Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 83 of 84
Found at i:17866375 original size:12 final size:12
Alignment explanation
Indices: 17866307--17866371 Score: 94
Period size: 12 Copynumber: 5.4 Consensus size: 12
17866297 ATCCCTCCTA
17866307 TCTCTGTCTCTG
1 TCTCTGTCTCTG
*
17866319 TCTCTGCCTCTG
1 TCTCTGTCTCTG
17866331 TCTCTGTCTCTG
1 TCTCTGTCTCTG
17866343 TCTCTGTCTCTG
1 TCTCTGTCTCTG
* * *
17866355 TATCTATCTCGG
1 TCTCTGTCTCTG
17866367 TCTCT
1 TCTCT
17866372 ATCTTCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.03, C:0.34, G:0.15, T:0.48
Consensus pattern (12 bp):
TCTCTGTCTCTG
Found at i:17867925 original size:1 final size:1
Alignment explanation
Indices: 17867919--17867950 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
17867909 CCCTAATAAT
17867919 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17867951 CCAAAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17873648 original size:15 final size:16
Alignment explanation
Indices: 17873618--17873650 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17873608 AATTGTTGGT
*
17873618 ATAATTTTTATGAAAA
1 ATAATTTTAATGAAAA
17873634 ATAATTTTAAT-AAAA
1 ATAATTTTAATGAAAA
17873649 AT
1 AT
17873651 TACATTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAATTTTAATGAAAA
Found at i:17873739 original size:15 final size:15
Alignment explanation
Indices: 17873716--17873745 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17873706 GTAATAAGTT
17873716 TATTAATATAATTAA
1 TATTAATATAATTAA
*
17873731 TATTTATATAATTAA
1 TATTAATATAATTAA
17873746 ATATAATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATATAATTAA
Found at i:17882930 original size:3 final size:3
Alignment explanation
Indices: 17882922--17882948 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17882912 CTTAAGTTAG
17882922 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
17882949 CAAATTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17887291 original size:14 final size:14
Alignment explanation
Indices: 17887272--17887298 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17887262 TTTGATGGAC
17887272 AAGAAGAATTACAG
1 AAGAAGAATTACAG
17887286 AAGAAGAATTACA
1 AAGAAGAATTACA
17887299 AAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AAGAAGAATTACAG
Found at i:17887382 original size:51 final size:51
Alignment explanation
Indices: 17887294--17887392 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
17887284 AGAAGAAGAA
* *
17887294 TTACAAAAAAAAATTCTAAAAGGAAATAAATTCTTAATATGCAAGTTTGAC
1 TTACAAAAAAAAATTCTAAAAGGAAAGAAATTCTTAATATACAAGTTTGAC
* * * ** *
17887345 TTACAAAAAAAAATTTTAAAAGTAGAGGGATTTTTAATATACAAGTTT
1 TTACAAAAAAAAATTCTAAAAGGAAAGAAATTCTTAATATACAAGTTT
17887393 ATATAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.32
Consensus pattern (51 bp):
TTACAAAAAAAAATTCTAAAAGGAAAGAAATTCTTAATATACAAGTTTGAC
Found at i:17890182 original size:21 final size:22
Alignment explanation
Indices: 17890158--17890198 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17890148 TTGAATTCTT
*
17890158 ATTTTAAATTATTA-AAATTTA
1 ATTTTAAATAATTATAAATTTA
*
17890179 ATTTTCAATAATTATAAATT
1 ATTTTAAATAATTATAAATT
17890199 CAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTAAATAATTATAAATTTA
Found at i:17892093 original size:18 final size:20
Alignment explanation
Indices: 17892057--17892140 Score: 68
Period size: 19 Copynumber: 4.3 Consensus size: 20
17892047 TACTTTTAAC
17892057 AATATTTTATATAAAAAAAT
1 AATATTTTATATAAAAAAAT
17892077 AATA-TTTA-ATAATAAAAAT
1 AATATTTTATATAA-AAAAAT
* * * *
17892096 CATATTTTTTACATAAAAA-
1 AATATTTTATATAAAAAAAT
* *
17892115 CATATTTT-TTTAAAAAAAT
1 AATATTTTATATAAAAAAAT
*
17892134 TATATTT
1 AATATTT
17892141 GTGATAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 11 0.21
19 27 0.52
20 12 0.23
21 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTTATATAAAAAAAT
Found at i:17892093 original size:19 final size:19
Alignment explanation
Indices: 17892057--17892151 Score: 61
Period size: 19 Copynumber: 4.9 Consensus size: 19
17892047 TACTTTTAAC
17892057 AATATTTTATATAAAAAAAT
1 AATA-TTTATATAAAAAAAT
17892077 AATATTTA-ATAATAAAAAT
1 AATATTTATATAA-AAAAAT
* *
17892096 CATATTT-TTTACATAAAAA-
1 AATATTTATATA-A-AAAAAT
* * *
17892115 CATATTTTTTTAAAAAAAT
1 AATATTTATATAAAAAAAT
* *
17892134 TATATTTGTGATAAAAAA
1 AATATTTAT-ATAAAAAA
17892152 TAACCTTTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.14
19 33 0.52
20 22 0.34
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (19 bp):
AATATTTATATAAAAAAAT
Found at i:17892689 original size:28 final size:25
Alignment explanation
Indices: 17892630--17892691 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 25
17892620 TAAACACTTC
*
17892630 TTTTATATAAAAAATAATTTTTGAT
1 TTTTATATAAAAAATAATCTTTGAT
17892655 TTATTATATATTAAAAATGTAATCTTTGA-
1 TT-TTATATA--AAAAA--TAATCTTTGAT
17892684 TTTTATAT
1 TTTTATAT
17892692 GTTTTAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.06
26 7 0.23
28 11 0.35
29 2 0.06
30 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (25 bp):
TTTTATATAAAAAATAATCTTTGAT
Found at i:17892734 original size:55 final size:55
Alignment explanation
Indices: 17892667--17892794 Score: 238
Period size: 55 Copynumber: 2.3 Consensus size: 55
17892657 ATTATATATT
17892667 AAAAATGTAATCTTTGATTTTATATGTTTTAATCAAAGATTATGTTTATACTTAC
1 AAAAATGTAATCTTTGATTTTATATGTTTTAATCAAAGATTATGTTTATACTTAC
*
17892722 AAAAATGTAATCTTTGATTTTATATGTTTTAATCAAAGATTATGTTTATACTTAT
1 AAAAATGTAATCTTTGATTTTATATGTTTTAATCAAAGATTATGTTTATACTTAC
*
17892777 AAAAATATAATCTTTGAT
1 AAAAATGTAATCTTTGAT
17892795 ACTATTGCGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (55 bp):
AAAAATGTAATCTTTGATTTTATATGTTTTAATCAAAGATTATGTTTATACTTAC
Found at i:17892842 original size:13 final size:13
Alignment explanation
Indices: 17892824--17892848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17892814 AAAAATTATA
17892824 ATAAAATAATTTT
1 ATAAAATAATTTT
17892837 ATAAAATAATTT
1 ATAAAATAATTT
17892849 AAAATTTTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATAATTTT
Found at i:17892874 original size:13 final size:13
Alignment explanation
Indices: 17892856--17892882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17892846 TTTAAAATTT
17892856 TAAAAATTAAATA
1 TAAAAATTAAATA
17892869 TAAAAATTAAATA
1 TAAAAATTAAATA
17892882 T
1 T
17892883 TTTTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:17893651 original size:22 final size:22
Alignment explanation
Indices: 17893608--17893653 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17893598 AAAAAATTTT
*
17893608 AATTTTAATATATTTAACATTA
1 AATTTTAATATATTTAAAATTA
*
17893630 AATTTTAAT-TTTTATAAAATTA
1 AATTTTAATATATT-TAAAATTA
17893652 AA
1 AA
17893654 GATTCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTTAATATATTTAAAATTA
Found at i:17896745 original size:23 final size:24
Alignment explanation
Indices: 17896697--17896752 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
17896687 GTTAATTTTC
* * *
17896697 TTTTACTTTTTTTAAAATCTAGA-
1 TTTTAATTTTTTAAAAATCAAGAT
*
17896720 TTTTAATTTTTTAAAAATCAATAT
1 TTTTAATTTTTTAAAAATCAAGAT
17896744 TTTTAATTT
1 TTTTAATTT
17896753 AATTTTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAATTTTTTAAAAATCAAGAT
Found at i:17896809 original size:39 final size:37
Alignment explanation
Indices: 17896719--17896820 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 37
17896709 TAAAATCTAG
* **
17896719 ATTTTAATTTTTTAAAAATCAATATTTTTAATTTAATT
1 ATTTTAATTTTTTAAAAATTAA-ATTAATAATTTAATT
* * *
17896757 TTTTTCATATTTTTAAAATATTAAATTAAATATTTTAATT
1 ATTTTAAT-TTTTTAAAA-ATTAAATT-AATAATTTAATT
17896797 ATTTTAATTTTTTAAAAAATTAAA
1 ATTTTAATTTTTT-AAAAATTAAA
17896821 ATATTTTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
38 6 0.12
39 23 0.44
40 23 0.44
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (37 bp):
ATTTTAATTTTTTAAAAATTAAATTAATAATTTAATT
Found at i:17896906 original size:24 final size:24
Alignment explanation
Indices: 17896856--17896906 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17896846 TAAAAATTTG
* * *
17896856 AAATATTATTTTTTAAAAAGAATT
1 AAATATTAATTTTTAAAAACAAGT
*
