCAA
AGGACATAATGATTGATATTAACATTTTTATGAAGGCAATGTTTCCTCCAGAAAAAAGAATGGTT
TTGACTCTCTTTGTGCATGCTACTTTGGACTTAGTTGCATACCTCTCCTCGGAACCAAAACGAAT
TGCAGATCCTTTTTCTCAGTAATACGAGGCTCAAGATTCTGGTGTCATATAGTTGTTATCAAGTT
TGTCTTAAATTGAAACAATATGGGAGGACT
Found at i:10398930 original size:16 final size:16
Alignment explanation
Indices: 10398905--10398941 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
10398895 ATTCGATGTT
10398905 TTGT-GGCATATTATG
1 TTGTAGGCATATTATG
10398920 TTGTAGGCATATTATG
1 TTGTAGGCATATTATG
10398936 TTGTAG
1 TTGTAG
10398942 TCGGTTCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (16 bp):
TTGTAGGCATATTATG
Found at i:10411361 original size:61 final size:62
Alignment explanation
Indices: 10411283--10411419 Score: 197
Period size: 62 Copynumber: 2.2 Consensus size: 62
10411273 TTACTTCTAC
* * * *
10411283 TTATAAAAAAATATTTTT-AAATACTTTACGTCAAATAAACAGAAGTTCA-TTTATTAATAGA
1 TTATTAAAAAATATTTTTCAAATACTTTACATCAAATAAACAGAAGTT-AGTTAATAAATAGA
* *
10411344 TTATTAAAAAATATTTTTCAAATACTTTCCATCAAATAAAGAGAAGTTAGTTAATAAATAGA
1 TTATTAAAAAATATTTTTCAAATACTTTACATCAAATAAACAGAAGTTAGTTAATAAATAGA
10411406 TTATTAAAAAATAT
1 TTATTAAAAAATAT
10411420 CGAAAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
61 18 0.26
62 50 0.74
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (62 bp):
TTATTAAAAAATATTTTTCAAATACTTTACATCAAATAAACAGAAGTTAGTTAATAAATAGA
Found at i:10413243 original size:23 final size:23
Alignment explanation
Indices: 10413201--10413251 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10413191 TGTATTCACG
** *
10413201 AACATGTTCATTTTACATTCATA
1 AACATGTTCATTCAAAATTCATA
*
10413224 AACATGTTCATTCAAAATTCATG
1 AACATGTTCATTCAAAATTCATA
10413247 AACAT
1 AACAT
10413252 ATTAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (23 bp):
AACATGTTCATTCAAAATTCATA
Found at i:10414647 original size:27 final size:27
Alignment explanation
Indices: 10414609--10414661 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
10414599 TTACTAGTTT
* *
10414609 CAATTTGGACCAAATAACCAAACTTAG
1 CAATTTGAACCAAACAACCAAACTTAG
*
10414636 CAATTTGAACCAAACAGCCAAACTTA
1 CAATTTGAACCAAACAACCAAACTTA
10414662 TACACCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.21
Consensus pattern (27 bp):
CAATTTGAACCAAACAACCAAACTTAG
Found at i:10418832 original size:60 final size:61
Alignment explanation
Indices: 10418704--10418849 Score: 149
Period size: 60 Copynumber: 2.4 Consensus size: 61
10418694 TGAATACGAG
* * *
10418704 GATGAAATTAGAA-GATTCAAAAGTTTGAGGATCAATTTAAAATGAATGTCATAGTTTAAA
1 GATGAAATTAAAATGATTCAAAAATTTGAGGATCAATTTAAAATGAATGTCATAATTTAAA
** * * * *
10418764 GAAAAAATTACAATGCTT-AAAAATTTGAGGA-CTAATTTAGAATGAAAT-TCATAATTTAAT
1 GATGAAATTAAAATGATTCAAAAATTTGAGGATC-AATTTAAAATG-AATGTCATAATTTAAA
*
10418824 GATGAAATTAAAATG-TACAAAAATTT
1 GATGAAATTAAAATGATTCAAAAATTT
10418850 AAAAATTAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.03
60 62 0.89
61 6 0.09
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.32
Consensus pattern (61 bp):
GATGAAATTAAAATGATTCAAAAATTTGAGGATCAATTTAAAATGAATGTCATAATTTAAA
Found at i:10425847 original size:114 final size:114
Alignment explanation
Indices: 10425644--10425858 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
10425634 AAGTTTTTTT
* * * * *
10425644 GTAACTGCAACTGTAACATTTGTCCTTTAACTTTGAGATTAACTTCAAATACATTACACCTTAAT
1 GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTGCAAATACAATAAACCTTAAT
* *
10425709 GTAAACATCAAAAGTAATACACTACAAATGCAATAATCTAAAGTTTTAA
66 GTAAACATAAAAAGTAAAACACTACAAATGCAATAATCTAAAGTTTTAA
* * * * *
