Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 23 of 129
Found at i:4676017 original size:109 final size:107
Alignment explanation
Indices: 4675819--4676206 Score: 343
Period size: 109 Copynumber: 3.6 Consensus size: 107
4675809 CGATTCTGTA
* * * * *
4675819 AGACCTTCGGGCATGATTTCAATTCGCA-GTATTATTCCA-ATCGATTATTTAATTTTGACTTAC
1 AGACCTCCGGGCATAATTTCAATTCG-AGGTGTTA-TCCAGATCGATTCTTTAATTTCGACTTAC
* * *
4675882 -AGTATTGTCTCAGTCAATTTTATAAGACCTCCAGGCATGATTTTT
64 GA-TGTTGTCTCAGTCGATTCTATAAGACCTCC-GGCATGATTTTT
*
4675927 AGGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGACTTACG
1 A-GACCTCCGGGCATAATTTCAATTCGAGGTGTTATCCAGATCGATTCTTTAATTTCGACTTACG
* * * * * * *
4675992 ATGTTATTTCAGTCGATTCTGTAAGACCTTCGGGTATGATTGCTA
65 ATGTTGTCTCAGTCGATTCTATAAGACC-TCCGGCATGATT-TTT
* * * * **
4676037 AGACCTCCGGGCATAATTTCGATT-TACGGTGTTATCCCGATTGATTCTTTAATTTTTACTTACG
1 AGACCTCCGGGCATAATTTCAATTCGA-GGTGTTATCCAGATCGATTCTTTAATTTCGACTTACG
* * *
4676101 GTGTTGTCTCAGTCGATTCTATAAGACCTCCGAACATGGTTTCTT
65 ATGTTGTCTCAGTCGATTCTATAAGACCTCCG-GCATGATTT-TT
** * ** * * * * *
4676146 AGACCTCTAGGCATGATTTTGATTCGCGATGTTATCCCGATCTATTTTTTAATTTCGACTT
1 AGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCCAGATCGATTCTTTAATTTCGACTT
4676207 GTAGTGACCT
Statistics
Matches: 225, Mismatches: 45, Indels: 19
0.78 0.16 0.07
Matches are distributed among these distances:
108 9 0.04
109 211 0.94
110 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (107 bp):
AGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCCAGATCGATTCTTTAATTTCGACTTACGA
TGTTGTCTCAGTCGATTCTATAAGACCTCCGGCATGATTTTT
Found at i:4676086 original size:414 final size:414
Alignment explanation
Indices: 4675403--4676206 Score: 948
Period size: 414 Copynumber: 1.9 Consensus size: 414
4675393 ACATGATTTT
** * * * * *
4675403 TAAGACCTTCGGGCATGATTTGGATTCACGGTGTTATCCCGATCGATTCTTTAATTTCGACTTGC
1 TAAGACCTTCGGGCATGATTTCAATTCACAGTATTATCCCAATCGATTATTTAATTTCGACTTAC
* * * * * * * * *
4675468 GATGTTATCTCAGTCGATTCTGTAAGACCTCCGGGTATGATTTTTAATACTTTCAGATATAATTT
66 GATATTATCTCAGTCAATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCAGACATAATTT
** * * * * *
4675533 TGATTCGCGGTGTTATCTCGATCGATTCTTTAATTTCGTCTTGCGATGTTATCCGAGTCGATTTT
131 CAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGACTTACGATGTTATCCGAGTCGATTCT
* * * * *
4675598 GTAAGACCTCCGAATATTATTTCTAAGACCTTAAGACATAATTTTGATTCACGATGTTATCTCAA
196 GTAAGACCTCCGAATATGATTGCTAAGACCTCAAGACATAATTTCGATTCACGATGTTATCCCAA
* * * * * * *
4675663 TCAATTCTTTAATTTTGACTTGCGATGTTATCTCAGTTGATTTTGTAAGACCTCTGGATATGATT
261 TCAATTCTTTAATTTTGACTTACGATGTTATCTCAGTCGATTCTATAAGACCTCCGAACATGATT
* * * *
4675728 TCTAAGACCTCCGGGTATAATTTTGATTCGCTG-TGTTATTCCGATCGATTCTTTAATTTTGACT
326 TCTAAGACCTCCAGGCATAATTTTGATTCGC-GATGTTATCCCGATCGATTCTTTAATTTCGACT
4675792 TATGGTATTGTCTCAATCGATTCTG
390 TATGGTATTGTCTCAATCGATTCTG
* * *
4675817 TAAGACCTTCGGGCATGATTTCAATTCGCAGTATTATTCCAATCGATTATTTAATTTTGACTTAC
1 TAAGACCTTCGGGCATGATTTCAATTCACAGTATTATCCCAATCGATTATTTAATTTCGACTTAC
* * * * *
4675882 -AGTATTGTCTCAGTCAATTTTATAAGACCTCCAGGCATGATTTTTAGGACCTCCGGGCATAATT
66 GA-TATTATCTCAGTCAATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCAGACATAATT
*
4675946 TCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGACTTACGATGTTATTTC-AGTCGATT
130 TCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGACTTACGATGTTA-TCCGAGTCGATT
* ** ** * * *
4676010 CTGTAAGACCTTCGGGTATGATTGCTAAGACCTCCGGGCATAATTTCGATTTACGGTGTTATCCC
194 CTGTAAGACCTCCGAATATGATTGCTAAGACCTCAAGACATAATTTCGATTCACGATGTTATCCC
* ** * * * *
4676075 GATTGATTCTTTAATTTTTACTTACGGTGTTGTCTCAGTCGATTCTATAAGACCTCCGAACATGG
259 AATCAATTCTTTAATTTTGACTTACGATGTTATCTCAGTCGATTCTATAAGACCTCCGAACATGA
* * * * *
4676140 TTTCTTAGACCTCTAGGCATGATTTTGATTCGCGATGTTATCCCGATCTATTTTTTAATTTCGAC
324 TTTCTAAGACCTCCAGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTAATTTCGAC
4676205 TT
389 TT
4676207 GTAGTGACCT
Statistics
Matches: 319, Mismatches: 68, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
413 2 0.01
414 315 0.99
415 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (414 bp):
TAAGACCTTCGGGCATGATTTCAATTCACAGTATTATCCCAATCGATTATTTAATTTCGACTTAC
GATATTATCTCAGTCAATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCAGACATAATTT
CAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGACTTACGATGTTATCCGAGTCGATTCT
GTAAGACCTCCGAATATGATTGCTAAGACCTCAAGACATAATTTCGATTCACGATGTTATCCCAA
TCAATTCTTTAATTTTGACTTACGATGTTATCTCAGTCGATTCTATAAGACCTCCGAACATGATT
TCTAAGACCTCCAGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTAATTTCGACTT
ATGGTATTGTCTCAATCGATTCTG
Found at i:4676264 original size:36 final size:36
Alignment explanation
Indices: 4676224--4676294 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
4676214 CCTCCGGACA
*
4676224 TAATTTTGA-TTCGCGGTGTTATCCCAATCGATTCTT
1 TAATTTTGACTT-GCGGTGTTATCACAATCGATTCTT
**
4676260 TAATTTTGACTTGTTGTGTTATCACAATCGATTCT
1 TAATTTTGACTTGCGGTGTTATCACAATCGATTCT
4676295 GTAAGACCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 29 0.94
37 2 0.06
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (36 bp):
TAATTTTGACTTGCGGTGTTATCACAATCGATTCTT
Found at i:4676341 original size:87 final size:86
Alignment explanation
Indices: 4676226--4676402 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 86
4676216 TCCGGACATA
* * * ***
4676226 ATTTTGATTCGCGGTGTTATCCCAATCGATTCTTTAATTTTGACTTGTTGTGTTATCACAATCGA
1 ATTTTAATTCACGATGTTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCACAATCGA
4676291 TTCTGTAAGACCTCCAAGCATG
66 TTCTGTAAGACC-CCAAGCATG
* * * * *
4676313 ATTTTAATTCACGATGTTATCTCGATCGATTCTTTAATTTTGACTTACGGTGTTGTCTCAGTCGA
1 ATTTTAATTCACGATGTTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCACAATCGA
**
4676378 TTCTGTAAGACCCCGGGCATG
66 TTCTGTAAGACCCCAAGCATG
4676399 ATTT
1 ATTT
4676403 CTAAGACTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 11 0.14
87 66 0.86
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (86 bp):
ATTTTAATTCACGATGTTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCACAATCGA
TTCTGTAAGACCCCAAGCATG
Found at i:4678297 original size:15 final size:15
Alignment explanation
Indices: 4678272--4678345 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
4678262 CTTAAAATAA
4678272 AAAATCTCTAAAATCC
1 AAAA-CTCTAAAATCC
4678288 AAAACTCTAAAAT-C
1 AAAACTCTAAAATCC
* * *
4678302 TAAACCCTTAAATCC
1 AAAACTCTAAAATCC
* *
4678317 AAACCCCTAAAATCC
1 AAAACTCTAAAATCC
* *
4678332 AAAAATCTTAAATC
1 AAAACTCTAAAATC
4678346 TTTCATATCC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.23
15 32 0.68
16 4 0.09
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAACTCTAAAATCC
Found at i:4683568 original size:101 final size:101
Alignment explanation
Indices: 4683451--4683643 Score: 341
Period size: 101 Copynumber: 1.9 Consensus size: 101
4683441 ACTGCATGGC
* * * *
4683451 GGGTCAAGTTTTTTAATAGCCGACCACTAAAGGAAAGAAAAATTAAATGCTAATCTGACTAAGTG
1 GGGTCAAATTTTTTAATAGCCAACCACTAAAGGAAAGAAAAATTAAATACTAATCTGACTAAGTA
4683516 ATAGCTATTGTTTTATGTTAATTAGAAGATCATGAA
66 ATAGCTATTGTTTTATGTTAATTAGAAGATCATGAA
*
4683552 GGGTCAAATTTTTTAATAGCCAACCACTAAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
1 GGGTCAAATTTTTTAATAGCCAACCACTAAAGGAAAGAAAAATTAAATACTAATCTGACTAAGTA
4683617 ATAGCTATTGTTTTATGTTAATTAGAA
66 ATAGCTATTGTTTTATGTTAATTAGAA
4683644 AATTAATACG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 87 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (101 bp):
GGGTCAAATTTTTTAATAGCCAACCACTAAAGGAAAGAAAAATTAAATACTAATCTGACTAAGTA
ATAGCTATTGTTTTATGTTAATTAGAAGATCATGAA
Found at i:4687043 original size:23 final size:24
Alignment explanation
Indices: 4686996--4687043 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4686986 ATTATTTATG
*
4686996 TAATAAATTTTAAAATGTAACATT
1 TAATAAATTTTAAAATGTAAAATT
* *
4687020 TAAT-AATTTTAAATTTTAAAATT
1 TAATAAATTTTAAAATGTAAAATT
4687043 T
1 T
4687044 TTTTAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATAAATTTTAAAATGTAAAATT
Found at i:4688113 original size:21 final size:20
Alignment explanation
Indices: 4688085--4688124 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4688075 CTGTTCATAA
* *
4688085 AGTGTTAAATTTTTAATTTC
1 AGTGTTAAAATTTAAATTTC
4688105 AGTGATTAAAATTTAAATTT
1 AGTG-TTAAAATTTAAATTT
4688125 TGACTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (20 bp):
AGTGTTAAAATTTAAATTTC
Found at i:4689186 original size:30 final size:29
Alignment explanation
Indices: 4689143--4689203 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
4689133 AACATGCTTA
4689143 CCTTTTTTCTTTTTTTTCATTACAGGGAT
1 CCTTTTTTCTTTTTTTTCATTACAGGGAT
4689172 CCTTTTTTCTTTTTTTTCATTACAGGGAT
1 CCTTTTTTCTTTTTTTTCATTACAGGGAT
4689201 CCT
1 CCT
4689204 AGCAACTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.20, G:0.10, T:0.57
Consensus pattern (29 bp):
CCTTTTTTCTTTTTTTTCATTACAGGGAT
Found at i:4690535 original size:32 final size:32
Alignment explanation