17896880 AAATTTTAATTTTTAAAAACAAGT
1 AAATATTAATTTTTAAAAACAAGT
17896904 AAA
1 AAA
17896907 AAATATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATTAATTTTTAAAAACAAGT
Found at i:17898685 original size:4 final size:4
Alignment explanation
Indices: 17898666--17898702 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
17898656 AATACTTTAA
* *
17898666 AAAT AAAC AAAC AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
17898703 CCCAAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:17899342 original size:23 final size:22
Alignment explanation
Indices: 17899289--17899347 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
17899279 TAATCGATTA
*
17899289 AAAAATAAATAAATAAAATCCAAA-
1 AAAAATAAATAAGT-AAAT--AAAT
17899313 AAAAATAAATAAGTAAATAAAT
1 AAAAATAAATAAGTAAATAAAT
*
17899335 AAACAATACATAA
1 AAA-AATAAATAA
17899348 AACATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.10
22 3 0.10
23 12 0.39
24 13 0.42
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAATAAATAAGTAAATAAAT
Found at i:17899655 original size:44 final size:43
Alignment explanation
Indices: 17899605--17899893 Score: 226
Period size: 43 Copynumber: 6.6 Consensus size: 43
17899595 GTAGAGATTC
17899605 ACAACTTTTGAAAAATAAATAAGGCTCCTCTAAT-AAGAAGCTCA
1 ACAAC-TTTGAAAAATAAATAAGGCTCCTCTAATCAA-AAGCTCA
* * * * * *
17899649 ATAACTTTAGAAAAATAAATAAGGTTTCTTTAATCAAAGGCTTA
1 ACAACTTT-GAAAAATAAATAAGGCTCCTCTAATCAAAAGCTCA
* * * *
17899693 ACGAC-TTGAAAAAATAAATAAAGCTCCTCTAAGCAGAAGCTCA
1 ACAACTTTG-AAAAATAAATAAGGCTCCTCTAATCAAAAGCTCA
* * * *
17899736 ACGACTTTGAAAAATAAATAAAGCTTCTCTAATCAAAGGCTCA
1 ACAACTTTGAAAAATAAATAAGGCTCCTCTAATCAAAAGCTCA
* * ** * *
17899779 ACAACTTT-AAAAATAAATAAGGTTCCCCCCAGC-AGAGACTCA
1 ACAACTTTGAAAAATAAATAAGGCTCCTCTAATCAAAAG-CTCA
* * ** * * *
17899821 ACGACTTTAGAGAAAATAAATAAGACTTTTTTAAACAAAAACTCA
1 ACAACTTT-GA-AAAATAAATAAGGCTCCTCTAATCAAAAGCTCA
*
17899866 ACGACTTTAGAAAAATAAATAAGGCTCC
1 ACAACTTT-GAAAAATAAATAAGGCTCC
17899894 AAAGCTTTGT
Statistics
Matches: 191, Mismatches: 45, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.01
42 30 0.16
43 73 0.38
44 52 0.27
45 32 0.17
46 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.25
Consensus pattern (43 bp):
ACAACTTTGAAAAATAAATAAGGCTCCTCTAATCAAAAGCTCA
Found at i:17899706 original size:87 final size:86
Alignment explanation
Indices: 17899615--17899893 Score: 312
Period size: 87 Copynumber: 3.2 Consensus size: 86
17899605 ACAACTTTTG
** **
17899615 AAAAATAAATAAGGCTCCTCTAATAAGAAGCTCAATAACTTTAGAAAAATAAATAAGGTTTCTTT
1 AAAAATAAATAAGGCTCCTCTAAGCAGAAGCTCAACGACTTTAGAAAAATAAATAAGGTTTCTTT
*
17899680 AATCAAAGGCTTAACGACTTGA
66 AATCAAAGGCTCAACGACTT-A
* * * *
17899702 AAAAATAAATAAAGCTCCTCTAAGCAGAAGCTCAACGACTTT-GAAAAATAAATAAAGCTTCTCT
1 AAAAATAAATAAGGCTCCTCTAAGCAGAAGCTCAACGACTTTAGAAAAATAAATAAGGTTTCTTT
* *
17899766 AATCAAAGGCTCAACAACTTT
66 AATCAAAGGCTCAACGACTTA
* * ** *
17899787 AAAAATAAATAAGGTTCCCCCCAGCAG-AGACTCAACGACTTTAGAGAAAATAAATAAGACTTT-
1 AAAAATAAATAAGGCTCCTCTAAGCAGAAG-CTCAACGACTTTAGA-AAAATAAATAAG-GTTTC
* **
17899850 TTTAAACAAAAACTCAACGACTTTA
63 TTTAATCAAAGGCTCAACGAC-TTA
17899875 GAAAAATAAATAAGGCTCC
1 -AAAAATAAATAAGGCTCC
17899894 AAAGCTTTGT
Statistics
Matches: 160, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.01
85 34 0.21
86 39 0.24
87 64 0.40
88 4 0.03
89 17 0.11
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (86 bp):
AAAAATAAATAAGGCTCCTCTAAGCAGAAGCTCAACGACTTTAGAAAAATAAATAAGGTTTCTTT
AATCAAAGGCTCAACGACTTA
Found at i:17899837 original size:130 final size:129
Alignment explanation
Indices: 17899611--17899893 Score: 302
Period size: 130 Copynumber: 2.2 Consensus size: 129
17899601 ATTCACAACT
* * *
17899611 TTTGAAAAATAAATAAGGCTCCTCTAATAAGAAGCTCAATAACTTTAGAAAAATAAATAAGGTTT
1 TTTGAAAAATAAATAAAGCTCCTCTAATAAGAAGCTCAACAACTTTA-AAAAATAAATAAGGTTC
*** * * * * * *
17899676 CTTTAATCAAAGGCTTAACGACTTGAAAAAATAAATAA-AGCTCCTCTAAGCAGAAGCTCAACGA
65 CCCCAAGCAAAGACTCAACGACTTGAAAAAATAAATAAGA-CTCCTCTAAACAAAAACTCAACGA
17899740 C
129 C
* *
17899741 TTTGAAAAATAAATAAAGCTTCTCTAATCAA-AGGCTCAACAACTTT-AAAAATAAATAAGGTTC
1 TTTGAAAAATAAATAAAGCTCCTCTAAT-AAGAAGCTCAACAACTTTAAAAAATAAATAAGGTTC
* * * ** *
17899804 CCCCCAGCAGAGACTCAACGACTTTAGAGAAAATAAATAAGACTTTTTTAAACAAAAACTCAACG
65 CCCCAAGCAAAGACTCAACGAC-TT-GAAAAAATAAATAAGACTCCTCTAAACAAAAACTCAACG
17899869 AC
128 AC
*
17899871 TTTAGAAAAATAAATAAGGCTCC
1 TTT-GAAAAATAAATAAAGCTCC
17899894 AAAGCTTTGT
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
128 30 0.24
129 2 0.02
130 74 0.59
131 20 0.16
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (129 bp):
TTTGAAAAATAAATAAAGCTCCTCTAATAAGAAGCTCAACAACTTTAAAAAATAAATAAGGTTCC
CCCAAGCAAAGACTCAACGACTTGAAAAAATAAATAAGACTCCTCTAAACAAAAACTCAACGAC
Found at i:17900435 original size:18 final size:18
Alignment explanation
Indices: 17900412--17900463 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
17900402 AAATATTAAA
*
17900412 TTTAATATTTTTAAATAT
1 TTTAATATTTTTAAAAAT
*
17900430 TTTAATTTTTTTAAAAAT
1 TTTAATATTTTTAAAAAT
**
17900448 TAAAATATTTTTAAAA
1 TTTAATATTTTTAAAA
17900464 TATGAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATATTTTTAAAAAT
Found at i:17900451 original size:40 final size:38
Alignment explanation
Indices: 17900349--17900451 Score: 100
Period size: 41 Copynumber: 2.6 Consensus size: 38
17900339 TAAAATTTAG
* * *
17900349 ATTTTAA-TTTTTTAAAAATCAATATTTTTAATTTAATT
1 ATTTTAATTTTTTTAAAAATTAA-ATTTATAATTTAAAT
* * * *
17900387 TTTTTCATATTTTTAAAATATTAAATTTAATATTTTTAAAT
1 ATTTTAATTTTTTTAAAA-ATTAAATTT-ATA-ATTTAAAT
17900428 ATTTTAATTTTTTTAAAAATTAAA
1 ATTTTAATTTTTTTAAAAATTAAA
17900452 ATATTTTTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
38 5 0.10
39 13 0.25
40 12 0.24
41 21 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (38 bp):
ATTTTAATTTTTTTAAAAATTAAATTTATAATTTAAAT
Found at i:17910999 original size:84 final size:84
Alignment explanation
Indices: 17910601--17911023 Score: 459
Period size: 84 Copynumber: 5.1 Consensus size: 84
17910591 ATGCAACTTC
* * * *
17910601 TCTTCAACAG-TTCTCTTCTTAGATGCTTCTGCAATCTTCCTTTGCTCCTCTACTTTAGCCATCT
1 TCTTCAACAGCCT-TCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATCT
*
17910665 CCTCAAT-AGCACGTTTTC-T
65 CC-AAATCAGCACGTTTTCTT
* *
17910684 GCATTCAACAG-C--CTTCTTAGTTTCTTCTGCAA-CATTCCTTCGCTCCTCTGCTTTAGCCATC
1 TC-TTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATC-TTCCTTTGCTCCTCTGCTTTAGCCATC
* * *
17910745 TCAAAATCGGCAAGTTTTCTT
64 TCCAAATCAGCACGTTTTCTT
* * * *
17910766 ACTTCAACAGCCTTCTT-TATAGTTTCTTCTGAAATCTTCCTTTGATCCTCTGCTTCAGCCATCT
1 TCTTCAACAGCCTTCTTCT-TAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATCT
**
17910830 TTAAATCAGCACGTTTT-TGT
65 CCAAATCAGCACGTTTTCT-T
* * *
17910850 TCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTCTGATCCTCAGCTTTAGCCATCTC
1 TCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATCTC
*
17910915 CATATCAGCACGTTTTCTT
66 CAAATCAGCACGTTTTCTT
* * * ** *
17910934 TCTTCAACAGCATTCTTCTTAGTTTCCTGTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTC
1 TCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATCTC
* ** *
17910999 CACATTGGCACATTTTCTT
66 CAAATCAGCACGTTTTCTT
17911018 TCTTCA
1 TCTTCA
17911024 CCTGCCAGCT
Statistics
Matches: 290, Mismatches: 38, Indels: 23
0.83 0.11 0.07
Matches are distributed among these distances:
80 4 0.01
81 62 0.21
82 3 0.01
83 3 0.01
84 215 0.74
85 3 0.01
ACGTcount: A:0.18, C:0.30, G:0.10, T:0.41
Consensus pattern (84 bp):
TCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATCTC
CAAATCAGCACGTTTTCTT
Found at i:17911386 original size:294 final size:294
Alignment explanation
Indices: 17910935--17911541 Score: 1133
Period size: 294 Copynumber: 2.1 Consensus size: 294
17910925 CGTTTTCTTT
* * *
17910935 CTTCAACAGCATTCTTCTTAGTTTCCTGTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTCC
1 CTTCAGCAGCTTTCTTCTTAGTTTCCTCTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTCC
* *
17911000 ACATTGGCACATTTTCTTTCTTCACCTGCCAGCTTTTTTTCTTCTTGTAGCTGCTTAGTTGCCTC
66 AAATTGGCACATTTTCTTTCATCACCTGCCAGCTTTTTTTCTTCTTGTAGCTGCTTAGTTGCCTC
*
17911065 ATCAAACTTTAACTTCTGAGTAACCAACTTGGATTTTACTTCGCTAACTTCTTTTCTTAATGCCT