10425758 GTAACTGCAATTGAAATATTTTTGCTTTAACTTCGAGATTAACTGCAAATACAATAAATCTTAAT
1 GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTGCAAATACAATAAACCTTAAT
* *
10425823 TTAAACATAAAAAGTAAAATACTACAAATGCAATAA
66 GTAAACATAAAAAGTAAAACACTACAAATGCAATAA
10425859 GTCATAATCC
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 87 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (114 bp):
GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTGCAAATACAATAAACCTTAAT
GTAAACATAAAAAGTAAAACACTACAAATGCAATAATCTAAAGTTTTAA
Found at i:10428488 original size:20 final size:21
Alignment explanation
Indices: 10428463--10428511 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
10428453 GACCCAAAAT
10428463 AATAAAAAA-TATTTTTATTC
1 AATAAAAAATTATTTTTATTC
10428483 AATAAAAAATTATTTTTATTC
1 AATAAAAAATTATTTTTATTC
10428504 AATAAAAA
1 AATAAAAA
10428512 TAGTGACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAAATTATTTTTATTC
Found at i:10428777 original size:215 final size:222
Alignment explanation
Indices: 10428486--10428889 Score: 651
Period size: 215 Copynumber: 1.9 Consensus size: 222
10428476 TTTATTCAAT
* * * *
10428486 AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGGAAATATATATATATATAGGGGTAT
1 AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATATAGAGGGGTAT
* *
10428551 TATTGTAATTATTCATAAATATATAAGGCAAAATTATATAT-TTTT-GGGTCGGATATTTTTCAT
66 TATTATAATTATTCATAAATATATAAGGCAAAATTATATATATTTTCGGGTCGGATATTTTTCAC
* *
10428614 CCTAAA-CCGAACCCGACCCGACTCG-ATATCACACTTAAAAAAATTGACCCGACCCGACAAAAT
131 CCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATCGACCCGACCCGACAAAAT
10428677 AAAGTTCACCCGACCCGAAATAATAAA
196 AAAGTTCACCCGACCCGAAATAATAAA
*
10428704 AAAAAATTATTTTTATTCAATAAAAACAGTGATTTAA-T-GAAAAAAAT-TATATAGAGGGGTAT
1 AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATATAGAGGGGTAT
* *
10428766 TATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGATATTTTTCAC
66 TATTATAATTATTCATAAATATATAAGGCAAAATTATATATATTTTCGGGTCGGATATTTTTCAC
*
10428831 CCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAATCGACCCGACCCGA
131 CCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATCGACCCGACCCGA
10428890 ATATATGAAT
Statistics
Matches: 170, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
215 52 0.31
216 11 0.06
217 24 0.14
218 52 0.31
219 31 0.18
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (222 bp):
AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATATATAGAGGGGTAT
TATTATAATTATTCATAAATATATAAGGCAAAATTATATATATTTTCGGGTCGGATATTTTTCAC
CCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATCGACCCGACCCGACAAAAT
AAAGTTCACCCGACCCGAAATAATAAA
Found at i:10437926 original size:15 final size:15
Alignment explanation
Indices: 10437908--10437937 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10437898 CCACGGTGCT
10437908 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10437923 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
10437938 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:10440519 original size:33 final size:33
Alignment explanation
Indices: 10440482--10440574 Score: 77
Period size: 33 Copynumber: 2.8 Consensus size: 33
10440472 ATTTGTATTT
10440482 TTATATTATTTAATTATTAAAAATATAAAAAT-A
1 TTATA-TATTTAATTATTAAAAATATAAAAATAA
* *
10440515 TTATAAATATATTAA-T-TTAATAATATATAAATAA
1 TTAT--ATAT-TTAATTATTAAAAATATAAAAATAA
* *
10440549 TTATAAATAT-ATTATTATAAAATATA
1 TTATATATTTAATTATTA-AAAATATA
10440575 TTATTTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
30 1 0.02
31 2 0.04
32 6 0.12
33 25 0.52
34 9 0.19
35 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