Indices: 4690499--4690560 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
4690489 CTCGAACCTC
* *
4690499 GCTCTTATACCACTTGTTGAGAAATCAACATA
1 GCTCTAATACCACTTGTTAAGAAATCAACATA
4690531 GCTCTAATACCACTTGTTAAGAAATCAACA
1 GCTCTAATACCACTTGTTAAGAAATCAACA
4690561 CATACACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (32 bp):
GCTCTAATACCACTTGTTAAGAAATCAACATA
Found at i:4693781 original size:11 final size:11
Alignment explanation
Indices: 4693768--4693874 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 11
4693758 TTGGTTATTT
4693768 TTTTA-TTTTA
1 TTTTATTTTTA
4693778 TTTTATATTTTA
1 TTTTAT-TTTTA
* * *
4693790 TGTATATCATATA
1 T-TTTAT-TTTTA
4693803 TATTTATTATTTA
1 T-TTTATT-TTTA
*
4693816 -TTTATTATTA
1 TTTTATTTTTA
**
4693826 CTAATATTTTTA
1 -TTTTATTTTTA
4693838 TTTTTATTTTTA
1 -TTTTATTTTTA
4693850 TTTT-TTTATT-
1 TTTTATTT-TTA
4693860 TTTGTATTTTTA
1 TTT-TATTTTTA
4693872 TTT
1 TTT
4693875 ATCTAATTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
10 14 0.19
11 15 0.21
12 28 0.39
13 15 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:4693825 original size:14 final size:14
Alignment explanation
Indices: 4693806--4693918 Score: 56
Period size: 14 Copynumber: 7.8 Consensus size: 14
4693796 TCATATATAT
4693806 TTATTATTTATTTA
1 TTATTATTTATTTA
*
4693820 TTATTACTAATATTT-
1 TTATTA-T-TTATTTA
4693835 TTATT-TTTATTT-
1 TTATTATTTATTTA
* *
4693847 TTATTTTTTTATTTT
1 TTA-TTATTTATTTA
4693862 TGTATT-TTTATTTA
1 T-TATTATTTATTTA
* *
4693876 TCTAATTATATATCTGA
1 T-T-ATTATTTAT-TTA
4693893 -TATTAGTATTATTTA
1 TTATTA-T-TTATTTA
*
4693908 TTTTTATTTAT
1 TTATTATTTAT
4693919 CCTATAATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
12 8 0.10
13 3 0.04
14 30 0.38
15 17 0.22
16 18 0.23
17 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:4693841 original size:6 final size:6
Alignment explanation
Indices: 4693830--4693874 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
4693820 TTATTACTAA
* *
4693830 TATTTT TATTTT TATTTT TATTTT T-TTAT T-TTTG TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
4693875 ATCTAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 7 0.21
6 27 0.79
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:4694863 original size:11 final size:11
Alignment explanation
Indices: 4694823--4694978 Score: 92
Period size: 11 Copynumber: 14.2 Consensus size: 11
4694813 CTCCAGGTTT
4694823 TTTTTTTTTTCA
1 TTTTTTTTTT-A
*
4694835 TTTCTTTGTTTA
1 TTT-TTTTTTTA
4694847 -TTTTTTTTTA
1 TTTTTTTTTTA
4694857 TTTTTTTATTT-
1 TTTTTTT-TTTA
* **
4694868 TTTTTATTAGA
1 TTTTTTTTTTA
* *
4694879 TTAGATTTATTTA
1 TT--TTTTTTTTA
* *
4694892 ATATTTTTTTA
1 TTTTTTTTTTA
* *
4694903 TCTTTATTTTA
1 TTTTTTTTTTA
4694914 TTTTTATTTTTA
1 TTTTT-TTTTTA
4694926 -TTTTTTTTTA
1 TTTTTTTTTTA
* *
4694936 -CTTTTCTTTA
1 TTTTTTTTTTA
4694946 ---TTTTTTTA
1 TTTTTTTTTTA
4694954 TTTTTTTTTTA
1 TTTTTTTTTTA
4694965 TTTTTTTTATTA
1 TTTTTTTT-TTA
4694977 TT
1 TT
4694979 CTATTTTCTT
Statistics
Matches: 112, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
8 7 0.06
10 22 0.20
11 55 0.49
12 17 0.15
13 11 0.10
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:4694915 original size:5 final size:5
Alignment explanation
Indices: 4694843--4694975 Score: 68
Period size: 5 Copynumber: 27.2 Consensus size: 5
4694833 CATTTCTTTG
* ** **
4694843 TTTAT TTTTT TTTA- TTT-T TTTAT TTT-T TTTAT TAGAT TAGA- TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* *
4694889 TTAAT ATTT-T TTTAT CTTTAT TTTATT TTTATT TTTAT TTTTT TTTACT
1 TTTAT -TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTA-T
* *
4694938 TTT-C TTTA- TTT-T TTTATT TTTTT TTTAT TTT-T TTTAT T
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT T
4694976 ATTCTATTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
4 28 0.28
5 47 0.47
6 26 0.26
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:4694940 original size:28 final size:27
Alignment explanation
Indices: 4694820--4694985 Score: 117
Period size: 27 Copynumber: 6.1 Consensus size: 27
4694810 CCGCTCCAGG
* *
4694820 TTTTTTTTT-TTTTCATTTCTTTGTTTA
1 TTTTTTTTTATTTT-ATTTATTTTTTTA
4694847 TTTTTTTTTATTTT-TTTATTTTTTT-
1 TTTTTTTTTATTTTATTTATTTTTTTA
* *** * * *
4694872 TATTAGATTAGATTTATTTAATATTTT-
1 TTTTTTTTTA-TTTTATTTATTTTTTTA
* *
4694899 TTTATCTTTATTTTATTT-TTATTTTTA
1 TTTTTTTTTATTTTATTTATT-TTTTTA
*
4694926 TTTTTTTTTACTTTTCTTTATTTTTTTA
1 TTTTTTTTTA-TTTTATTTATTTTTTTA
* * *
4694954 TTTTTTTTTTATTTTTTTTATTATTCTA
1 -TTTTTTTTTATTTTATTTATTTTTTTA
4694982 TTTT
1 TTTT
4694986 CTTTAAATAA
Statistics
Matches: 108, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
25 7 0.06
26 23 0.21
27 35 0.32
28 31 0.29
29 12 0.11
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTTTTTTTATTTTATTTATTTTTTTA
Found at i:4695119 original size:60 final size:57
Alignment explanation
Indices: 4694993--4695346 Score: 406
Period size: 60 Copynumber: 6.0 Consensus size: 57
4694983 TTTCTTTAAA
*
4694993 TAAAAATCAAAAATTTCAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTAT-T
1 TAAAAAT--AAAATTTC-AAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTT-TCT
* *
4695054 TAAAAATCAAAATTTCTAAAAAATATTTTTAGGGAAGAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAAATTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCT
* *
4695113 TAAAAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 T--AAAAATAAAATTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCT
* * * *** * *
4695173 TAGAAATAAATTTTTAAAAAGGGATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCT
* *
4695231 TGAAAATCAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAAATTTC-AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT
* *
4695291 TAAAAAT-AAATTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 TAAAAATAAAATTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTC
4695347 CTACACAAGA
Statistics
Matches: 258, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
57 40 0.16
58 67 0.26
59 40 0.16
60 98 0.38
61 13 0.05
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
TAAAAATAAAATTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:4695252 original size:118 final size:118
Alignment explanation
Indices: 4694994--4695344 Score: 474
Period size: 118 Copynumber: 3.0 Consensus size: 118
4694984 TTCTTTAAAT
* * * *
4694994 AAAAATCAAAAATTTCAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTATTTAAAA
1 AAAAATC-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAA
* * *
4695059 ATCAAAATTTCTAAAAAATATTTTTAGGGAAGAGTTGAAAGTATCAATTTTTCTTAA
65 AT--AAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT-A
* *
4695116 AAAAAT-AAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA
1 AAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAAA
* **
4695179 TAAATTTTTAAAAAGGGATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT-
66 TAAATTTCTAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
4695232 GAAAATCAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
1 AAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAAA
* * *
4695297 TAAATTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
66 TAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
4695345 TCCTACACAA
Statistics
Matches: 204, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
116 5 0.02
117 50 0.25
118 91 0.45
119 45 0.22
120 7 0.03
122 6 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (118 bp):
AAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTACTTAAAAA
TAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:4699249 original size:14 final size:14
Alignment explanation
Indices: 4699227--4699279 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
4699217 AACAATAGAT
*
4699227 AAAAA-ATGAGGAA
1 AAAAAGATGAAGAA
*
4699240 AAAAAGATGATGAA
1 AAAAAGATGAAGAA
* *
4699254 AAAAAAATGAAAAA
1 AAAAAGATGAAGAA
4699268 AAAAAGAATGAA
1 AAAAAG-ATGAA
4699280 TGAATGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
13 5 0.15
14 23 0.70
15 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAAAGATGAAGAA
Found at i:4699263 original size:28 final size:30
Alignment explanation
Indices: 4699227--4699299 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
4699217 AACAATAGAT
4699227 AAAAAATGAGGAAAAAAAG-ATG-ATGAA-A
1 AAAAAATGA-GAAAAAAAGAATGAATGAATA
* *
4699255 AAAAAATGAAAAAAAAAAGAATGAATGAATG
1 AAAAAATG-AGAAAAAAAGAATGAATGAATA
4699286 AAAAAATGAGAAAA
1 AAAAAATGAGAAAA
4699300 TGAAAAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 16 0.42
29 4 0.11
30 10 0.26
31 8 0.21
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (30 bp):
AAAAAATGAGAAAAAAAGAATGAATGAATA
Found at i:4699268 original size:8 final size:8
Alignment explanation
Indices: 4699255--4699307 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
4699245 GATGATGAAA
4699255 AAAAAATG
1 AAAAAATG
4699263 AAAAAA--
1 AAAAAATG
4699269 AAAAGAATG
1 AAAA-AATG
**
4699278 AATGAATG
1 AAAAAATG
4699286 AAAAAATG