131 ATCAAACTTTAACTTCTCAGTAACCAACTTGGATTTTACTTCGCTAACTTCTTTTCTTAATGCCT
*
17911130 CCAATTGTGTTCTGTACTCCTCAGCCTTCTTTCGTTCAATATCAACAAGCCTCTGTTCTTCACCA
196 CCAATTGTGTTCTATACTCCTCAGCCTTCTTTCGTTCAATATCAACAAGCCTCTGTTCTTCACCA
17911195 GCCTTACCCTTCTCAGTTTCTGCATGTTTTGATA
261 GCCTTACCCTTCTCAGTTTCTGCATGTTTTGATA
17911229 CTTCAGCAGCTTTCTTCTTAGTTTCCTCTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTCC
1 CTTCAGCAGCTTTCTTCTTAGTTTCCTCTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTCC
**
17911294 AAATTGGCATGTTTTCTTTCATCACCTGCCAGCTTTTTTTCTTCTTGTAGCTGCTTAGTTGCCTC
66 AAATTGGCACATTTTCTTTCATCACCTGCCAGCTTTTTTTCTTCTTGTAGCTGCTTAGTTGCCTC
17911359 ATCAAACTTTAACTTCTCAGTAACCAACTTGGATTTTACTTCGCTAACTTCTTTTCTTAATGCCT
131 ATCAAACTTTAACTTCTCAGTAACCAACTTGGATTTTACTTCGCTAACTTCTTTTCTTAATGCCT
17911424 CCAATTGTGTTCTATACTCCTCAGCCTTCTTTCGTTCAATATCAACAAGCCTCTGTTCTTCACCA
196 CCAATTGTGTTCTATACTCCTCAGCCTTCTTTCGTTCAATATCAACAAGCCTCTGTTCTTCACCA
17911489 GCCTTACCCTTCTCAGTTTCTGCATGTTTTGATA
261 GCCTTACCCTTCTCAGTTTCTGCATGTTTTGATA
17911523 CTTCAGCAGCTTTCTTCTT
1 CTTCAGCAGCTTTCTTCTT
17911542 TTCCAAATCT
Statistics
Matches: 304, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
294 304 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (294 bp):
CTTCAGCAGCTTTCTTCTTAGTTTCCTCTGCAATCTTCCACTGCTCCTTTGCTTTAGCCATCTCC
AAATTGGCACATTTTCTTTCATCACCTGCCAGCTTTTTTTCTTCTTGTAGCTGCTTAGTTGCCTC
ATCAAACTTTAACTTCTCAGTAACCAACTTGGATTTTACTTCGCTAACTTCTTTTCTTAATGCCT
CCAATTGTGTTCTATACTCCTCAGCCTTCTTTCGTTCAATATCAACAAGCCTCTGTTCTTCACCA
GCCTTACCCTTCTCAGTTTCTGCATGTTTTGATA
Found at i:17913272 original size:27 final size:27
Alignment explanation
Indices: 17913210--17913263 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17913200 TATTTTATTA
* **
17913210 AAATCATATTTTATATTTTAATAGTTAG
1 AAATAATA-TTTATATTTTAATAAATAG
17913238 AAATAATATTTATATTTTAATAAATA
1 AAATAATATTTATATTTTAATAAATA
17913264 TAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:17913324 original size:21 final size:21
Alignment explanation
Indices: 17913298--17913341 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
17913288 TTATTATTTA
*
17913298 TATTTATTAAAATATAATTAT
1 TATTTATTAAAATATAATAAT
*
17913319 TATTTATTAATATATAATAAT
1 TATTTATTAAAATATAATAAT
17913340 TA
1 TA
17913342 ATCTTTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTATTAAAATATAATAAT
Found at i:17913505 original size:28 final size:28
Alignment explanation
Indices: 17913469--17913535 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
17913459 ATGTAGATTT
17913469 TTTTATTAATTTTAATATATACATTTTC
1 TTTTATTAATTTTAATATATACATTTTC
17913497 TTTTATTAATTTTAATATATACATTTTC
1 TTTTATTAATTTTAATATATACATTTTC
17913525 TTTTATTAATT
1 TTTTATTAATT
17913536 ATTTTTTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATTAATTTTAATATATACATTTTC
Found at i:17913508 original size:14 final size:14
Alignment explanation
Indices: 17913469--17913544 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
17913459 ATGTAGATTT
17913469 TTTTATTAATTTTA
1 TTTTATTAATTTTA
* * *
17913483 ATATA-TACATTTTC
1 TTTTATTA-ATTTTA
17913497 TTTTATTAATTTTA
1 TTTTATTAATTTTA
* * *
17913511 ATATA-TACATTTTC
1 TTTTATTA-ATTTTA
17913525 TTTTATTAATTATT-
1 TTTTATTAATT-TTA
17913539 TTTTAT
1 TTTTAT
17913545 CATGGTTAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
13 4 0.09
14 36 0.78
15 6 0.13
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTAATTTTA
Found at i:17913588 original size:18 final size:17
Alignment explanation
Indices: 17913565--17913614 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
17913555 TAATTAATCA
17913565 TTTTTATTAATATTTATT
1 TTTTTATTAAT-TTTATT
17913583 TTTTTATTAATTTTA-T
1 TTTTTATTAATTTTATT
* *
17913599 ATATTATTAATTTTAT
1 TTTTTATTAATTTTAT
17913615 AATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.48
17 4 0.14
18 11 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATTAATTTTATT
Found at i:17913624 original size:28 final size:27
Alignment explanation
Indices: 17913559--17913625 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
17913549 GTTAAATAAT
* * *
17913559 TAATCATTTTTATTAATATTTATTTTT
1 TAATTATTTTTATTAATATTAATTTTA
* * *
17913586 TTATTAATTTTATATATTATTAATTTTA
1 TAATTATTTTTAT-TAATATTAATTTTA
17913614 TAATTATTTTTA
1 TAATTATTTTTA
17913626 ATTATGATAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
TAATTATTTTTATTAATATTAATTTTA
Found at i:17913628 original size:18 final size:16
Alignment explanation
Indices: 17913586--17913621 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
17913576 ATTTATTTTT
17913586 TTATTAATTTTATATA
1 TTATTAATTTTATATA
17913602 TTATTAATTTTATA-A
1 TTATTAATTTTATATA
17913617 TTATT
1 TTATT
17913622 TTTAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:17914455 original size:106 final size:106
Alignment explanation
Indices: 17914266--17914587 Score: 540
Period size: 106 Copynumber: 3.0 Consensus size: 106
17914256 TGTCATGTTA
*
17914266 TTTA-TTACTTGTCACATGGCATTTATCACGTAACACTTGAGATATAGCATTACAAATTTTAAAA
1 TTTATTTACTTGTCACATGGCATTTATCACGTAATACTTGAGATATAGCATTACAAATTTTAAAA
*
17914330 AGAAATGGATATTAAAAAATTATTTAATTTTGTAGAAAAAT
66 AGAAATGGATATTAAAAAATTATTTAATTTTGTAGATAAAT
**
17914371 TTTATTTACTTGTCACATGATATTTATCACGTAATACTTGAGATATAGCATTACAAATTTTAAAA
1 TTTATTTACTTGTCACATGGCATTTATCACGTAATACTTGAGATATAGCATTACAAATTTTAAAA
17914436 AGAAATGGATATTAAAAAATTATTTAATTTTGTA-AGTAAAT
66 AGAAATGGATATTAAAAAATTATTTAATTTTGTAGA-TAAAT
* * * *
17914477 TTTATTTATTTGTCATATGGCATTTATCACGTAATACTCGAGATATAGCATTACAAAATTTAAAA
1 TTTATTTACTTGTCACATGGCATTTATCACGTAATACTTGAGATATAGCATTACAAATTTTAAAA
*
17914542 AGAAATGGATATTAAAAAATTATTTAATTTTGTAGGTAAAT
66 AGAAATGGATATTAAAAAATTATTTAATTTTGTAGATAAAT
17914583 TTTAT
1 TTTAT
17914588 CTAAATTTTT
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
105 5 0.02
106 198 0.98
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (106 bp):
TTTATTTACTTGTCACATGGCATTTATCACGTAATACTTGAGATATAGCATTACAAATTTTAAAA
AGAAATGGATATTAAAAAATTATTTAATTTTGTAGATAAAT
Found at i:17924924 original size:16 final size:15
Alignment explanation
Indices: 17924896--17924926 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
17924886 TAATACAATA
17924896 ATATAAAATATATGT
1 ATATAAAATATATGT
17924911 ATATAAATATATATGT
1 ATATAAA-ATATATGT
17924927 GTACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAAATATATGT
Found at i:17926744 original size:11 final size:11
Alignment explanation
Indices: 17926728--17926752 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17926718 AAATACCATG
17926728 ATACCATTATT
1 ATACCATTATT
17926739 ATACCATTATT
1 ATACCATTATT
17926750 ATA
1 ATA
17926753 TTTTATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
ATACCATTATT
Found at i:17927452 original size:31 final size:31
Alignment explanation
Indices: 17927417--17927477 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
17927407 CATATTAGAT
* *
17927417 GTAGATATTCAAAATACTTGGTATTAACAAA
1 GTAGATAATCAAAATACTTGGCATTAACAAA
*
17927448 GTAGATAATCAAAATACTTGGCATTGACAA
1 GTAGATAATCAAAATACTTGGCATTAACAA
17927478 TGTTCATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (31 bp):
GTAGATAATCAAAATACTTGGCATTAACAAA
Found at i:17928094 original size:22 final size:22
Alignment explanation
Indices: 17928069--17928110 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17928059 AGAATAGTTG
17928069 TTGATCTTCTTTCATAAAATAA
1 TTGATCTTCTTTCATAAAATAA
* * *
17928091 TTGATTTTTTTTTATAAAAT
1 TTGATCTTCTTTCATAAAAT
17928111 TATAAGAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TTGATCTTCTTTCATAAAATAA
Found at i:17929054 original size:17 final size:18
Alignment explanation
Indices: 17929032--17929080 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
17929022 TATTTTTTTT
17929032 CAAAAAATCAAAAG-TAA
1 CAAAAAATCAAAAGTTAA
17929049 CAAAAACAGTCAAAAGTTAA
1 CAAAAA-A-TCAAAAGTTAA
17929069 -AAAAAATCAAAA
1 CAAAAAATCAAAA
17929081 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 12 0.41
20 3 0.10
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (18 bp):
CAAAAAATCAAAAGTTAA
Found at i:17929072 original size:19 final size:16
Alignment explanation