TTATATATTTAATTATTAAAAATATAAAAATAA
Found at i:10440547 original size:8 final size:8
Alignment explanation
Indices: 10440502--10440575 Score: 53
Period size: 8 Copynumber: 9.0 Consensus size: 8
10440492 TAATTATTAA
*
10440502 AAATATAA
1 AAATATAT
10440510 AAATATTAT
1 AAATA-TAT
10440519 AAATATAT
1 AAATATAT
* *
10440527 TAATTTA-
1 AAATATAT
10440534 ATAATATAT
1 A-AATATAT
10440543 AAATAATTAT
1 AAAT-A-TAT
10440553 AAATATAT
1 AAATATAT
* *
10440561 TATTATA-
1 AAATATAT
10440568 AAATATAT
1 AAATATAT
10440576 TATTTTAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
7 5 0.10
8 29 0.57
9 10 0.20
10 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
AAATATAT
Found at i:10440547 original size:24 final size:24
Alignment explanation
Indices: 10440511--10440601 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 24
10440501 AAAATATAAA
10440511 AATATTATAAATATATTAATTTAAT
1 AATA-TATAAATATATTAATTTAAT
* * *
10440536 AATATATAAATAATTATAAATATATT
1 AATATATAAAT-A-TATTAATTTAAT
* *
10440562 ATTATA-AAATATATTATTTTAAT
1 AATATATAAATATATTAATTTAAT
* *
10440585 TAT-TTTAAA-ATATTAAT
1 AATATATAAATATATTAAT
10440602 ATATTCAGAT
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
22 8 0.16
23 12 0.24
24 8 0.16
25 9 0.18
26 14 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATATAAATATATTAATTTAAT
Found at i:10440565 original size:14 final size:14
Alignment explanation
Indices: 10440513--10440579 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 14
10440503 AATATAAAAA
10440513 TATTATAAATATAT
1 TATTATAAATATAT
10440527 TAATTTAATAATATATAAAT
1 T-A-TT-ATAA-ATAT--AT
*
10440547 AATTATAAATATAT
1 TATTATAAATATAT
10440561 TATTATAAAATATAT
1 TATTAT-AAATATAT
10440576 TATT
1 TATT
10440580 TTAATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
14 8 0.18
15 13 0.30
16 6 0.14
17 8 0.18
18 6 0.14
19 1 0.02
20 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTATAAATATAT
Found at i:10440575 original size:33 final size:32
Alignment explanation
Indices: 10440494--10440575 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 32
10440484 ATATTATTTA
*
10440494 ATTATTA-AAAATATAAAAATATTATAAATAT
1 ATTATTATAAAATATATAAATATTATAAATAT
10440525 ATTAATT-TAATAATATATAAATAATTATAAATAT
1 ATT-ATTATAA-AATATATAAAT-ATTATAAATAT
10440559 ATTATTATAAAATATAT
1 ATTATTATAAAATATAT
10440576 TATTTTAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
31 3 0.07
32 5 0.11
33 20 0.44
34 17 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
ATTATTATAAAATATATAAATATTATAAATAT
Found at i:10440603 original size:45 final size:43
Alignment explanation
Indices: 10440483--10440606 Score: 121
Period size: 49 Copynumber: 2.8 Consensus size: 43
10440473 TTTGTATTTT
*
10440483 TATATTATTTAATTA-TTAAAAATA-TAA-A-AATATTATAAA
1 TATATTATTTAATTATTTAAAAATATTAATATATTATTATAAA
* *
10440522 TATATTAATTTAATAATATATAAATAATTATAAATATATTATTATAAAA
1 TATATT-ATTTAAT--TATTTAAA-AA-TATTAATATATTATTAT-AAA
*
10440571 TATATTATTTTAATTATTTTAAAATATTAATATATT
1 TATATTA-TTTAATTATTTAAAAATATTAATATATT
10440607 CAGATTGAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
39 6 0.09
40 7 0.10
42 2 0.03
43 4 0.06
44 2 0.03
45 13 0.19
46 4 0.06
47 7 0.10
48 8 0.12
49 15 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (43 bp):
TATATTATTTAATTATTTAAAAATATTAATATATTATTATAAA
Found at i:10451120 original size:25 final size:25
Alignment explanation
Indices: 10451079--10451127 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10451069 TCATATCACG
10451079 GCATTAACCAACAATGAAAATCTCA
1 GCATTAACCAACAATGAAAATCTCA
* *