1 AAAAAATG
*
4699294 AGAAAATG
1 AAAAAATG
4699302 AAAAAA
1 AAAAAA
4699308 AGAGATTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
6 4 0.11
7 2 0.06
8 28 0.78
9 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4699301 original size:16 final size:16
Alignment explanation
Indices: 4699282--4699312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4699272 AGAATGAATG
*
4699282 AATGAAAAAATGAGAA
1 AATGAAAAAAAGAGAA
4699298 AATGAAAAAAAGAGA
1 AATGAAAAAAAGAGA
4699313 TTCAAATTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (16 bp):
AATGAAAAAAAGAGAA
Found at i:4700676 original size:41 final size:41
Alignment explanation
Indices: 4700560--4700980 Score: 587
Period size: 41 Copynumber: 10.1 Consensus size: 41
4700550 ATGATTGTCA
4700560 AGGAGCAATTTACTTTTTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAG-T-CGTGGTGCCTCTGTTTAG
*
4700602 AGGAGCAATTTAATTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
4700644 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
4700685 AGGAGCAATTTAATTTCTCAAAGTCGCGTTGCCTCAGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
4700727 AGGAGTAATTTACCTTCCAAAAGTTGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
4700769 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTCTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
4700810 AGGAGCAATTTAC-TTTCTAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
4700851 AGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
4700892 ATGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* *
4700934 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
4700975 AGGAGC
1 AGGAGC
4700981 TTTGATAAAA
Statistics
Matches: 338, Mismatches: 33, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
40 7 0.02
41 174 0.51
42 157 0.46
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:4700700 original size:83 final size:83
Alignment explanation
Indices: 4700560--4700980 Score: 600
Period size: 83 Copynumber: 5.1 Consensus size: 83
4700550 ATGATTGTCA
4700560 AGGAGCAATTTACTTTTTC-AAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTAATTTCTCA
1 AGGAGCAATTTAC-TTTTCAAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTT-TCA
4700622 AAGTCGTGGTGCCTCTGTTTAG
62 AAGTCGTGGTGCCTCTGTTTAG
4700644 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTCTCAAAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTT-TCAAAG
* * *
4700708 TCGCGTTGCCTCAGTTTAG
65 TCGTGGTGCCTCTGTTTAG
* * * * * *
4700727 AGGAGTAATTTACCTTCCAAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGT
*
4700792 CGTGGTGCCTCTGTCTAG
66 CGTGGTGCCTCTGTTTAG
* *
4700810 AGGAGCAATTTAC-TTTCTAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTAATTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGT
4700874 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
* * * *
4700892 ATGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGT
* *
4700957 CGTTGAGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
4700975 AGGAGC
1 AGGAGC
4700981 TTTGATAAAA
Statistics
Matches: 303, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
81 3 0.01
82 75 0.25
83 176 0.58
84 49 0.16
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAATTTTCAAAGT
CGTGGTGCCTCTGTTTAG
Found at i:4701193 original size:113 final size:112
Alignment explanation
Indices: 4700981--4701230 Score: 359
Period size: 113 Copynumber: 2.2 Consensus size: 112
4700971 TTAGAGGAGC
4700981 TTTGATAAAAAAAACAAAAAAAATAAAAAAACAAAAAGTTGCCTCTATTTAGAGGAGCTTTGTTT
1 TTTGAT-AAAAAAA-AAAAAAAATAAAAAAACAAAAAGTTGCCTCTATTTAGAGGAGCTTTGTTT
* * * *
4701046 ATGTTTCTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAGT
64 ATCTTTCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATC-AAGA
*
4701096 TTTGATAAAAAAATAAAAAAAATAAAAATAA-AAAAGGTTGACCTCTATTTAGAGGAGCTTTGTT
1 TTTGATAAAAAAA-AAAAAAAATAAAAA-AACAAAAAGTTG-CCTCTATTTAGAGGAGCTTTGTT
4701160 TA-CTTTC-CAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCAAGA
63 TATCTTTCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCAAGA
4701208 TTT-A-AAAAAAAAAAAAAAA-AAAA
1 TTTGATAAAAAAAAAAAAAAATAAAA
4701231 GCAAAAAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
108 4 0.03
109 8 0.06
110 7 0.06
111 1 0.01
112 6 0.05
113 35 0.28
114 33 0.26
115 33 0.26
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (112 bp):
TTTGATAAAAAAAAAAAAAAATAAAAAAACAAAAAGTTGCCTCTATTTAGAGGAGCTTTGTTTAT
CTTTCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCAAGA
Found at i:4701406 original size:41 final size:41
Alignment explanation
Indices: 4701290--4701460 Score: 229
Period size: 41 Copynumber: 4.1 Consensus size: 41
4701280 ATGATTGTCA
* *
4701290 AGGAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGGAGCCTCTGTTTAG
*
4701331 AGGAGCAATTTACATTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGAGCCTCTGTTTAG
**
4701373 AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTAATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGTTTAG
* * *
4701414 AGGAACAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGTTTAG
4701455 AGGAGC
1 AGGAGC
4701461 TTTGGTAAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 4 0.03
41 78 0.67
42 35 0.30
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGTTTAG
Found at i:4701473 original size:1 final size:1
Alignment explanation
Indices: 4701467--4701527 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
4701457 GAGCTTTGGT
* * * * * *
4701467 AAAAAAAAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAACAAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4701528 TGAAAATGTT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:4701480 original size:8 final size:8
Alignment explanation
Indices: 4701467--4701527 Score: 90
Period size: 8 Copynumber: 7.8 Consensus size: 8
4701457 GAGCTTTGGT
4701467 AAAAAAA-
1 AAAAAAAC
4701474 AAAAAAAC
1 AAAAAAAC
4701482 AAAAAAAC
1 AAAAAAAC
4701490 AAAAAAAC
1 AAAAAAAC
4701498 AAAAAAAC
1 AAAAAAAC
4701506 AAAAACAA-
1 AAAAA-AAC
*
4701514 AAAAAAAT
1 AAAAAAAC
4701522 AAAAAA
1 AAAAAA
4701528 TGAAAATGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
7 9 0.18
8 40 0.78
9 2 0.04
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4701752 original size:14 final size:14
Alignment explanation
Indices: 4701733--4701837 Score: 58
Period size: 14 Copynumber: 7.4 Consensus size: 14
4701723 ATATATATAT
4701733 TTATTATTTATTTA
1 TTATTATTTATTTA
*
4701747 TTATTACTAATATTT-
1 TTATTA-T-TTATTTA
4701762 TTATT-TTTATTT-
1 TTATTATTTATTTA
*
4701774 TTTTTATTT-TTGTA
1 TTATTATTTATT-TA
* *
4701788 TTTTTATTTATCTAA
1 TTATTATTTAT-TTA
*
4701803 TTATATATCTGATATTA
1 TTAT-TAT-TTAT-TTA
*
4701820 GTATTATTTATTT-
1 TTATTATTTATTTA
4701833 TTATT
1 TTATT
4701838 TATCCTATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
12 11 0.15
13 9 0.13
14 17 0.24
15 14 0.20
16 12 0.17
17 8 0.11
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:4701777 original size:15 final size:16
Alignment explanation
Indices: 4701759--4701798 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
4701749 ATTACTAATA
4701759 TTTTTATTTT-TATTT
1 TTTTTATTTTGTATTT
4701774 TTTTTATTTTTGTATTT
1 TTTTTA-TTTTGTATTT
4701791 TTATTTAT
1 TT-TTTAT
4701799 CTAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
17 8 0.36
18 4 0.18
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTATTTTGTATTT
Found at i:4702413 original size:20 final size:20
Alignment explanation
Indices: 4702375--4702415 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4702365 ACATTCGATG
* *
4702375 ACATTTTCTAGATTTCGACA
1 ACATTTTCTAGAATCCGACA
*
4702395 ACATTTTTTAGAATCCGACA
1 ACATTTTCTAGAATCCGACA
4702415 A
1 A
4702416 AAATCCCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
ACATTTTCTAGAATCCGACA
Found at i:4702818 original size:11 final size:10
Alignment explanation
Indices: 4702804--4702880 Score: 61
Period size: 11 Copynumber: 7.7 Consensus size: 10
4702794 TTTAATATTT
4702804 TTTTATCTTTA
1 TTTT-TCTTTA
*
4702815 TTTTATTTTTA
1 TTTT-TCTTTA
*
4702826 TTTTTGTTTTA
1 TTTTT-CTTTA
*
4702837 CTTTTCTTTA
1 TTTTTCTTTA
4702847 -TTTT-TTTA
1 TTTTTCTTTA
*
4702855 TTTTTATTTA
1 TTTTTCTTTA
4702865 TTTTT-TTTA
1 TTTTTCTTTA
*
4702874 TTATTCT
1 TTTTTCT
4702881 ATTTTCTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
8 4 0.07
9 16 0.28
10 15 0.26
11 23 0.40
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:4702823 original size:17 final size:16
Alignment explanation
Indices: 4702804--4702885 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 16
4702794 TTTAATATTT
*
4702804 TTTTATCTTTATTTTA
1 TTTTATTTTTATTTTA
*
4702820 TTTTTATTTTTGTTTTA
1 -TTTTATTTTTATTTTA
* *
4702837 CTTT-TCTTTA-TTT-
1 TTTTATTTTTATTTTA
4702850 TTTTATTTTTA-TTTA
1 TTTTATTTTTATTTTA
* *
4702865 TTTTTTTTATTATTCTA
1 TTTTATTT-TTATTTTA
4702882 TTTT
1 TTTT
4702886 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
13 3 0.06
14 11 0.21
15 11 0.21
16 6 0.12
17 21 0.40