Indices: 17929033--17929091 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
17929023 ATTTTTTTTC
17929033 AAAAAATCAAAAGTAA
1 AAAAAATCAAAAGTAA
17929049 CAAAAACAGTCAAAAGTTAA
1 -AAAAA-A-TCAAAAG-TAA
*
17929069 AAAAAATCAAAAAATAA
1 AAAAAATC-AAAAGTAA
17929086 AAAAAA
1 AAAAAA
17929092 ATTGAATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 16 0.43
18 6 0.16
19 12 0.32
20 3 0.08
ACGTcount: A:0.75, C:0.08, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAATCAAAAGTAA
Found at i:17930174 original size:13 final size:13
Alignment explanation
Indices: 17930121--17930174 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
17930111 ATTTCGCAAG
*
17930121 TTTTTTTCTTTTC
1 TTTTTTTCTTTTA
*
17930134 TTTTTTT-GTTTA
1 TTTTTTTCTTTTA
* *
17930146 TTTTTTGCTTTGA
1 TTTTTTTCTTTTA
*
17930159 TTTTTTTATTTTA
1 TTTTTTTCTTTTA
17930172 TTT
1 TTT
17930175 CTCTTTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.07, C:0.06, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTCTTTTA
Found at i:17930189 original size:2 final size:2
Alignment explanation
Indices: 17930184--17930237 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
17930174 TCTCTTTTTT
* *
17930184 TA TA TA T- TA TA TA TA TA T- TA TA TA TA -A TA TT TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
17930223 TA TT TA TA TT TA TA T
1 TA TA TA TA TA TA TA T
17930238 TTTAATAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (2 bp):
TA
Found at i:17930219 original size:6 final size:6
Alignment explanation
Indices: 17930182--17930239 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
17930172 TTTCTCTTTT
* *
17930182 TTTATA TATTATA TATATA -TTATA TATAATA TTTATA TTTATA TTTATA
1 TTTATA T-TTATA TTTATA TTTATA T-TTATA TTTATA TTTATA TTTATA
17930231 TTTATA TTT
1 TTTATA TTT
17930240 TAATAGTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 4 0.09
6 30 0.67
7 11 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTATA
Found at i:17930239 original size:18 final size:19
Alignment explanation
Indices: 17930182--17930239 Score: 84
Period size: 18 Copynumber: 3.2 Consensus size: 19
17930172 TTTCTCTTTT
*
17930182 TTTATATATTATATATATA
1 TTTATATATTATATTTATA
*
17930201 -TTATATATAATATTTATA
1 TTTATATATTATATTTATA
17930219 TTTATAT-TTATATTTATA
1 TTTATATATTATATTTATA
17930237 TTT
1 TTT
17930240 TAATAGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 29 0.83
19 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATATTATATTTATA
Found at i:17930478 original size:17 final size:18
Alignment explanation
Indices: 17930446--17930483 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
17930436 ATTTTGCATA
*
17930446 ATTGCATGATTATATTTT
1 ATTGCATGATTATATTAT
*
17930464 ATTGTATGA-TATATTAT
1 ATTGCATGATTATATTAT
17930481 ATT
1 ATT
17930484 ATTGCATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (18 bp):
ATTGCATGATTATATTAT
Found at i:17934442 original size:10 final size:10
Alignment explanation
Indices: 17934429--17934462 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
17934419 TGAAAAGTGC
17934429 AAAAAAAAAG
1 AAAAAAAAAG
17934439 AAAAAAAAAG
1 AAAAAAAAAG
17934449 AAAAAAAGAAG
1 AAAAAAA-AAG
17934460 AAA
1 AAA
17934463 TTGATAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:17934443 original size:11 final size:11
Alignment explanation
Indices: 17934429--17934462 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17934419 TGAAAAGTGC
17934429 AAAAAAAAAG-
1 AAAAAAAAAGA
17934439 AAAAAAAAAGA
1 AAAAAAAAAGA
*
17934450 AAAAAAGAAGA
1 AAAAAAAAAGA
17934461 AA
1 AA
17934463 TTGATAAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:17934537 original size:37 final size:37
Alignment explanation
Indices: 17934487--17934606 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
17934477 TGTTAAGGTG
* *
17934487 CTTTACATAAAAAGAAATGATCATTGGTTTGATTATC
1 CTTTAAATAAAAAGAAATGATCATTGGTTTGATTACC
* *
17934524 CTTTAAATGAAAAGAAATGATCCTTGGTTTGATTACC
1 CTTTAAATAAAAAGAAATGATCATTGGTTTGATTACC
* *
17934561 CTTTACATAAAAAGAAATGATCATTGATTTGATTACC
1 CTTTAAATAAAAAGAAATGATCATTGGTTTGATTACC
17934598 CTTTAAATA
1 CTTTAAATA
17934607 TAGTTAAGGC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (37 bp):
CTTTAAATAAAAAGAAATGATCATTGGTTTGATTACC
Found at i:17934843 original size:23 final size:22
Alignment explanation
Indices: 17934817--17934878 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
17934807 AGAGATGTGT
17934817 AAAAAAAAATAAAAAAAGTAAAA
1 AAAAAAAAATAAAAAAAGT-AAA
*
17934840 AAAAAAAAGCAAAAAAAAAGTAAA
1 AAAAAAAA--ATAAAAAAAGTAAA
*
17934864 AAAAAAAGATAAAAA
1 AAAAAAAAATAAAAA
17934879 GACAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 6 0.18
23 8 0.24
24 10 0.29
25 10 0.29
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAAAAATAAAAAAAGTAAA
Found at i:17934844 original size:14 final size:14
Alignment explanation
Indices: 17934821--17934870 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
17934811 ATGTGTAAAA
17934821 AAAAATAAAAAAAGT
1 AAAAA-AAAAAAAGT
17934836 AAAAAAAAAAAAG-
1 AAAAAAAAAAAAGT
*
17934849 --CAAAAAAAAAGT
1 AAAAAAAAAAAAGT
17934861 AAAAAAAAAA
1 AAAAAAAAAA
17934871 GATAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.33
14 15 0.50
15 5 0.17
ACGTcount: A:0.86, C:0.02, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAAGT
Found at i:17934845 original size:15 final size:15
Alignment explanation
Indices: 17934820--17934893 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 15
17934810 GATGTGTAAA
17934820 AAAAAATAAAAAAAG-
1 AAAAAA-AAAAAAAGC
*
17934835 TAAAAAAAAAAAAGC
1 AAAAAAAAAAAAAGC
17934850 AAAAAAAAAGTAAAA--
1 AAAAAAAAA--AAAAGC
*
17934865 AAAAAAGATAAAAAGAC
1 AAAAAA-AAAAAAAG-C
17934882 AAAAAAAGAAAA
1 AAAAAAA-AAAA
17934894 CTTAAACTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 12 0.26
15 19 0.40
16 3 0.06
17 13 0.28
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAAAAAAAGC
Found at i:17934877 original size:10 final size:10
Alignment explanation
Indices: 17934817--17934893 Score: 66
Period size: 10 Copynumber: 7.4 Consensus size: 10
17934807 AGAGATGTGT
*
17934817 AAAAAAAAAT
1 AAAAAAAAAG
*
17934827 AAAAAAAGTAAA
1 AAAAAAA--AAG
17934839 AAAAAAAAAG
1 AAAAAAAAAG
17934849 CAAAAAAAAAG
1 -AAAAAAAAAG
17934860 TAAAAAAAAA-
1 -AAAAAAAAAG
* *
17934870 AGATAAAAAG
1 AAAAAAAAAG
*
17934880 ACAAAAAAAG
1 AAAAAAAAAG
17934890 AAAA
1 AAAA
17934894 CTTAAACTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.13
10 20 0.36
11 19 0.35
12 9 0.16
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:17934878 original size:14 final size:13
Alignment explanation
Indices: 17934822--17934870 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
17934812 TGTGTAAAAA
17934822 AAAATAAAAAAAGT
1 AAAA-AAAAAAAGT
17934836 AAAAAAAAAAA--
1 AAAAAAAAAAAGT
*
17934847 AGCAAAAAAAAAGT
1 A-AAAAAAAAAAGT
17934861 AAAAAAAAAA
1 AAAAAAAAAA
17934871 GATAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 15 0.50
14 5 0.17
ACGTcount: A:0.86, C:0.02, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAGT
Found at i:17934878 original size:25 final size:25
Alignment explanation
Indices: 17934817--17934870 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
17934807 AGAGATGTGT
*
17934817 AAAAAAA-AATAAAAAAAGTAAAAA
1 AAAAAAAGAAAAAAAAAAGTAAAAA
*
17934841 AAAAAAAGCAAAAAAAAAGTAAAAA
1 AAAAAAAGAAAAAAAAAAGTAAAAA
17934866 AAAAA
1 AAAAA
17934871 GATAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.87, C:0.02, G:0.06, T:0.06
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAAAAGTAAAAA
Found at i:17934887 original size:23 final size:21
Alignment explanation
Indices: 17934817--17934893 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 21
17934807 AGAGATGTGT
*
17934817 AAAAAAAAATA-AAAAAAGTAA
1 AAAAAAAAAAAGAAAAAAG-AA
17934838 AAAAAAAAA-AGCAAAAAA-AA
1 AAAAAAAAAAAG-AAAAAAGAA
17934858 AGTAAAAAAAAAAGATAAAAAGACA
1 A--AAAAAAAAAAGA-AAAAAGA-A
*
17934883 AAAAAAGAAAA
1 AAAAAAAAAAA
17934894 CTTAAACTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
20 4 0.09
21 9 0.19
22 15 0.32
23 16 0.34
24 1 0.02
25 2 0.04
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAAGAA
Found at i:17934888 original size:11 final size:11
Alignment explanation