10451104 GCATTAACGAACGATGAAAATCTC
1 GCATTAACCAACAATGAAAATCTC
10451128 CTAGAGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (25 bp):
GCATTAACCAACAATGAAAATCTCA
Found at i:10454149 original size:2 final size:2
Alignment explanation
Indices: 10454142--10454176 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10454132 GAAAAAGTAA
10454142 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10454177 TTATTTTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10462699 original size:18 final size:19
Alignment explanation
Indices: 10462664--10462700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10462654 CACGGAATGT
10462664 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
10462684 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
10462701 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:10463512 original size:12 final size:11
Alignment explanation
Indices: 10463488--10463549 Score: 63
Period size: 12 Copynumber: 5.3 Consensus size: 11
10463478 ATAAAAATAT
10463488 TTTATTATATTA
1 TTTATT-TATTA
*
10463500 TATATTTATTTA
1 TTTATTTA-TTA
10463512 TTTATTTATTA
1 TTTATTTATTA
10463523 -TTATTATTATTA
1 TTTA-T-TTATTA
10463535 TTTATTTTATTA
1 TTTA-TTTATTA
10463547 TTT
1 TTT
10463550 TTGCATGCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 3 0.07
11 6 0.14
12 30 0.68
13 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:10463525 original size:3 final size:3
Alignment explanation
Indices: 10463485--10463548 Score: 53
Period size: 3 Copynumber: 20.3 Consensus size: 3
10463475 TCTATAAAAA
10463485 TAT T-T TAT TA- TAT TAT ATATT TATT TATT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA-T TA-T TA-T TA-T TAT TAT TAT TAT
10463530 TAT TATT TAT T-T TAT TAT T
1 TAT TA-T TAT TAT TAT TAT T
10463549 TTTGCATGCC
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.11
3 29 0.53
4 19 0.35
5 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:10463537 original size:31 final size:31
Alignment explanation
Indices: 10463489--10463549 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10463479 TAAAAATATT
10463489 TTATTATATTATATATTTA-TTTATTTATTTA
1 TTATTATATTATATATTTATTTTA-TTATTTA
10463520 TTATTATTATTAT-TATTTATTTTATTATTT
1 TTATTA-TATTATATATTTATTTTATTATTT
10463550 TTGCATGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (31 bp):
TTATTATATTATATATTTATTTTATTATTTA
Found at i:10466740 original size:95 final size:94
Alignment explanation
Indices: 10466630--10466890 Score: 355
Period size: 95 Copynumber: 2.7 Consensus size: 94
10466620 CCAAGTTATA
10466630 ATTAT-ATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATA-AATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTAT
10466694 GGATAAGATTCAGCTAGCCTGATAAAGGTG
65 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * *
10466724 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAA-CAATTGGTTAAATGCGCCGACTTTA
1 ATTATAATATA-AATAAAGCTTGAGTTGTCCCTCTA-AAGCAATTGGTTAAACGCCCCGGCTTTA
*
10466788 TGGATAATATTCAGCTAGCCTGATAAAGGTG
64 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * * *
10466819 GTTATAATACCTATATAATATCATTAAGTTGTCCCTCTAAAGCAATTGGTTGAACGCCCCAGCTT
1 ATTATAATA--TAAATAA-AGC-TTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTT
10466884 TATGGAT
62 TATGGAT
10466891 TCAGCTAGCT
Statistics
Matches: 146, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
94 5 0.03
95 89 0.61
96 6 0.04
97 6 0.04
98 40 0.27
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (94 bp):
ATTATAATATAAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATG
GATAAGATTCAGCTAGCCTGATAAAGGTG
Done.