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:4702847 original size:27 final size:25
Alignment explanation
Indices: 4702816--4702885 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 25
4702806 TTATCTTTAT
*
4702816 TTTATTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTTATTTTT-ATTTA-TTTTC
*
4702843 TTTATTTTTTTATTTTTATTTATTTTT
1 TTTA--TTTTTATTTTTATTTATTTTC
4702870 TTTATTATTCTATTTT
1 TTTATT-TT-TATTTT
4702886 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 18 0.49
28 4 0.11
29 11 0.30
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (25 bp):
TTTATTTTTATTTTTATTTATTTTC
Found at i:4702864 original size:18 final size:18
Alignment explanation
Indices: 4702815--4702871 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
4702805 TTTATCTTTA
*
4702815 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* *
4702832 TTTTACTTTTCTTTATTT
1 TTTTATTTTTATTTATTT
4702850 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
4702868 TTTT
1 TTTT
4702872 TATTATTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:4702890 original size:17 final size:16
Alignment explanation
Indices: 4702844--4702890 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
4702834 TTACTTTTCT
*
4702844 TTATTT-TTTTATTT-
1 TTATTTATTTTCTTTA
*
4702858 TTATTTATTTTTTTTA
1 TTATTTATTTTCTTTA
4702874 TTATTCTATTTTCTTTA
1 TTATT-TATTTTCTTTA
4702891 AATAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 5 0.18
17 10 0.36
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTATTTTCTTTA
Found at i:4702999 original size:59 final size:59
Alignment explanation
Indices: 4702893--4703186 Score: 380
Period size: 60 Copynumber: 4.9 Consensus size: 59
4702883 TTTCTTTAAA
* *
4702893 TAAAAATCAAAAATTCCAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAAATTTCC--AAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
4702954 TAAAAATCAAAATTTCCAAAAAATATTTTTAAGGAAGAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAAATTTCCAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
4703013 TAAAAA-AATAAATTTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCA-AAATTTCC-AAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * * *
4703073 TGAAAATCAAATTTTCAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCT
1 TAAAAATCAAAATTTC-CAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
4703133 TAAAAAT--AAATTTTCAAAAAATA-TTTTTAGGAAAAAGTTTAAAGTATTAATTTT
1 TAAAAATCAAAATTTCCAAAAAATATTTTTTAGG-AAAAGTTGAAAGTATCAATTTT
4703187 TCCTACACAA
Statistics
Matches: 205, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
56 7 0.03
57 27 0.13
58 6 0.03
59 53 0.26
60 95 0.46
61 17 0.08
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (59 bp):
TAAAAATCAAAATTTCCAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:4703034 original size:119 final size:118
Alignment explanation
Indices: 4702906--4703186 Score: 422
Period size: 119 Copynumber: 2.4 Consensus size: 118
4702896 AAATCAAAAA
4702906 TTCCAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-
1 TTCC-AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCA
* * *
4702970 CAAAAAATATTTTTAAGGAAGAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAAT
65 AAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTT--AAAAATAAAT
* *
4703026 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTCAA
1 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAA
*
4703091 AAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
66 AAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * * * *
4703144 TTTC-AAAAAATATTTTTAGGAAAAAGTTTAAAGTATTAATTTT
1 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTT
4703187 TCCTACACAA
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
117 35 0.23
118 13 0.09
119 57 0.38
120 44 0.30
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (118 bp):
TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAA
AAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:4703055 original size:60 final size:58
Alignment explanation
Indices: 4702906--4703186 Score: 370
Period size: 59 Copynumber: 4.8 Consensus size: 58
4702896 AAATCAAAAA
4702906 TTCCAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAAT
1 TTCC-AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAAT
** *
4702967 TTCC-AAAAAATATTTTTAAGGAAGAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAAT
1 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAAAATAAAT
*
4703026 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAT
1 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAT
* *
4703085 TTTCAAAAAAA-ATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTCCAAAAAAATAT-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * * * *
4703144 TTTC-AAAAAATATTTTTAGGAAAAAGTTTAAAGTATTAATTTT
1 TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTT
4703187 TCCTACACAA
Statistics
Matches: 198, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
57 20 0.10
58 18 0.09
59 78 0.39
60 72 0.36
61 10 0.05
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (58 bp):
TTCCAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:4707515 original size:22 final size:24
Alignment explanation
Indices: 4707469--4707515 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
4707459 ATTATTTATG
*
4707469 TAATAAATTTTAAAATGTAACATT
1 TAATAAATTTTAAAATGTAAAATT
*
4707493 TAAT-AATTTT-AAATTTAAAATT
1 TAATAAATTTTAAAATGTAAAATT
4707515 T
1 T
4707516 TTTTAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 6 0.29
24 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATAAATTTTAAAATGTAAAATT
Found at i:4708583 original size:21 final size:20
Alignment explanation
Indices: 4708555--4708594 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4708545 CTGTTCATAA
* *
4708555 AGTGTTAAATTTTTAATTTC
1 AGTGTTAAAATTTAAATTTC
4708575 AGTGATTAAAATTTAAATTT
1 AGTG-TTAAAATTTAAATTT
4708595 TGACTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (20 bp):
AGTGTTAAAATTTAAATTTC
Found at i:4711496 original size:32 final size:32
Alignment explanation
Indices: 4711460--4711523 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
4711450 CTCGGATCTC
* *
4711460 GCTCTGATACTACTTGTTGAGAAATCAACACA
1 GCTCTGATACCACTTGTTAAGAAATCAACACA
4711492 GCTCTGATACCACTTGTTAAGAAATCAACACA
1 GCTCTGATACCACTTGTTAAGAAATCAACACA
4711524 TACACAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (32 bp):
GCTCTGATACCACTTGTTAAGAAATCAACACA
Found at i:4715978 original size:21 final size:21
Alignment explanation
Indices: 4715940--4715997 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4715930 AGATAACTAA
* * *
4715940 TAAAAAATATTAAAAATACT-
1 TAAAAAATAATAATAATAATC
4715960 TAAAATAATAATAATAATAATC
1 TAAAA-AATAATAATAATAATC
*
4715982 TAAAAAATTATAATAA
1 TAAAAAATAATAATAA
4715998 GAATAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.16
21 22 0.69
22 5 0.16
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAAAATAATAATAATAATC
Found at i:4716498 original size:20 final size:22
Alignment explanation
Indices: 4716446--4716500 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
4716436 AAGACCCTCT
4716446 AAATCTTAAAATCAAACCCTAA
1 AAATCTTAAAATCAAACCCTAA
* *
4716468 AACTCTCAAAACTC-AA-CC-AA
1 AAATCTTAAAA-TCAAACCCTAA
4716488 AAATCTTAAAATC
1 AAATCTTAAAATC
4716501 CGAATCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 11 0.39
23 2 0.07
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATCTTAAAATCAAACCCTAA
Found at i:4716536 original size:23 final size:23
Alignment explanation
Indices: 4716487--4716536 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
4716477 AACTCAACCA
* *
4716487 AAAATCTTAAAATCCGAATCTTC
1 AAAATCTTAAAACCCGAACCTTC
* * *
4716510 AAAATCTTGAAACCCTAACCTTT
1 AAAATCTTAAAACCCGAACCTTC
4716533 AAAA
1 AAAA
4716537 CTTTTACTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAATCTTAAAACCCGAACCTTC
Found at i:4717792 original size:74 final size:74
Alignment explanation
Indices: 4717671--4717819 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
4717661 AAATCATGAA
4717671 GGGTCAAGTTTTTTAATAGCCAACCACTGAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
1 GGGTCAAGTTTTTTAATAGCCAACCACTGAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
4717736 CTAGCTATT
66 CTAGCTATT
*
4717745 GGGTCAAGTTTTTTAATAGCCAACCACTTAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
1 GGGTCAAGTTTTTTAATAGCCAACCACTGAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
4717810 CTAGCTATT
66 CTAGCTATT
4717819 G
1 G
4717820 TTTTATGTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (74 bp):
GGGTCAAGTTTTTTAATAGCCAACCACTGAAGGAAAGAAAAATTAAATACTAATTTGACTAAGTA
CTAGCTATT
Found at i:4722498 original size:15 final size:16
Alignment explanation
Indices: 4722478--4722516 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4722468 AAATGATCAG
4722478 AATTTAAAAATA-AAA
1 AATTTAAAAATATAAA
* *
4722493 AATTTACAAATATAAG
1 AATTTAAAAATATAAA