Indices: 17934817--17934878 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
17934807 AGAGATGTGT
*
17934817 AAAAAAAAATA
1 AAAAAAAAAGA
*
17934828 AAAAAAGTAA-A
1 AAAAAA-AAAGA
*
17934839 AAAAAAAAAGC
1 AAAAAAAAAGA
17934850 AAAAAAAAAGTA
1 AAAAAAAAAG-A
17934862 AAAAAAAAAGA
1 AAAAAAAAAGA
17934873 TAAAAA
1 -AAAAA
17934879 GACAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.05
11 24 0.56
12 17 0.40
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:17935996 original size:16 final size:16
Alignment explanation
Indices: 17935975--17936006 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17935965 TTTTCGAATG
*
17935975 AAAATCTTTGAAATTT
1 AAAATCTTTAAAATTT
17935991 AAAATCTTTAAAATTT
1 AAAATCTTTAAAATTT
17936007 TGGATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAATCTTTAAAATTT
Found at i:17936137 original size:23 final size:22
Alignment explanation
Indices: 17936106--17936184 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
17936096 TTTAGATGTG
*
17936106 AATCCTTAAATTATTTTAATGAA
1 AATCTTTAAATT-TTTTAATGAA
* * **
17936129 AATCTTT-AACTTTTGAATGCG
1 AATCTTTAAATTTTTTAATGAA
* *
17936150 AATCTCTAAAATTTTTTAATAAA
1 AATCT-TTAAATTTTTTAATGAA
*
17936173 AATCTTTGAATT
1 AATCTTTAAATT
17936185 ATAGAGGTGA
Statistics
Matches: 41, Mismatches: 13, Indels: 5
0.69 0.22 0.08
Matches are distributed among these distances:
21 12 0.29
22 9 0.22
23 20 0.49
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.44
Consensus pattern (22 bp):
AATCTTTAAATTTTTTAATGAA
Found at i:17936169 original size:44 final size:44
Alignment explanation
Indices: 17936054--17936179 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 44
17936044 TAAAACGTTG
* *
17936054 GATGCAAATCTCTAAAATTTTTTGAATATGAATCTTTCAAATTTTA
1 GATGCGAATCTCTAAAATTTTTT-AATA-AAATCTTTCAAATTTTA
* * *
17936100 GATGTGAATC-CTTAAATTATTTTAATGAAAATCTTT-AACTTTT-
1 GATGCGAATCTCTAAAATT-TTTTAAT-AAAATCTTTCAAATTTTA
17936143 GAATGCGAATCTCTAAAATTTTTTAATAAAAATCTTT
1 G-ATGCGAATCTCTAAAATTTTTTAAT-AAAATCTTT
17936180 GAATTATAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.44
45 24 0.35
46 13 0.19
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (44 bp):
GATGCGAATCTCTAAAATTTTTTAATAAAATCTTTCAAATTTTA
Found at i:17936409 original size:17 final size:17
Alignment explanation
Indices: 17936383--17936416 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17936373 ATTCTTAAAG
*
17936383 TTCTTGCGAAACTGAAA
1 TTCTTACGAAACTGAAA
*
17936400 TTCTTACGAATCTGAAA
1 TTCTTACGAAACTGAAA
17936417 GTTTTGCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (17 bp):
TTCTTACGAAACTGAAA
Found at i:17936505 original size:16 final size:17
Alignment explanation
Indices: 17936476--17936514 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
17936466 AAATTGTTGT
17936476 AAATCTGAAATTCTTAC
1 AAATCTGAAATTCTTAC
17936493 AAATCTG-AATTCTTAC
1 AAATCTGAAATTCTTAC
*
17936509 CAATCT
1 AAATCT
17936515 TCCGTTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (17 bp):
AAATCTGAAATTCTTAC
Found at i:17936694 original size:35 final size:35
Alignment explanation
Indices: 17936648--17936716 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
17936638 GGAACTTTTA
17936648 CAAATCTGAAACCCCTACGAAACTTGAAATCTTTG
1 CAAATCTGAAACCCCTACGAAACTTGAAATCTTTG
* * *
17936683 CAAATTTGAAACCTCTATGAAACTTGAAATCTTT
1 CAAATCTGAAACCCCTACGAAACTTGAAATCTTT
17936717 ATGAATCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (35 bp):
CAAATCTGAAACCCCTACGAAACTTGAAATCTTTG
Found at i:17936711 original size:18 final size:18
Alignment explanation
Indices: 17936654--17936721 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
17936644 TTTACAAATC
* *
17936654 TGAAACCCCTACGAAACT
1 TGAAACCTCTATGAAACT
* *
17936672 TGAAA--TCTTTGCAAATT
1 TGAAACCTCTATG-AAACT
17936689 TGAAACCTCTATGAAACT
1 TGAAACCTCTATGAAACT
* *
17936707 TGAAATCTTTATGAA
1 TGAAACCTCTATGAA
17936722 TCTAGAACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 3 0.08
17 9 0.23
18 22 0.56
19 5 0.13
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (18 bp):
TGAAACCTCTATGAAACT
Found at i:17942635 original size:67 final size:67
Alignment explanation
Indices: 17942564--17942690 Score: 191
Period size: 67 Copynumber: 1.9 Consensus size: 67
17942554 CACAAGTTAA
* * * * * *
17942564 AAAATAAAGAGACTCGGATTAAATCATGAGTCAGAGAATAACAATAATCGAGATTAAACTGCGAT
1 AAAATAAAGAGACTAGGATTAAACCACGAGTCAAAAAATAACAACAATCGAGATTAAACTGCGAT
17942629 TG
66 TG
*
17942631 AAAATAAGGAGACTAGGATTAAACCACGAGTCAAAAAATAACAACAATCGAGATTAAACT
1 AAAATAAAGAGACTAGGATTAAACCACGAGTCAAAAAATAACAACAATCGAGATTAAACT
17942691 ACGAATTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (67 bp):
AAAATAAAGAGACTAGGATTAAACCACGAGTCAAAAAATAACAACAATCGAGATTAAACTGCGAT
TG
Found at i:17942820 original size:103 final size:103
Alignment explanation
Indices: 17942703--17942894 Score: 260
Period size: 103 Copynumber: 1.9 Consensus size: 103
17942693 GAATTTGAAT
* * * * * * *
17942703 TAAAAAGATTGGGATTGAACCGCGAGTCAGAGAATAAAAAGATTGGAATTAAA-CGATAAGTTAG
1 TAAAAAGATCGGGATTGAACCACGAGTAAGAAAATAAAAAGATCGGAATTAAATCG-TAAGTCAA
*
17942767 AGAAAGAATGAGGATCGAGATTAAACCGTGACTTAAAAG
65 AGAAAGAATGAAGATCGAGATTAAACCGTGACTTAAAAG
* * *
17942806 TAAAGAGATCGGGATTGAACCACGAGTAAGAAAATAAAGAGATCGGGATTAAATCGTAAGTCAAA
1 TAAAAAGATCGGGATTGAACCACGAGTAAGAAAATAAAAAGATCGGAATTAAATCGTAAGTCAAA
*
17942871 GAAATAATGAAGATCGAGATTAAA
66 GAAAGAATGAAGATCGAGATTAAA
17942895 TCACGAGTCA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
103 74 0.97
104 2 0.03
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (103 bp):
TAAAAAGATCGGGATTGAACCACGAGTAAGAAAATAAAAAGATCGGAATTAAATCGTAAGTCAAA
GAAAGAATGAAGATCGAGATTAAACCGTGACTTAAAAG
Found at i:17942904 original size:36 final size:35
Alignment explanation
Indices: 17942806--17942908 Score: 111
Period size: 36 Copynumber: 2.9 Consensus size: 35
17942796 GACTTAAAAG
* *
17942806 TAAAGAGATCGGGATTGAACCACGAGT--AAGAAAA
1 TAAAGAGATCGGGATTAAATCACGAGTCAAAG-AAA
***
17942840 TAAAGAGATCGGGATTAAATCGTAAGTCAAAGAAA
1 TAAAGAGATCGGGATTAAATCACGAGTCAAAGAAA
* *
17942875 TAATGAAGATCGAGATTAAATCACGAGTCAAAGA
1 TAAAG-AGATCGGGATTAAATCACGAGTCAAAGA
17942909 TTAAAGACGA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 22 0.39
35 7 0.12
36 27 0.48
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (35 bp):
TAAAGAGATCGGGATTAAATCACGAGTCAAAGAAA
Found at i:17943482 original size:18 final size:18
Alignment explanation
Indices: 17943461--17943497 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17943451 TTTTATTTTG
17943461 TATCCCATTTTTCTTCTT
1 TATCCCATTTTTCTTCTT
*
17943479 TATCCCCTTTTTCTTCTT
1 TATCCCATTTTTCTTCTT
17943497 T
1 T
17943498 GTTTTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (18 bp):
TATCCCATTTTTCTTCTT
Found at i:17944117 original size:8 final size:8
Alignment explanation
Indices: 17944101--17944139 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
17944091 CTTTTTTGTA
17944101 TTATTTTT
1 TTATTTTT
*
17944109 TCTTTTTTT
1 T-TATTTTT
*
17944118 TTCTTTTT
1 TTATTTTT
17944126 TTATTTTT
1 TTATTTTT
17944134 TTATTT
1 TTATTT
17944140 CTCTTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (8 bp):
TTATTTTT
Found at i:17952002 original size:22 final size:22
Alignment explanation
Indices: 17951985--17952075 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
17951975 AATTTTGAAT
*
17951985 TTTAAGATTTTGGATTTTAGGG
1 TTTAAGATTTTGGATTTTAGAG
* *
17952007 TTTAGGATTTTGGATTTTAGGG
1 TTTAAGATTTTGGATTTTAGAG
* *
17952029 TTTCAG-TTTTAGGATTTGAG-G
1 TTTAAGATTTT-GGATTTTAGAG
*
17952050 TTTGAAG-TTTTGG-TTTTAGGG
1 TTT-AAGATTTTGGATTTTAGAG
17952071 TTTAA
1 TTTAA
17952076 AGGATTTAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
20 7 0.12
21 14 0.23
22 39 0.65
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.51
Consensus pattern (22 bp):
TTTAAGATTTTGGATTTTAGAG
Found at i:17952027 original size:15 final size:15
Alignment explanation
Indices: 17951976--17952024 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
17951966 GGTTTTCAGA
* *
17951976 ATTTTGAATTTTAAG
1 ATTTTGGATTTTAGG
17951991 ATTTTGGATTTTAGG
1 ATTTTGGATTTTAGG
* *
17952006 GTTTAGGATTTT-GG
1 ATTTTGGATTTTAGG
17952020 ATTTT