4722509 AATTTAAA
1 AATTTAAA
4722517 TTTCAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATTTAAAAATATAAA
Found at i:4728119 original size:31 final size:32
Alignment explanation
Indices: 4728084--4728151 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
4728074 ATAATATCAC
* **
4728084 TTGTTATGG-ATCATCGTAACTCTGATACCAT
1 TTGTTAGGGAATCATCACAACTCTGATACCAT
*
4728115 TTGTT-GGGAATCATCACAGCTCTGATACCAT
1 TTGTTAGGGAATCATCACAACTCTGATACCAT
4728146 TTGTTA
1 TTGTTA
4728152 AGTTAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTTAGGGAATCATCACAACTCTGATACCAT
Found at i:4731048 original size:15 final size:16
Alignment explanation
Indices: 4731030--4731059 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4731020 GTTGTTATTA
4731030 AAAATT-ATAAAATTT
1 AAAATTAATAAAATTT
4731045 AAAATTAATAAAATT
1 AAAATTAATAAAATT
4731060 AATTTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATTAATAAAATTT
Found at i:4731541 original size:16 final size:17
Alignment explanation
Indices: 4731508--4731554 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
4731498 TTATTTTGTA
4731508 ATTTTTTAAAAAATTAT
1 ATTTTTTAAAAAATTAT
*
4731525 ATTTTTTATAAAA-TAT
1 ATTTTTTAAAAAATTAT
4731541 A-TTTTTAAAAAATT
1 ATTTTTTAAAAAATT
4731555 TTATAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 5 0.19
17 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTTTAAAAAATTAT
Found at i:4731629 original size:34 final size:34
Alignment explanation
Indices: 4731566--4731630 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
4731556 TATAACTTTC
*
4731566 TGAAAATTTATTTTTAATAAATTACAAAATTGAT
1 TGAAAATTTATTTTTAATAAATAACAAAATTGAT
* * *
4731600 TGAAAATTTATTTTTGATAAGTAATAAAATT
1 TGAAAATTTATTTTTAATAAATAACAAAATT
4731631 TACGAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (34 bp):
TGAAAATTTATTTTTAATAAATAACAAAATTGAT
Found at i:4736460 original size:29 final size:31
Alignment explanation
Indices: 4736410--4736475 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
4736400 TCTCAACATG
* *
4736410 ATATATATTATTTTTTATTATTTATTTAATT
1 ATATATAGTATTTTGTATTATTTATTTAATT
4736441 ATATATAGTA-TTTGTA-TATTTATTTAATT
1 ATATATAGTATTTTGTATTATTTATTTAATT
*
4736470 TTATAT
1 ATATAT
4736476 TTATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 18 0.56
30 5 0.16
31 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
ATATATAGTATTTTGTATTATTTATTTAATT
Found at i:4736499 original size:23 final size:22
Alignment explanation
Indices: 4736465--4736508 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
4736455 TATATTTATT
*
4736465 TAATTTTATATTTATATTTAAAA
1 TAATTTTATATTAAT-TTTAAAA
4736488 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATTTTAAA
4736509 TTGAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTATATTAATTTTAAAA
Found at i:4737082 original size:24 final size:25
Alignment explanation
Indices: 4737050--4737096 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4737040 TATTTATAAT
*
4737050 AAAAAATTATTAAATA-ATTAAACA
1 AAAAAATTAATAAATATATTAAACA
*
4737074 AAAAAATTAATCAATATATTAAA
1 AAAAAATTAATAAATATATTAAA
4737097 ATATAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAATTAATAAATATATTAAACA
Found at i:4737466 original size:17 final size:16
Alignment explanation
Indices: 4737434--4737484 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
4737424 TACTTTTAAA
*
4737434 AATAAAT-AAATTATT
1 AATAAATAAAATAATT
4737449 AATAAAGTAAAATAATT
1 AATAAA-TAAAATAATT
4737466 -ATAAATAAAA-AA-T
1 AATAAATAAAATAATT
4737479 AATAAA
1 AATAAA
4737485 ATCATTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.03
14 7 0.22
15 11 0.34
16 6 0.19
17 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AATAAATAAAATAATT
Found at i:4737482 original size:20 final size:20
Alignment explanation
Indices: 4737431--4737483 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
4737421 TTTTACTTTT
*
4737431 AAAAATAAATAAATTATTAATA
1 AAAAAT-AAT-AATTATAAATA
*
4737453 AAGTAA-AATAATTATAAATA
1 AA-AAATAATAATTATAAATA
4737473 AAAAATAATAA
1 AAAAATAATAA
4737484 AATCATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.08
20 17 0.65
21 3 0.12
22 2 0.08
23 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAATAATAATTATAAATA
Found at i:4739367 original size:24 final size:25
Alignment explanation
Indices: 4739327--4739374 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4739317 TGGATGACTT
*
4739327 AATTTTTTTCCTTAATTCTTCTCTA
1 AATTTTTTTCCTCAATTCTTCTCTA
4739352 AATTTTTTT-CTCAATTCTTCTCT
1 AATTTTTTTCCTCAATTCTTCTCT
4739375 CTTTTGTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (25 bp):
AATTTTTTTCCTCAATTCTTCTCTA
Found at i:4742034 original size:63 final size:61
Alignment explanation
Indices: 4741956--4742079 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 61
4741946 GCCCGGGCTT
*
4741956 CACCCAAAGTCTTGAATTCGTTTCGCTATCCTCATCGAAGTTCCTCGTTTAATTGCTCTTTTC
1 CACCCAAAGTCTTGAATTCGTTTCGCTATCCTCATCAAAGTTCCTCGTTTAATT--TCTTTTC
* *
4742019 CACCCAAAGTCTTGAATTCGTTTTGCTTTCCTCATCAAAGTTCCTCGTTTAATTTCTTTTC
1 CACCCAAAGTCTTGAATTCGTTTCGCTATCCTCATCAAAGTTCCTCGTTTAATTTCTTTTC
4742080 AAAATCCGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 7 0.12
63 51 0.88
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.42
Consensus pattern (61 bp):
CACCCAAAGTCTTGAATTCGTTTCGCTATCCTCATCAAAGTTCCTCGTTTAATTTCTTTTC
Found at i:4749045 original size:22 final size:22
Alignment explanation
Indices: 4749017--4749062 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4749007 ACTAAATGAT
* *
4749017 ATTTTAATATGATAATTTATTA
1 ATTTTAATACGATAATTTACTA
*
4749039 ATTTTAATACGGTAATTTACTA
1 ATTTTAATACGATAATTTACTA
4749061 AT
1 AT
4749063 ATTTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTTAATACGATAATTTACTA
Found at i:4755016 original size:21 final size:21
Alignment explanation
Indices: 4754992--4755035 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4754982 ATTTTTATCA
* *
4754992 TTAATTTTTATATTATCTAAT
1 TTAATTGTTATAGTATCTAAT
*
4755013 TTAATTGTTATAGTATTTAAT
1 TTAATTGTTATAGTATCTAAT
4755034 TT
1 TT
4755036 TATTATTACA
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:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTAATTGTTATAGTATCTAAT
Found at i:4758260 original size:2 final size:2
Alignment explanation
Indices: 4758255--4758282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4758245 TTCCTCCTGT
4758255 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4758283 GAGTTTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4765158 original size:16 final size:15
Alignment explanation
Indices: 4765137--4765166 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
4765127 ATGCAACTCA
4765137 GTTAAATATTTTTTTT
1 GTTAAAT-TTTTTTTT
4765153 GTTAAATTTTTTTT
1 GTTAAATTTTTTTT
4765167 ATTGCAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
GTTAAATTTTTTTTT
Found at i:4766874 original size:30 final size:30
Alignment explanation
Indices: 4766838--4766900 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4766828 CAAAGTGTTG
4766838 AGGGATGCCATTACACACAGGAATGGGTTA
1 AGGGATGCCATTACACACAGGAATGGGTTA
*
4766868 AGGGATGCCATTACACATAGGAATGGGTTA
1 AGGGATGCCATTACACACAGGAATGGGTTA
4766898 AGG
1 AGG
4766901 ATCCCACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (30 bp):
AGGGATGCCATTACACACAGGAATGGGTTA
Found at i:4773189 original size:64 final size:64
Alignment explanation
Indices: 4773066--4773254 Score: 196
Period size: 63 Copynumber: 3.0 Consensus size: 64
4773056 TGAACCTTTA
* * * *
4773066 AAAATGATCATTTAAGGCATTTATCTACAT--AAATGTCTTAAATAATCAATTTATA-TTTTTAA
1 AAAATGATTATTTAAGGCATTT-TCAACATAAAAATGCCTTAAATAATC-TTTTATATTTTTTAA
4773128 T
64 T
* *
4773129 AAAATGATTATTTAAGGCATTTGC-ACATGAAAAATGCCTTGAATAATCTTTTATATTTTTT--T
1 AAAATGATTATTTAAGGCATTTTCAACAT-AAAAATGCCTTAAATAATCTTTTATATTTTTTAAT
* *
4773191 AAAATAAATTATTTAAGGCATTTTTCAACA-AAAAATGCATTAAATAATCTCTTTAT-TTTTTTA
1 AAAAT-GATTATTTAAGGCA-TTTTCAACATAAAAATGCCTTAAATAATCT-TTTATATTTTTTA
4773254 A
63 A
4773255 AGGGTTGAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
61 4 0.04
62 7 0.07
63 64 0.60
64 29 0.27
65 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (64 bp):
AAAATGATTATTTAAGGCATTTTCAACATAAAAATGCCTTAAATAATCTTTTATATTTTTTAAT
Found at i:4773413 original size:139 final size:138
Alignment explanation
Indices: 4773262--4773527 Score: 344
Period size: 137 Copynumber: 1.9 Consensus size: 138
4773252 TAAAGGGTTG
* *
4773262 AAAACTACCTTAAATAATC-CCTTTTATAAAAAATTAAAGGGGGATTATTT-A-GAGCATTTTTA
1 AAAACTACCTTAAATAATCTCCTTTTATAAAAAATGAAA--GGGATTATTTAATGAGC-TTTCTA
** * * * *
4773324 GGTTCAAAAATGTTTTAAATAATCTCTTGATATTTTTTAAAGATG-ATTATTTAAGGCGTTTTTG
63 -ACT-AAAAATGCTTTAAATAATCCCCTGATATTTTTTAAA-ATGAATTATTTAAGGCATTTTTG
4773388 AACCCTTTAAATTA
125 AACCCTTTAAATTA
* * *
4773402 AAAAC-ACCTTAAATAATCTCTTTTTTTAAAAAATGAAAGGGATTATTTAATGTGCTTTCTAACT
1 AAAACTACCTTAAATAATCTCCTTTTATAAAAAATGAAAGGGATTATTTAATGAGCTTTCTAACT
4773466 AAAAATGCTTTAAATAATCCCCTGATATTTTTTAAAATGAATTATTTAAGGCATTTTTGAAC
66 AAAAATGCTTTAAATAATCCCCTGATATTTTTTAAAATGAATTATTTAAGGCATTTTTGAAC
4773528 AAAAATACCT
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
136 3 0.03
137 54 0.49
138 11 0.10
139 19 0.17
140 24 0.22
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (138 bp):
AAAACTACCTTAAATAATCTCCTTTTATAAAAAATGAAAGGGATTATTTAATGAGCTTTCTAACT
AAAAATGCTTTAAATAATCCCCTGATATTTTTTAAAATGAATTATTTAAGGCATTTTTGAACCCT
TTAAATTA
Found at i:4773824 original size:60 final size:59
Alignment explanation
Indices: 4773702--4773836 Score: 182
Period size: 60 Copynumber: 2.3 Consensus size: 59
4773692 AATGAAATAG
* *
4773702 ATTATTTAAGGCTTTTGGTTCAAAAATACCTTAAATAATCTTTTGATATTTAAAAAAAA
1 ATTATTTAAGGTTTTTGGTTCAAAAATACCTTAAATAATCTTTTCATATTTAAAAAAAA
* * ***
4773761 ATTATTTAAGGTATTTTTGTTCAAAAATACCTTAAATAATCTTTTCATACTTT-TAAGGGA
1 ATTATTTAAGGT-TTTTGGTTCAAAAATACCTTAAATAATCTTTTCATA-TTTAAAAAAAA
4773821 ATTATTTAAGGTTTTT
1 ATTATTTAAGGTTTTT
4773837 CCCAATCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 15 0.22
60 49 0.73
61 3 0.04
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (59 bp):
ATTATTTAAGGTTTTTGGTTCAAAAATACCTTAAATAATCTTTTCATATTTAAAAAAAA
Found at i:4781638 original size:29 final size:29
Alignment explanation
Indices: 4781525--4781652 Score: 74
Period size: 29 Copynumber: 4.6 Consensus size: 29
4781515 AATTAATTTT
*
4781525 AATA-AAAT-TAAAAATAATAATGAAATTG
1 AATATAAATATAATAATAATAATGAAA-TG
* * * *
4781553 AA-ATTAAT-T--TTATAATAATAAAATT
1 AATATAAATATAATAATAATAATGAAATG
* * **
4781578 AAAATTAATGATAATAATAATATAT-ATTTG
1 AATATAAAT-ATAATAATAATA-ATGAAATG
4781608 AATATAAATATAATAATAATAATGAAATG
1 AATATAAATATAATAATAATAATGAAATG
*
4781637 AAT-TATAATAAAATAA
1 AATATA-AATATAATAA
4781653 AAAATAATTA
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
25 3 0.04
26 17 0.22
27 1 0.01
28 11 0.14
29 27 0.35
30 16 0.21
31 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (29 bp):
AATATAAATATAATAATAATAATGAAATG
Found at i:4781785 original size:18 final size:18
Alignment explanation
Indices: 4781740--4781787 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4781730 TAAAAAATAA
4781740 AATAAAAAT-ATTTTTAT
1 AATAAAAATAATTTTTAT
*
4781757 GATAAATAATAATTTTGT-T
1 AATAAA-AATAATTTT-TAT
4781776 AATAAAAATAAT
1 AATAAAAATAAT
4781788 AATAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 11 0.42
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
AATAAAAATAATTTTTAT
Found at i:4784878 original size:21 final size:21
Alignment explanation
Indices: 4784846--4784908 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
4784836 AAAAAAAATA
* * *
4784846 ATAATGATAAAATTAATTTTT
1 ATAATAATAAAATTAAATATT
*
4784867 ATACTAATAAAATTAAATATT
1 ATAATAATAAAATTAAATATT
4784888 ATAATAATAAAATTAAA-ATT
1 ATAATAATAAAATTAAATATT
4784908 A
1 A
4784909 ATGATACGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:4786671 original size:60 final size:61
Alignment explanation
Indices: 4786501--4786687 Score: 181
Period size: 60 Copynumber: 3.1 Consensus size: 61
4786491 TTTTTGTAAA
* ** * * *
4786501 AGATTATTTAAGGTATTTTCTGTAAAAAAATACC-TTGAATAAT-CCAAAAAAAATGAAAGG
1 AGATTATTCAAGGTATTTT-TGGCAGAAAACACCTTTGAATAATCCCAAAAAAAATGGAAGG
* *
4786561 AGATTATTGAAGGTATTTTTGGCAGAAAACACCTTT-AATAATCTTC-AAAAAAATGGAAGG
1 AGATTATTCAAGGTATTTTTGGCAGAAAACACCTTTGAATAATC-CCAAAAAAAATGGAAGG
* * * *
4786621 AGATTATTCAAGGTATTTTTTGCTAG-AAAC-GCTTTGAATAGTCCCAAAAAAAATTG-AGG
1 AGATTATTCAAGGTATTTTTGGC-AGAAAACACCTTTGAATAATCCCAAAAAAAATGGAAGG
*
4786680 GGATTATT
1 AGATTATT
4786688 AAAAGTGTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
59 31 0.29
60 73 0.68
61 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (61 bp):
AGATTATTCAAGGTATTTTTGGCAGAAAACACCTTTGAATAATCCCAAAAAAAATGGAAGG
Found at i:4798901 original size:2 final size:2
Alignment explanation
Indices: 4798894--4798925 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4798884 GATGAGCGTG
4798894 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
4798926 CTATTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4805188 original size:21 final size:21
Alignment explanation
Indices: 4805142--4805188 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
4805132 TCTATTTAGA
* *
4805142 TAATTTTTTATAAATATATAT
1 TAATTTTTAATAAAAATATAT
4805163 T--TTTTTAATAAAAATATAT
1 TAATTTTTAATAAAAATATAT
4805182 TAATTTT
1 TAATTTT
4805189 AATTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 17 0.77
21 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTTTAATAAAAATATAT
Found at i:4805228 original size:27 final size:24
Alignment explanation
Indices: 4805166--4805229 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
4805156 TATATATTTT
*
4805166 TTTAATAAAAATATATTAATTTTAA
1 TTTAATAAAAA-ATAATAATTTTAA
**
4805191 -TTAATTTAAAATAATAATTTATATTA
1 TTTAATAAAAAATAATAATTT-TA--A
4805217 TTTAATAAAAAAT
1 TTTAATAAAAAAT
4805230 TATTTACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 9 0.30
24 10 0.33
26 1 0.03
27 10 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAATAAAAAATAATAATTTTAA
Found at i:4809712 original size:2 final size:2
Alignment explanation
Indices: 4809705--4809734 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4809695 CTTTTGTTTT
*
4809705 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4809735 CCCACAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:4809995 original size:12 final size:12
Alignment explanation
Indices: 4809978--4810005 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4809968 CATCAAGAAC
4809978 AACAACAACAAT
1 AACAACAACAAT
4809990 AACAACAACAAT
1 AACAACAACAAT
4810002 AACA
1 AACA
4810006 GCAATAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.25, G:0.00, T:0.07
Consensus pattern (12 bp):
AACAACAACAAT
Found at i:4814080 original size:20 final size:20
Alignment explanation
Indices: 4814051--4814095 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4814041 TTTTTATTTA
*
4814051 TATCAT-TTATATATTATAT
1 TATCATATTATATATTAAAT
*
4814070 TATCATATTATATTTTAAAT
1 TATCATATTATATATTAAAT
4814090 TA-CATA
1 TATCATA
4814096 AGTAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
TATCATATTATATATTAAAT
Found at i:4818472 original size:19 final size:20
Alignment explanation
Indices: 4818435--4818478 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
4818425 TTGAATTTAA
*
4818435 TTATATATATATTTCAATTT
1 TTATATATATATTTAAATTT
*
4818455 TTATGTATA-ATTTAAATTT
1 TTATATATATATTTAAATTT
4818474 TTATA
1 TTATA
4818479 AAATTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATATATATTTAAATTT
Found at i:4818482 original size:11 final size:11
Alignment explanation
Indices: 4818468--4818549 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 11
4818458 TGTATAATTT
*
4818468 AAATTTTTATA
1 AAATTTATATA
* *
4818479 AAATTAAAATA
1 AAATTTATATA
4818490 ATAATTTTATATTA
1 A-AA-TTTATA-TA
4818504 AAATTTATAT-
1 AAATTTATATA
*
4818514 AAATATAT-TA
1 AAATTTATATA
*
4818524 AAATTTTATATT
1 AAA-TTTATATA
**
4818536 AAATAAATATA
1 AAATTTATATA
4818547 AAA
1 AAA
4818550 AAATTAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 1 0.02
10 10 0.19
11 22 0.41
12 12 0.22
13 6 0.11
14 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAATTTATATA
Found at i:4818522 original size:20 final size:22
Alignment explanation
Indices: 4818497--4818549 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
4818487 ATAATAATTT
4818497 TATATTAAAA-TTTATA-TAAA
1 TATATTAAAATTTTATATTAAA
4818517 TATATTAAAATTTTATATTAAA
1 TATATTAAAATTTTATATTAAA
*
4818539 TAAATATAAAA
1 TATAT-TAAAA
4818550 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 6 0.21
22 8 0.28
23 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATTAAAATTTTATATTAAA
Found at i:4818535 original size:13 final size:12
Alignment explanation
Indices: 4818495--4818538 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 12
4818485 AAATAATAAT
4818495 TTTATATTAAAA
1 TTTATATTAAAA
4818507 TTTATA-T-AAA
1 TTTATATTAAAA
4818517 --TATATTAAAA
1 TTTATATTAAAA
4818527 TTTTATATTAAA
1 -TTTATATTAAA
4818539 TAAATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
8 4 0.15
9 1 0.04
10 6 0.22
11 1 0.04
12 6 0.22
13 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATATTAAAA
Found at i:4818556 original size:32 final size:33
Alignment explanation
Indices: 4818484--4818558 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
4818474 TTATAAAATT
**
4818484 AAAA-TAATAATTTTATATTAAAATTTATATAAA
1 AAAATTAA-AATTTTATATTAAAATAAATATAAA
* *
4818517 TATATTAAAATTTTATATT-AAATAAATATAAA
1 AAAATTAAAATTTTATATTAAAATAAATATAAA
4818549 AAAATTAAAA
1 AAAATTAAAA
4818559 AATTAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 19 0.54
33 13 0.37
34 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
AAAATTAAAATTTTATATTAAAATAAATATAAA
Found at i:4818916 original size:65 final size:65
Alignment explanation