1 ATTTT
17952025 AGGGTTTCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.55
Consensus pattern (15 bp):
ATTTTGGATTTTAGG
Found at i:17953244 original size:7 final size:6
Alignment explanation
Indices: 17953225--17953265 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
17953215 GGGAGAACTG
* *
17953225 TGTTTT TGTTTT TGTCTTT TGTTTT TTTTTT TTTTTT TGTT
1 TGTTTT TGTTTT TGT-TTT TGTTTT TGTTTT TGTTTT TGTT
17953266 ATTATTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.85
Consensus pattern (6 bp):
TGTTTT
Found at i:17953686 original size:3 final size:3
Alignment explanation
Indices: 17953671--17953726 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
17953661 ATTAAATTGA
* * * * *
17953671 TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAA TAA AAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
17953719 TAA TAT TA
1 TAT TAT TA
17953727 AACTAAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:17959228 original size:19 final size:19
Alignment explanation
Indices: 17959201--17959238 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17959191 TCATTATTTT
17959201 TAATATTAAAAAATAAAAA
1 TAATATTAAAAAATAAAAA
* *
17959220 TAATTTTAAAATATAAAAA
1 TAATATTAAAAAATAAAAA
17959239 ATAAGAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATATTAAAAAATAAAAA
Found at i:17959827 original size:14 final size:15
Alignment explanation
Indices: 17959793--17959839 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
17959783 GGAATTTGTT
* *
17959793 TTTATTCGTTTATAG
1 TTTATTTGTTTATAA
17959808 TTTATTTGTTTA-AA
1 TTTATTTGTTTATAA
*
17959822 TTTATTTGGTTATAA
1 TTTATTTGTTTATAA
17959837 TTT
1 TTT
17959840 GTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (15 bp):
TTTATTTGTTTATAA
Found at i:17959838 original size:15 final size:15
Alignment explanation
Indices: 17959802--17959839 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17959792 TTTTATTCGT
* *
17959802 TTATAGTTTATTTGT
1 TTATAATTTATTTGG
17959817 TTA-AATTTATTTGG
1 TTATAATTTATTTGG
17959831 TTATAATTT
1 TTATAATTT
17959840 GTTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (15 bp):
TTATAATTTATTTGG
Found at i:17959863 original size:12 final size:12
Alignment explanation
Indices: 17959846--17959888 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
17959836 ATTTGTTTAT
*
17959846 TATTCATGAACA
1 TATTCATGAATA
*
17959858 TATTCATTTATATA
1 TATTCA-TGA-ATA
17959872 TATTCATGAATA
1 TATTCATGAATA
17959884 TATTC
1 TATTC
17959889 GTTTAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 14 0.54
13 4 0.15
14 8 0.31
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (12 bp):
TATTCATGAATA
Found at i:17961959 original size:988 final size:981
Alignment explanation
Indices: 17959984--17962932 Score: 3643
Period size: 988 Copynumber: 3.0 Consensus size: 981
17959974 AGCTCGAATG
* * * * * *
17959984 AACAAAGCAATTTTCTTACTAAACACAAACC-AAGCCAT-AATACCTTTAAAAATAAATTGATAA
1 AACAAAACAATTTTCTTACTAAAAACGAACCGAA-CC-TGAATACCTCTAAAAATAAA-TAACAA
*
17960047 ACCACAAATATATGTTTGTTCATTCATGTTCGGTTCTTTATAGCCATAAGTGGGTAGAGTATTGT
63 ACCACAAATATATGTTTGTTCATTCATGTTCGGTTCTTTATAGCCATAAGTGGGTAGAGTATTCT
* ** * * * *
17960112 CTATCATCATCTTCATTTACGAATTTTTATATTATACTTATCTCTATACTCATATCCAATTGGTA
128 TTATCCCCATCTTCATTTA--AATTTTTATATTATAC-TATCTTTGTACCCATATCCAA-AGGTA
* * * * *
17960177 TTAAAATCTATCTCTATTTTTGTAAGTATTTAATAGGTATGAATAATCCTTGTACCTGTAGCTTT
189 TTAAAATCTATCTCCATCTTTGCAAGTATTTAATAGGTATGAATAATCCTTATACCAGTAGCTTT
**
17960242 TAGAAAAAAATAAAAACTAAAATGTATTTTTTAAATTTTAAAAAAAATTATCTTACATATTTATG
254 TAGAAAAAAATAAAAACTAAAATGTATTTTTTTTATTTTAAAAAAAATTATCTTACATATTTATG
17960307 TAA--TTTTT-T---TATA--AATATATAATTTAAATAAAAATATATTAATTCCAATTAATTTAA
319 TAATTTTTTTATAAATATATTAATATATAATTTAAATAAAAATATATTAATTCCAATTAATTTAA
* *
17960364 AATAATATTTTAAATTATTTAATAAAAATTTATTTAC-AAATATATATAATATAAATGTAGAGTA
384 AATAATAATTTAAATTATTTAATAAAAATTTA-TTACTAAATATATAT-AT-T-ATTGTAGAGTA
* * *
17960428 TGGGTACATATATGAGACAGATACTATATTATCCATTCTTATCCTCATA-CCGAGTAAAAAATTT
445 TGAGTACATATATGAGACAGATATTGTATTATCCATTCTTATCCTCATACCCGAGTAAAAAATTT
* *
17960492 AAAATTATATCTA-CCCTTATCCTTACAATATAATACTCATTCTTATCCCCATTTGAACAAAAAA
510 AAAATCATATCTATCTC-TATCCTTACAATATAATACTCATTCTTATCCCCATTTGAACAAAAAA
* * * ** * * * *
17960556 TCATATTCTTTATTAAATATGAACAAAACAAACATCTTCAAATGAAAAGATTCCATTAATTAAGA
574 TTAGATTCTCTATTAAATATG-AGTAAACTAACATCTTTAAATGAATAGATTCCATTAATGAAGA
* *
17960621 AAGTAAAAAAGAAAAGTTATTTTTTAAAAAAAATTTTAAAAAATTTGTATTCAATAATTTTTCAT
638 AAGTAAAAAAGAAAAGTTATTTTTT-AAAAAATTTTTAAAAAGTTTGTATTCAATAATTTTTCAT
* *
17960686 TATTTAAAATGGTTATCAAATTAAAAATCAAATGTTAATTTTTTTACAAAAC----------A--
702 TATATAAAATGGTTATAAAATTAAAAATCAAATGTTAATTTTTTTACAAAACATTTTTAATTATT
*
17960739 TTT----T--T---TAATTATTTTTTAACCAAGTTAGTACCATTTAGCCATAAAAAACCAAGTTA
767 TTTAAGGTAATGAATAATTATTTTTTAACCAAGTTAGTACCATTTGGCCA-AAAAAACCAAGTTA
* * *
17960795 GTACCCAAAAATTATTTTTTAAAAATTTTAAATCGATTGATCAAAATATTGTATTAGGTTAAATA
831 GTACCCAAAAA-T-TTTTTT---ATTTTTAAATTGATTGATCAAAATATTGTATTAGGGTAAATA
* * *
17960860 TAAAAACGGCACATGTATTACATTTTTTCTGTCAATTTGATACCTAAAATAATAAAATTATAAGT
891 TAAAAATGGCACATGTATTACATTTTTTCTGTCAGTTTGATACCTAAAGTAATAAAATTATAAGT
*
17960925 TTAGTACTCAAACTTTTAGTTTGTCAT
956 TT-GTACTCAAACTTTTATTTTGTCAT
* * *
17960952 AACAAAATAATTTTCTTACTAAAAATGAACTGAA-CTCGAATACCTCTAAAAATAAACTAACAAA
1 AACAAAACAATTTTCTTACTAAAAACGAACCGAACCT-GAATACCTCTAAAAATAAA-TAACAAA
* * * * * *
17961016 TCACAAATATATATTTGTTCATTCATGTTCGATTTTTTATAGCCCTAAGTGGGTATAGTATTCTT
64 CCACAAATATATGTTTGTTCATTCATGTTCGGTTCTTTATAGCCATAAGTGGGTAGAGTATTCTT
*
17961081 TATCCCCATCTCCATCTGTAAATTTTTATATTATATCTATCTTTGTACCCATATCCAAAGGTTAT
129 TATCCCCATCTTCAT-T-TAAATTTTTATATTATA-CTATCTTTGTACCCATATCCAAAGG-TA-
* * * * *
17961146 TTAAAATCTATCTCCATCTTTACAAATATTTAATAAGTATAAATAATCCTTATACCCGTAGCTTT
189 TTAAAATCTATCTCCATCTTTGCAAGTATTTAATAGGTATGAATAATCCTTATACCAGTAGCTTT
17961211 TA-AAAAATAATAAAAACTAAAATGTATTTTTTTTATTTTAAAAAAAATTTATCTTACATATTTA
254 TAGAAAAA-AATAAAAACTAAAATGTATTTTTTTTATTTTAAAAAAAA-TTATCTTACATATTTA
17961275 TGTAATTTTTTTTATAAATATATTAATATATAATTTAAATAAAAATATATTAATTCCAATTAATT
317 TGTAA-TTTTTTTATAAATATATTAATATATAATTTAAATAAAAATATATTAATTCCAATTAATT
*
17961340 TAAAATAATAATTTAAATTATTTAATAAAAATTTATTACTAAATATATATATTTTTGTAGAGTAT
381 TAAAATAATAATTTAAATTATTTAATAAAAATTTATTACTAAATATATATATTATTGTAGAGTAT
* * *
17961405 GAATACATATATGAGACAGATGTTGTATTATCCATTCTTATCCTCATACCCGA-TAAAAAA-TTG
446 GAGTACATATATGAGACAGATATTGTATTATCCATTCTTATCCTCATACCCGAGTAAAAAATTTA
* * *
17961468 AAATCATATATATCTCTATCCTTACAATATAATACTCATTTTTATCCCCTTTTGAACAAAAAATT
511 AAATCATATCTATCTCTATCCTTACAATATAATACTCATTCTTATCCCCATTTGAACAAAAAATT
* * *
17961533 AGATTCTCTATTAAGTATGGGTAAATTAACATCTTTAAATGAATAGATTCCATTAATGAAGAAAG
576 AGATTCTCTATTAAATATGAGTAAACTAACATCTTTAAATGAATAGATTCCATTAATGAAGAAAG
* *** *
17961598 TAAAAAAGAAAAATTA-TTTTTAAATTTTTTTTTAAAATGTTTGTATTCAATAATTTTTCATTAT
641 TAAAAAAGAAAAGTTATTTTTTAAA-AAATTTTTAAAAAGTTTGTATTCAATAATTTTTCATTAT
* *
17961662 GTAAAATGGTTATAAAATTAAAAATCAAATGTTAATCTTTTTACAAAACAATTTTTAATTATTTT
705 ATAAAATGGTTATAAAATTAAAAATCAAATGTTAATTTTTTTACAAAAC-ATTTTTAATTATTTT
*
17961727 TAAGGTAATGAATAATTATTTTTTAATCAAGTTAGTACCATTTGGCCAAAAAAACCAAGTTAGTA
769 TAAGGTAATGAATAATTATTTTTTAACCAAGTTAGTACCATTTGGCCAAAAAAACCAAGTTAGTA
17961792 CCC-AAAATTTTTTTATTTTTAAATTGATTGATCAAAATATTGTATTAGGGTAAATATAAAAATG
834 CCCAAAAATTTTTTTATTTTTAAATTGATTGATCAAAATATTGTATTAGGGTAAATATAAAAATG
* *
17961856 GCTCATGTACTACATCTTTTT-TGTCAGTTTGATACCTAAAGTAATAAAATTATAAGTTTCGTAC
899 GCACATGTATTACAT-TTTTTCTGTCAGTTTGATACCTAAAGTAATAAAATTATAAGTTT-GTAC
* *
17961920 TCAAACTTTCATTTTATCAT
962 TCAAACTTTTATTTTGTCAT
* * * *
17961940 AACAAAGCAATTTTCTTACTAAATACGAACCGAGCCTGAATACCTCTAAAAGTAAATGAACAAAC
1 AACAAAACAATTTTCTTACTAAAAACGAACCGAACCTGAATACCTCTAAAAATAAAT-AACAAAC
* ** * *
17962005 CACAAATATATGTTTATTTGTTCATTGTT-GGTTCTTTATAGCCTTAAATGGGTAGAGTATTCTT
65 CACAAATATATGTTTGTTCATTCA-TGTTCGGTTCTTTATAGCCATAAGTGGGTAGAGTATTCTT
* * * * * *
17962069 TATCCCCATCTTCATATATGAATTTTTATGTTAGACCTATCTTTGCATCCATATTCAAAGGGTA-
129 TATCCCCATCTTCAT-T-TAAATTTTTATATTATA-CTATCTTTGTACCCATATCCAAA-GGTAT
* ** * * **
17962133 TAAAATCTATCTACATCACTGCGAGTATTTAATGGGTATGAATAATACC-TATATTAGTAGCTTT