Indices: 4818812--4818942 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
4818802 ATCCAGTAAC
*
4818812 CCGAGTTCAAATCTCGGTGGAACCTTTACTTTTTTTCTTTTCATTCTTCCAGACCTTATATTTTG
1 CCGAGTTCAAATCTCGGTGGAACCTCTACTTTTTTTCTTTTCATTCTTCCAGACCTTATATTTTG
*
4818877 CCGAGTTCAAATCTCGGTGGAACCTCTACTTTTTTTCTTTTCATTCTTCTAGACCTTATATTTTG
1 CCGAGTTCAAATCTCGGTGGAACCTCTACTTTTTTTCTTTTCATTCTTCCAGACCTTATATTTTG
4818942 C
1 C
4818943 TTGCATCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.46
Consensus pattern (65 bp):
CCGAGTTCAAATCTCGGTGGAACCTCTACTTTTTTTCTTTTCATTCTTCCAGACCTTATATTTTG
Found at i:4827745 original size:75 final size:75
Alignment explanation
Indices: 4827660--4827807 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 75
4827650 CCCGTGCCAA
* *
4827660 ATATATTTATATATAATTAGTAAATAAAATTTTTA-TTAATATTATAACTTTTTATTTTAAATTA
1 ATATAATTATATATAATTAATAAATAAAATTTTTATTTAATATTATAA-TTTTTATTTTAAATTA
4827724 ATTAGCTTTAT
65 ATTAGCTTTAT
*
4827735 ATATAATTATATATAATTAATAAATAAAATTTTTATTTAATATTATTATTTTTATTTTAAATTAA
1 ATATAATTATATATAATTAATAAATAAAATTTTTATTTAATATTATAATTTTTATTTTAAATTAA
4827800 TTAGCTTT
66 TTAGCTTT
4827808 TAGGGCTACG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 58 0.84
76 11 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (75 bp):
ATATAATTATATATAATTAATAAATAAAATTTTTATTTAATATTATAATTTTTATTTTAAATTAA
TTAGCTTTAT
Found at i:4828336 original size:21 final size:21
Alignment explanation
Indices: 4828312--4828355 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4828302 TTTAGAATTA
4828312 TTAAAAATATCAAAAGTATTG
1 TTAAAAATATCAAAAGTATTG
*
4828333 TTAAAAATATTAAAAGTATTG
1 TTAAAAATATCAAAAGTATTG
4828354 TT
1 TT
4828356 TTGTTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
TTAAAAATATCAAAAGTATTG
Found at i:4830191 original size:22 final size:22
Alignment explanation
Indices: 4830158--4830199 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
4830148 ATGTTATATA
4830158 AGTTTGATAAA-TATTGGGAGAC
1 AGTTTGATAAATTA-TGGGAGAC
4830180 AGTTT-ATGAAATTATGGGAG
1 AGTTTGAT-AAATTATGGGAG
4830200 TGACTACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.11
22 14 0.78
23 2 0.11
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (22 bp):
AGTTTGATAAATTATGGGAGAC
Found at i:4835485 original size:20 final size:21
Alignment explanation
Indices: 4835447--4835491 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
4835437 GAGATTGAAA
4835447 TTAA-TAATAAAATAATATAT
1 TTAATTAATAAAATAATATAT
*
4835467 TTAATTAATAAAAT-TTATAT
1 TTAATTAATAAAATAATATAT
4835487 TTAAT
1 TTAAT
4835492 ATATTATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTAATAAAATAATATAT
Found at i:4835988 original size:21 final size:21
Alignment explanation
Indices: 4835959--4836007 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4835949 AAATATATGA
* *
4835959 AAATGAATTTTATTTTTTTAAT
1 AAAT-AATTTTAGTTGTTTAAT
*
4835981 AAATAATTTTAGTTGTTTACT
1 AAATAATTTTAGTTGTTTAAT
4836002 AAATAA
1 AAATAA
4836008 CCTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (21 bp):
AAATAATTTTAGTTGTTTAAT
Found at i:4836124 original size:18 final size:17
Alignment explanation
Indices: 4836101--4836137 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4836091 ACAATATTTT
4836101 TTATCTTGATTTAAAAAA
1 TTATCTT-ATTTAAAAAA
*
4836119 TTATCTTTTTTAAAAAA
1 TTATCTTATTTAAAAAA
4836136 TT
1 TT
4836138 TATGTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (17 bp):
TTATCTTATTTAAAAAA
Found at i:4836140 original size:18 final size:19
Alignment explanation
Indices: 4836100--4836140 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4836090 AACAATATTT
4836100 TTTATCTTGATTTAAAAAA
1 TTTATCTTGATTTAAAAAA
*
4836119 -TTATCTT-TTTTAAAAAA
1 TTTATCTTGATTTAAAAAA
4836136 TTTAT
1 TTTAT
4836141 GTAAGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATCTTGATTTAAAAAA
Found at i:4836233 original size:25 final size:25
Alignment explanation
Indices: 4836186--4836233 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
4836176 ATTTTAAAAA
*
4836186 TTAAAAAAAAAATTATCTTAAATCT
1 TTAAAAAAAAAATTATCTAAAATCT
*
4836211 TTAAATAATAAAATTATC-AAAAT
1 TTAAA-AAAAAAATTATCTAAAAT
4836234 AATTATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
TTAAAAAAAAAATTATCTAAAATCT
Found at i:4838601 original size:2 final size:2
Alignment explanation
Indices: 4838594--4838621 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4838584 GAAACAATCC
4838594 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4838622 GTTTTTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4838787 original size:103 final size:104
Alignment explanation
Indices: 4838607--4838813 Score: 371
Period size: 103 Copynumber: 2.0 Consensus size: 104
4838597 TCTCTCTCTC
*
4838607 TCTCTCTCTCTCTCTGTTTTTGTGTGTGTATTGTGCATGATTGTTGGATATTCTAGTTAAAGTGT
1 TCTCTCTCTCTCTCTGTTTTTGTGTGTGTATTGTGCATGATTGTTGGATATTATAGTTAAAGTGT
4838672 TAATATATTCTTCATGATTGAACTCGATTGCCAGTTTTA
66 TAATATATTCTTCATGATTGAACTCGATTGCCAGTTTTA
*
4838711 TCTCTCTCTCTCTGTGTTTTT-TGTGTGTATTGTGCATGATTGTTGGATATTATAGTTAAAGTGT
1 TCTCTCTCTCTCTCTGTTTTTGTGTGTGTATTGTGCATGATTGTTGGATATTATAGTTAAAGTGT
* *
4838775 TAATATATTCTTCATGATTGAACTTGATTTCCAGTTTTA
66 TAATATATTCTTCATGATTGAACTCGATTGCCAGTTTTA
4838814 ACATTTGCTT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 79 0.80
104 20 0.20
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (104 bp):
TCTCTCTCTCTCTCTGTTTTTGTGTGTGTATTGTGCATGATTGTTGGATATTATAGTTAAAGTGT
TAATATATTCTTCATGATTGAACTCGATTGCCAGTTTTA
Found at i:4839954 original size:6 final size:6
Alignment explanation
Indices: 4839943--4839973 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4839933 TTTTCTTAAG
4839943 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA C
1 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA C
4839974 TCACAGGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTTCA
Found at i:4841103 original size:21 final size:21
Alignment explanation
Indices: 4841057--4841097 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4841047 ATCATTAATT
4841057 TTAATCTCATTACTATAATAC
1 TTAATCTCATTACTATAATAC
*
4841078 TTAATCTTATTA-TAATAATA
1 TTAATCTCATTACT-ATAATA
4841098 ACTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATCTCATTACTATAATAC
Found at i:4841297 original size:39 final size:38
Alignment explanation
Indices: 4841265--4841337 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
4841255 TTTGTTTCTA
4841265 TTTT-TATTTTATA-TT--TATATTTAA-ATTATTTTG
1 TTTTATATTTTATATTTCATATATTTAATATTATTTTG
4841298 TTTTATATTTTATATTTCATATATTTAATATTATTTTG
1 TTTTATATTTTATATTTCATATATTTAATATTATTTTG
4841336 TT
1 TT
4841338 AAACAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 4 0.11
34 9 0.26
35 2 0.06
37 9 0.26
38 11 0.31
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (38 bp):
TTTTATATTTTATATTTCATATATTTAATATTATTTTG
Found at i:4841310 original size:7 final size:7
Alignment explanation
Indices: 4841263--4841329 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
4841253 TTTTTGTTTC
4841263 TATTTT-
1 TATTTTA
4841269 TATTTTA
1 TATTTTA
4841276 TA-TTTA
1 TATTTTA
4841282 TA-TTTA
1 TATTTTA
* *
4841288 AATTATTT
1 TATT-TTA
*
4841296 TGTTTTA
1 TATTTTA
4841303 TATTTTA
1 TATTTTA
4841310 TATTTCATA
1 TATTT--TA
*
4841319 TATTTAA
1 TATTTTA
4841326 TATT
1 TATT
4841330 ATTTTGTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
6 17 0.35
7 21 0.43
8 4 0.08
9 7 0.14
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (7 bp):
TATTTTA
Found at i:4856257 original size:26 final size:26
Alignment explanation
Indices: 4856228--4856278 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
4856218 TCTCCCCAAG
4856228 ACTTAACATTTAAATAGAAAA-TTCAT
1 ACTTAACATTTAAATA-AAAAGTTCAT
4856254 ACTTAACATTTAAATAAAAAGTTCA
1 ACTTAACATTTAAATAAAAAGTTCA
4856279 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (26 bp):
ACTTAACATTTAAATAAAAAGTTCAT
Found at i:4856894 original size:20 final size:22
Alignment explanation
Indices: 4856852--4856897 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4856842 TTTTTATTTT
4856852 TTATTATTAGATTAAAATTAAAA
1 TTATTATTAGATTAAAA-TAAAA
*
4856875 TTATTATTA-ATTAAGAAAAAAA
1 TTATTATTAGATTAA-AATAAAA
4856897 T
1 T
4856898 AATAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TTATTATTAGATTAAAATAAAA
Found at i:4864462 original size:18 final size:17
Alignment explanation
Indices: 4864441--4864497 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
4864431 AAATTATGAA
4864441 ATATAATAAAATATTATT
1 ATATAATAAAAT-TTATT
*
4864459 ATATAAT-AAATTAATT
1 ATATAATAAAATTTATT
4864475 A-ATAGATAAAATTTATT
1 ATATA-ATAAAATTTATT
4864492 ACTATA
1 A-TATA
4864498 TAACAAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 13 0.39
18 7 0.21
19 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATAATAAAATTTATT
Found at i:4865673 original size:58 final size:58
Alignment explanation
Indices: 4865599--4865730 Score: 255
Period size: 58 Copynumber: 2.3 Consensus size: 58
4865589 TTCATTCTGA
4865599 TAATATTAAAAATAATAATGATGATAAAATTAGATGAGATTGAGTATTGTAATAATAT
1 TAATATTAAAAATAATAATGATGATAAAATTAGATGAGATTGAGTATTGTAATAATAT
*
4865657 TAATATTAAAACTAATAATGATGATAAAATTAGATGAGATTGAGTATTGTAATAATAT
1 TAATATTAAAAATAATAATGATGATAAAATTAGATGAGATTGAGTATTGTAATAATAT
4865715 TAATATTAAAAATAAT
1 TAATATTAAAAATAAT
4865731 GATAAAAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.51, C:0.01, G:0.12, T:0.36
Consensus pattern (58 bp):
TAATATTAAAAATAATAATGATGATAAAATTAGATGAGATTGAGTATTGTAATAATAT
Found at i:4867688 original size:22 final size:22
Alignment explanation
Indices: 4867656--4867699 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4867646 AACAAAAAAA
4867656 AAAAATCGCCATTCTCCCTAAC
1 AAAAATCGCCATTCTCCCTAAC
*
4867678 AAAAATTGCCATTCTCCCTAAC
1 AAAAATCGCCATTCTCCCTAAC
4867700 TGCTGGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAATCGCCATTCTCCCTAAC
Found at i:4868965 original size:2 final size:2
Alignment explanation
Indices: 4868958--4868985 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4868948 GTTGTATTTC
4868958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4868986 AAGGTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4874231 original size:64 final size:64
Alignment explanation
Indices: 4874157--4874278 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
4874147 AGAGTCCACA
* * * * **
4874157 ATAAATATTGAAAGAGGGAAATTAAAGAAATATATAGTAAAAGGGTAGATGGAATCTACGTACC
1 ATAAAAATTGAAAAAAGGAAATTAAAGAAATATACAACAAAAGGGTAGATGGAATCTACGTACC
*
4874221 ATAAAAATTGAAAAAAGGAAATTAAAGAAATATACAACAAAGGGGTAGATGGAATCTA
1 ATAAAAATTGAAAAAAGGAAATTAAAGAAATATACAACAAAAGGGTAGATGGAATCTA
4874279 GGAGCTGACT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.21
Consensus pattern (64 bp):
ATAAAAATTGAAAAAAGGAAATTAAAGAAATATACAACAAAAGGGTAGATGGAATCTACGTACC
Found at i:4875781 original size:12 final size:12
Alignment explanation
Indices: 4875764--4875788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4875754 ATAATATGTA
4875764 AAAAAATTATTT
1 AAAAAATTATTT
4875776 AAAAAATTATTT
1 AAAAAATTATTT
4875788 A
1 A
4875789 TAATTTAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAAATTATTT
Found at i:4876507 original size:18 final size:17
Alignment explanation
Indices: 4876480--4876520 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4876470 CTAAATTATA
*
4876480 TTTTTCTTTTTCAAATT
1 TTTTTCTTTTTAAAATT
4876497 TTTTTCTTTTTTAAAATT
1 TTTTTC-TTTTTAAAATT
*
4876515 TATTTC
1 TTTTTC
4876521 ACTTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTCTTTTTAAAATT
Found at i:4876603 original size:16 final size:18
Alignment explanation
Indices: 4876572--4876604 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4876562 AATGTTCTTG
4876572 TTTTAATAACAAATAAAC
1 TTTTAATAACAAATAAAC
4876590 TTTT-ATAA-AAATAAA
1 TTTTAATAACAAATAAA
4876605 ATAAAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTTAATAACAAATAAAC
Found at i:4876651 original size:17 final size:16
Alignment explanation
Indices: 4876629--4876669 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
4876619 TATAAAATAA
4876629 GATAAAAATACTTTTTT
1 GATAAAAATA-TTTTTT
4876646 GATAAAAAATATTTTTT
1 GAT-AAAAATATTTTTT
4876663 GA-AAAAA
1 GATAAAAA
4876670 CCAATGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (16 bp):
GATAAAAATATTTTTT
Found at i:4878673 original size:9 final size:9
Alignment explanation
Indices: 4878659--4878687 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4878649 TATCAAAGGT
4878659 TAAAATTTA
1 TAAAATTTA
4878668 TAAAATTTA
1 TAAAATTTA
4878677 TAAAATTTA
1 TAAAATTTA
4878686 TA
1 TA
4878688 TGCAGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAAAATTTA
Found at i:4880712 original size:6 final size:6
Alignment explanation
Indices: 4880701--4880771 Score: 54
Period size: 6 Copynumber: 11.2 Consensus size: 6
4880691 GATTCGATTT
* * * *
4880701 TTTAAA TTTAAAA TTTAAT TTTTAA TTTAAG TTTAATA TATAAATA TTTAATA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAA-A T-TTAA-A TTTAA-A
4880754 TTTAAA TTT-AA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
4880772 CAAATAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
5 5 0.09
6 25 0.47
7 17 0.32
8 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:4880762 original size:13 final size:13
Alignment explanation
Indices: 4880701--4880765 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
4880691 GATTCGATTT
*
4880701 TTTAAATTTAAAA
1 TTTAAATTTAATA
* *
4880714 TTTAATTTTTA-A
1 TTTAAATTTAATA
*
4880726 TTTAAGTTTAATA
1 TTTAAATTTAATA
*
4880739 TATAAATATTTAATA
1 T-TTAA-ATTTAATA
4880754 TTTAAATTTAAT
1 TTTAAATTTAAT
4880766 TTAAATCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 10 0.24
13 18 0.43
14 6 0.14
15 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
TTTAAATTTAATA
Found at i:4880789 original size:39 final size:41
Alignment explanation
Indices: 4880705--4880792 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
4880695 CGATTTTTTA
* * ** *
4880705 AATTTAAAATTTAATTTTTAATTTAAGTTTAATATATAAAT
1 AATTTAAAATTTAATATTTAATTTAAATCAAATATAAAAAT
*
4880746 -ATTTAATATTTAA-ATTTAATTTAAATCAAATA-AAAAAT
1 AATTTAAAATTTAATATTTAATTTAAATCAAATATAAAAAT
4880784 AATTTAAAA
1 AATTTAAAA
4880793 ATAATTAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
38 5 0.13
39 22 0.56
40 12 0.31
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
AATTTAAAATTTAATATTTAATTTAAATCAAATATAAAAAT
Found at i:4881044 original size:2 final size:2
Alignment explanation
Indices: 4881027--4881065 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4881017 GATATCAAAT
*
4881027 TA TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4881066 CACTAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4882609 original size:12 final size:12
Alignment explanation
Indices: 4882588--4882622 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4882578 GTATAAATTA
4882588 ATTGAGTTAAGT
1 ATTGAGTTAAGT
*
4882600 ATTGAATTAAGT
1 ATTGAGTTAAGT
4882612 ATTGAGTTAAG
1 ATTGAGTTAAG
4882623 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (12 bp):
ATTGAGTTAAGT
Found at i:4883088 original size:24 final size:25
Alignment explanation
Indices: 4883051--4883101 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
4883041 CCTAGCTCAC
4883051 ATAATATAAATATAAT-TAAATTATT
1 ATAATATAAATAT-ATGTAAATTATT
* *
4883076 ATAAT-TATATATATGTAAATTTTT
1 ATAATATAAATATATGTAAATTATT
4883100 AT
1 AT
4883102 TTTAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 2 0.09
24 16 0.70
25 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATAATATAAATATATGTAAATTATT
Found at i:4884316 original size:7 final size:7
Alignment explanation
Indices: 4884295--4884347 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
4884285 TATAAAAAAA
4884295 TTTAATT
1 TTTAATT
* *
4884302 TATCATT
1 TTTAATT
4884309 TTTAATT
1 TTTAATT
4884316 TTTAA-T
1 TTTAATT
4884322 TTTAA-T
1 TTTAATT
4884328 TTTAATT
1 TTTAATT
*
4884335 TAATAATT
1 T-TTAATT
4884343 TTTAA
1 TTTAA
4884348 CAATAAACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 12 0.32
7 20 0.53
8 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTAATT
Found at i:4885503 original size:3 final size:3
Alignment explanation
Indices: 4885495--4885535 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4885485 CATTGTAATT
4885495 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4885536 TTGGTTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4887794 original size:12 final size:12
Alignment explanation
Indices: 4887777--4887802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4887767 TGGCCTTTTC
4887777 TGTAATAATTGT
1 TGTAATAATTGT
4887789 TGTAATAATTGT
1 TGTAATAATTGT
4887801 TG
1 TG
4887803 AGCATAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (12 bp):
TGTAATAATTGT
Found at i:4891191 original size:18 final size:19
Alignment explanation
Indices: 4891150--4891191 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
4891140 AAACTCACCA
* *
4891150 GAAAATTCAATCGACATCT
1 GAAAATTCAATCGAAAACT
*
4891169 AAAAATTC-ATCGAAAACT
1 GAAAATTCAATCGAAAACT
4891187 GAAAA
1 GAAAA
4891192 ATTTCTAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (19 bp):
GAAAATTCAATCGAAAACT
Found at i:4891191 original size:19 final size:19
Alignment explanation
Indices: 4891151--4891194 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4891141 AACTCACCAG
* *
4891151 AAAATTCAATCGACATCTA
1 AAAATTCAATCGAAAACTA
4891170 AAAATTC-ATCGAAAACTGA
1 AAAATTCAATCGAAAACT-A
4891189 AAAATT
1 AAAATT
4891195 TCTAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAATTCAATCGAAAACTA
Found at i:4891664 original size:4 final size:4
Alignment explanation
Indices: 4891655--4891696 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
4891645 ATAAACCCAA
* *
4891655 AAAT AAAT AAGT AAAT AGAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4891697 ACGTACAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Done.