190 TAAAATCTATCTCCATCTTTGCAAGTATTTAATAGGTATGAATAAT-CCTTATACCAGTAGCTTT
**
17962197 TAGAAAAAAATAAAAACTAAAATGTA--TTTTTTAAATTAAAAAAAATTATCTTACATATTTATG
254 TAGAAAAAAATAAAAACTAAAATGTATTTTTTTTATTTTAAAAAAAATTATCTTACATATTTATG
* * *
17962260 TAATTTTTTTATAAATATATTAATATGTAATTTAAATTAAAATATACTAATTCCAATTAATTTAA
319 TAATTTTTTTATAAATATATTAATATATAATTTAAATAAAAATATATTAATTCCAATTAATTTAA
* ** * * * *
17962325 AATATTTAATAAAAATTTATTTACT--AAA--TA-TA-TATATATAAATATTATTGTAAAGTAT-
384 AATA-ATAATTTAAA-TTATTTAATAAAAATTTATTACTAAATATATATATTATTGTAGAGTATG
* * * ** *
17962383 AGGTACATATACGAGACGGATCTTGTATTATCCATTCCCATCCTCGTACCC-AGTAAAAAATTTA
447 A-GTACATATATGAGACAGATATTGTATTATCCATTCTTATCCTCATACCCGAGTAAAAAATTTA
* * * *
17962447 AAATCATATCTATCTCGATCCTTATAATATAATACTCATTCATATCCCCATTTGAACAAAAATTT
511 AAATCATATCTATCTCTATCCTTACAATATAATACTCATTCTTATCCCCATTTGAACAAAAAATT
* * ** *
17962512 AGATTCTCTATTAATTATAAGTAAAACTGGCATCTTTAAATGAATAGATTTCATTAATGAAGAAA
576 AGATTCTCTATTAAATATGAGT-AAACTAACATCTTTAAATGAATAGATTCCATTAATGAAGAAA
* * *
17962577 GCAAAAAAGAAAAGTTATTTTTTAAAAAATTTTTAAAAAGTTTTATATTCAATAATTTTCCATTA
640 GTAAAAAAGAAAAGTTATTTTTTAAAAAATTTTTAAAAAG-TTTGTATTCAATAATTTTTCATTA
17962642 TATAAAATGGTTATAAAATTAAAAATCAAATGTTAATTTTTTTTACAAAACATTTTTTAATTATT
704 TATAAAATGGTTATAAAATTAAAAATCAAATGTTAA-TTTTTTTACAAAACA-TTTTTAATTATT
17962707 TTTAAGGTAATGAATAATTATTTTTTAACCAAGTTAGTACCATTTGGCCAAAAAAACCAAGTTAG
767 TTTAAGGTAATGAATAATTATTTTTTAACCAAGTTAGTACCATTTGGCCAAAAAAACC-A---AG
17962772 TACTTAGTACCCAAAAATTATTTTTTTATTTTTAAATTGATTGATCAAAATATTGTATT-GGGTT
828 ---TTAGTACCC-AAAA--ATTTTTTTATTTTTAAATTGATTGATCAAAATATTGTATTAGGG-T
* * ** * * *
17962836 AAATATAAAAATGGCCCATATATTATTTTTTTTCTATCAGTTT-AGTACTTAAAGTAATAAATTT
886 AAATATAAAAATGGCACATGTATTACATTTTTTCTGTCAGTTTGA-TACCTAAAGTAATAAAATT
17962900 ATAAGTTTGATACTCAAACTTTTATTTTGTCAT
950 ATAAGTTTG-TACTCAAACTTTTATTTTGTCAT
17962933 CCAATTTAGT
Statistics
Matches: 1723, Mismatches: 181, Indels: 129
0.85 0.09 0.06
Matches are distributed among these distances:
966 1 0.00
967 3 0.00
968 156 0.09
969 99 0.06
970 23 0.01
972 3 0.00
973 89 0.05
974 54 0.03
975 74 0.04
976 62 0.04
977 11 0.01
978 77 0.04
979 166 0.10
980 65 0.04
981 66 0.04
982 148 0.09
983 29 0.02
984 26 0.02
986 74 0.04
987 8 0.00
988 269 0.16
989 22 0.01
990 1 0.00
991 9 0.01
992 12 0.01
993 122 0.07
994 20 0.01
995 34 0.02
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (981 bp):
AACAAAACAATTTTCTTACTAAAAACGAACCGAACCTGAATACCTCTAAAAATAAATAACAAACC
ACAAATATATGTTTGTTCATTCATGTTCGGTTCTTTATAGCCATAAGTGGGTAGAGTATTCTTTA
TCCCCATCTTCATTTAAATTTTTATATTATACTATCTTTGTACCCATATCCAAAGGTATTAAAAT
CTATCTCCATCTTTGCAAGTATTTAATAGGTATGAATAATCCTTATACCAGTAGCTTTTAGAAAA
AAATAAAAACTAAAATGTATTTTTTTTATTTTAAAAAAAATTATCTTACATATTTATGTAATTTT
TTTATAAATATATTAATATATAATTTAAATAAAAATATATTAATTCCAATTAATTTAAAATAATA
ATTTAAATTATTTAATAAAAATTTATTACTAAATATATATATTATTGTAGAGTATGAGTACATAT
ATGAGACAGATATTGTATTATCCATTCTTATCCTCATACCCGAGTAAAAAATTTAAAATCATATC
TATCTCTATCCTTACAATATAATACTCATTCTTATCCCCATTTGAACAAAAAATTAGATTCTCTA
TTAAATATGAGTAAACTAACATCTTTAAATGAATAGATTCCATTAATGAAGAAAGTAAAAAAGAA
AAGTTATTTTTTAAAAAATTTTTAAAAAGTTTGTATTCAATAATTTTTCATTATATAAAATGGTT
ATAAAATTAAAAATCAAATGTTAATTTTTTTACAAAACATTTTTAATTATTTTTAAGGTAATGAA
TAATTATTTTTTAACCAAGTTAGTACCATTTGGCCAAAAAAACCAAGTTAGTACCCAAAAATTTT
TTTATTTTTAAATTGATTGATCAAAATATTGTATTAGGGTAAATATAAAAATGGCACATGTATTA
CATTTTTTCTGTCAGTTTGATACCTAAAGTAATAAAATTATAAGTTTGTACTCAAACTTTTATTT
TGTCAT
Found at i:17962302 original size:27 final size:26
Alignment explanation
Indices: 17962272--17962335 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
17962262 ATTTTTTTAT
**
17962272 AAATATATTAATATGTAATTTAAATTA
1 AAATATATTAATATCCAA-TTAAATTA
* *
17962299 AAATATACTAAT-TCCAATTAATTTA
1 AAATATATTAATATCCAATTAAATTA
17962324 AAATAT-TTAATA
1 AAATATATTAATA
17962336 AAAATTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 4 0.13
25 13 0.42
26 3 0.10
27 11 0.35
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATATATTAATATCCAATTAAATTA
Found at i:17963106 original size:10 final size:10
Alignment explanation
Indices: 17963061--17963132 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 10
17963051 ATATTAAAAG
*
17963061 AAAATTTCAA
1 AAAATTTAAA
*
17963071 AAAACTTAAA
1 AAAATTTAAA
*
17963081 AAAATCTATAA
1 AAAATTTA-AA
17963092 AAAATTTAAA
1 AAAATTTAAA
*
17963102 AAAATTT-CA
1 AAAATTTAAA
*
17963111 AATATTTAAA
1 AAAATTTAAA
**
17963121 AATTTTTAAA
1 AAAATTTAAA
17963131 AA
1 AA
17963133 TTATAAAAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.14
10 35 0.69
11 9 0.18
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:17963133 original size:10 final size:10
Alignment explanation
Indices: 17963061--17963152 Score: 59
Period size: 10 Copynumber: 9.5 Consensus size: 10
17963051 ATATTAAAAG
17963061 AAAATTTCA-A
1 AAAATTT-ATA
* *
17963071 AAAACTTAAA
1 AAAATTTATA
*
17963081 AAAATCTATAA
1 AAAATTTAT-A
*
17963092 AAAATTTAAA
1 AAAATTTATA
*
17963102 AAAATTT-CA
1 AAAATTTATA
*
17963111 AATA-TT-TA
1 AAAATTTATA
*
17963119 AAAATTTTTA
1 AAAATTTATA
17963129 AAAA-TTATA
1 AAAATTTATA
*
17963138 AAAACTTATA
1 AAAATTTATA
17963148 AAAAT
1 AAAAT
17963153 CTAAATTATT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
8 6 0.09
9 15 0.23
10 36 0.55
11 8 0.12
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTATA
Found at i:17963139 original size:9 final size:9
Alignment explanation
Indices: 17963070--17963189 Score: 57
Period size: 9 Copynumber: 12.7 Consensus size: 9
17963060 GAAAATTTCA
*
17963070 AAAAACTTAA
1 AAAAA-TTAT
17963080 AAAAATCTAT
1 AAAAAT-TAT
*
17963090 AAAAAATTTAA
1 -AAAAA-TTAT
17963101 AAAAATT-T
1 AAAAATTAT
*
17963109 CAAATATT-T
1 -AAAAATTAT
*
17963118 AAAAATTTTT
1 AAAAA-TTAT
17963128 AAAAATTAT
1 AAAAATTAT
17963137 AAAAACTTAT
1 AAAAA-TTAT
17963147 AAAAATCTA-
1 AAAAAT-TAT
* * *
17963156 AATTATTTTT
1 AA-AAATTAT
*
17963166 AGAAATTAT
1 AAAAATTAT
*
17963175 AAAAATTAA
1 AAAAATTAT
17963184 AAAAAT
1 AAAAAT
17963190 ATGACAACTT
Statistics
Matches: 85, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
8 4 0.05
9 41 0.48
10 32 0.38
11 7 0.08
12 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17963389 original size:33 final size:34
Alignment explanation
Indices: 17963317--17963400 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
17963307 TAACAAAAAC
*
17963317 TTAAAAA-ATTGAAAA-TAAAAATCTAAAATTTT
1 TTAAAAATTTTGAAAATTAAAAATCTAAAATTTT
17963349 TGT-AAAATTTTGAAAATTAAAAATCT-AAATTTT
1 T-TAAAAATTTTGAAAATTAAAAATCTAAAATTTT
*
17963382 TTAAAAATTCTTAAAAATT
1 TTAAAAATT-TTGAAAATT
17963401 TTAAAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 6 0.13
33 22 0.49
34 17 0.38
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (34 bp):
TTAAAAATTTTGAAAATTAAAAATCTAAAATTTT
Found at i:17963475 original size:17 final size:17
Alignment explanation
Indices: 17963455--17963488 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17963445 ATTCTAAATT
17963455 ATTTAAAAAATAAAAAA
1 ATTTAAAAAATAAAAAA
*
17963472 ATTTTAAAAATAAAAAA
1 ATTTAAAAAATAAAAAA
17963489 TAAATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTTAAAAAATAAAAAA
Found at i:17963549 original size:35 final size:33
Alignment explanation
Indices: 17963506--17963573 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
17963496 ACTTGAAATT
17963506 AAAAAAAATCTTAAAAATTCATAA-AATATATAAA
1 AAAAAAAAT-TTAAAAATTCATAATAATA-ATAAA
* *
17963540 AAAATAAAATTTTAATATTCATAATAATAATAAA
1 AAAA-AAAATTTAAAAATTCATAATAATAATAAA
17963574 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (33 bp):
AAAAAAAATTTAAAAATTCATAATAATAATAAA
Found at i:17963617 original size:19 final size:19
Alignment explanation
Indices: 17963573--17963636 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
17963563 ATAATAATAA
*
17963573 ATTTTTAAAAT-TTTTTTG
1 ATTTTTAAAATATTTTTAG
*
17963591 CAAATTTTAAAATATTTTTAG
1 --ATTTTTAAAATATTTTTAG
*
17963612 ATTTTTTAAAATA-GTTTAG
1 A-TTTTTAAAATATTTTTAG
17963631 ATTTTT
1 ATTTTT
17963637 TATTTTGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 5 0.13
19 7 0.18
20 20 0.53
21 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAATATTTTTAG
Found at i:17963637 original size:19 final size:20
Alignment explanation
Indices: 17963595--17963638 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
17963585 TTTTTGCAAA
*
17963595 TTTTAAAATATTTTTAGATT
1 TTTTAAAATATGTTTAGATT
17963615 TTTTAAAATA-GTTTAGATT
1 TTTTAAAATATGTTTAGATT
17963634 TTTTA
1 TTTTA
17963639 TTTTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTAAAATATGTTTAGATT
Found at i:17963815 original size:15 final size:17
Alignment explanation
Indices: 17963781--17963816 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17963771 TTGTTGTAAT
17963781 TTTTTAAAAATATTTCA
1 TTTTTAAAAATATTTCA
17963798 TTTTTAAAAAT-TTT-A
1 TTTTTAAAAATATTTCA
17963813 TTTT
1 TTTT
17963817 AATGTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAAAAATATTTCA
Found at i:17964214 original size:13 final size:15
Alignment explanation
Indices: 17964184--17964220 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17964174 AAATTGTTTA
17964184 TAATATTTATATCAT
1 TAATATTTATATCAT
17964199 TAATATTTA-A-CAT
1 TAATATTTATATCAT
17964212 TAATCATTT
1 TAAT-ATTT
17964221 TTTTTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 5 0.24
15 9 0.43
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTTATATCAT
Found at i:17966395 original size:2 final size:2
Alignment explanation
Indices: 17966390--17966425 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17966380 TCTCTCTCTT
17966390 TA TA TA TA 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 TA TA TA TA
17966426 AAACAAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17967485 original size:2 final size:2
Alignment explanation
Indices: 17967480--17967519 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
17967470 GATACACACG
* *
17967480 TA TA TA TA TA TA TA TA TA TA TG TG 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
17967520 GTGATAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17969925 original size:11 final size:11
Alignment explanation
Indices: 17969888--17969938 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
17969878 GAAAAACTCT
*
17969888 TAAAATTTTAA
1 TAAAAATTTAA
*
17969899 TAAAAATCTTTA
1 TAAAAAT-TTAA
17969911 -AAAAATTTAA
1 TAAAAATTTAA
*
17969921 TAAAAATTGAA
1 TAAAAATTTAA
17969932 -AAAAATT
1 TAAAAATT
17969939 GAAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 10 0.29
11 21 0.62
12 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAAAATTTAA
Found at i:17969935 original size:10 final size:10
Alignment explanation
Indices: 17969910--17969944 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
17969900 AAAAATCTTT
*
17969910 AAAAAATTTA
1 AAAAAATTGA
17969920 ATAAAAATTGA
1 A-AAAAATTGA
17969931 AAAAAATTGA
1 AAAAAATTGA
17969941 AAAA
1 AAAA
17969945 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (10 bp):
AAAAAATTGA
Found at i:17970027 original size:28 final size:28
Alignment explanation
Indices: 17970003--17970057 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
17969993 CAAAAAAACT
*
17970003 TAAAAA-ATTTAAAATATTTTGAAAAATC
1 TAAAAATATTTAAAA-ATTATGAAAAATC
17970031 TAAAAATATTTAAAAATTATGAAAAAT
1 TAAAAATATTTAAAAATTATGAAAAAT
17970058 TTTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (28 bp):
TAAAAATATTTAAAAATTATGAAAAATC
Found at i:17970046 original size:19 final size:19
Alignment explanation
Indices: 17970002--17970046 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17969992 ACAAAAAAAC
*
17970002 TTAAAAAATTTAAAATATT
1 TTAAAAAATTAAAAATATT
*
17970021 TTGAAAAATCTAAAAATA-T
1 TTAAAAAAT-TAAAAATATT
17970040 TTAAAAA
1 TTAAAAA
17970047 TTATGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TTAAAAAATTAAAAATATT
Found at i:17972857 original size:22 final size:22
Alignment explanation
Indices: 17972826--17972869 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17972816 AACATTTTAG
* *
17972826 GTTTTGAAAATGGCTTTCAAAA
1 GTTTTAAAAATAGCTTTCAAAA
17972848 GTTTTAAAAATAGCTTTCAAAA
1 GTTTTAAAAATAGCTTTCAAAA
17972870 ATCATTTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
GTTTTAAAAATAGCTTTCAAAA
Found at i:17974487 original size:7 final size:7
Alignment explanation
Indices: 17974475--17974500 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17974465 TTTTGTTAAT
17974475 AAAAATA
1 AAAAATA
17974482 AAAAATA
1 AAAAATA
17974489 AAAAATA
1 AAAAATA
17974496 AAAAA
1 AAAAA
17974501 AATCTAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:17975371 original size:25 final size:25
Alignment explanation
Indices: 17975343--17975390 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
17975333 ATAATTATCC
*
17975343 AATGATAAAATTTTTA-AAAATTTTA
1 AATGAT-AAATTTCTATAAAATTTTA
17975368 AATGATAAATTTCTATAAAATTT
1 AATGATAAATTTCTATAAAATTT
17975391 CTAGTTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
AATGATAAATTTCTATAAAATTTTA
Found at i:17975489 original size:4 final size:4
Alignment explanation
Indices: 17975482--17975506 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17975472 TTTTCAACAA
17975482 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
17975507 TGTTGGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:17975584 original size:27 final size:25
Alignment explanation
Indices: 17975544--17975594 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
17975534 GATGAGATTC
17975544 TTAAAAATTTTAAAT-AGTAAATTTT
1 TTAAAAATTTTAAATGAG-AAATTTT
17975569 TTAAGAAATTTTTAAATGAGAAATTT
1 TTAA-AAA-TTTTAAATGAGAAATTT
17975595 GTCTAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 14 0.61
28 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
TTAAAAATTTTAAATGAGAAATTTT
Found at i:17975889 original size:26 final size:25
Alignment explanation
Indices: 17975860--17975943 Score: 59
Period size: 26 Copynumber: 3.4 Consensus size: 25
17975850 AAACAAAAAA
17975860 AAAATTTTAAATAGACCCAAATAGTG
1 AAAATTTTAAATA-ACCCAAATAGTG
* * * *
17975886 AAAAATTTAGA-AA-TCAAA-A-AG
1 AAAATTTTAAATAACCCAAATAGTG
* * *
17975907 AAAATTCTAAATTTACCCAAATTGTG
1 AAAATTTTAAA-TAACCCAAATAGTG
17975933 AAAATTTTAAA
1 AAAATTTTAAA
17975944 AATAAATTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
21 9 0.22
22 1 0.02
23 5 0.12
24 5 0.12
25 1 0.02
26 20 0.49
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAATTTTAAATAACCCAAATAGTG
Found at i:17975911 original size:47 final size:47
Alignment explanation
Indices: 17975847--17975946 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
17975837 TTCAAAAATA
* *
17975847 AAAAAACAAAAAAAAAATTTTAAATAGACCCAAATAGTGAAAAATTT
1 AAAAATCAAAAAAAAAATTCTAAATAGACCCAAATAGTGAAAAATTT
* * ** * *
17975894 AGAAATCAAAAAGAAAATTCTAAATTTACCCAAATTGTGAAAATTTT
1 AAAAATCAAAAAAAAAATTCTAAATAGACCCAAATAGTGAAAAATTT
17975941 AAAAAT
1 AAAAAT
17975947 AAATTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.25
Consensus pattern (47 bp):
AAAAATCAAAAAAAAAATTCTAAATAGACCCAAATAGTGAAAAATTT
Found at i:17982267 original size:7 final size:7
Alignment explanation
Indices: 17982255--17982349 Score: 57
Period size: 7 Copynumber: 13.0 Consensus size: 7
17982245 AAAATGAGAA
17982255 AAAAAAT
1 AAAAAAT
17982262 AAAAAAT
1 AAAAAAT
* *
17982269 GAAGAA-
1 AAAAAAT
*
17982275 AAAAATT
1 AAAAAAT
17982282 AAAAAATT
1 AAAAAA-T
17982290 AAAAAAGT
1 AAAAAA-T
*
17982298 GAAAAAGT
1 -AAAAAAT
17982306 GAAAAAAT
1 -AAAAAAT
*
17982314 AGAAAAT
1 AAAAAAT
* *
17982321 GAAAAAC
1 AAAAAAT
*
17982328 AAAAAGT
1 AAAAAAT
17982335 GAAAAAAT
1 -AAAAAAT
*
17982343 GAAAAAT
1 AAAAAAT
17982350 TGTAAAATGA
Statistics
Matches: 66, Mismatches: 18, Indels: 8
0.72 0.20 0.09
Matches are distributed among these distances:
6 3 0.05
7 36 0.55
8 22 0.33
9 5 0.08
ACGTcount: A:0.74, C:0.01, G:0.12, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:17982267 original size:19 final size:20
Alignment explanation
Indices: 17982243--17982288 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
17982233 AATTGATAAA
17982243 AAAAAATG-AGAAAAAAAAT
1 AAAAAATGAAGAAAAAAAAT
*
17982262 AAAAAATGAAGAAAAAAATT
1 AAAAAATGAAGAAAAAAAAT
17982282 AAAAAAT
1 AAAAAAT
17982289 TAAAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (20 bp):
AAAAAATGAAGAAAAAAAAT
Found at i:17982295 original size:19 final size:18
Alignment explanation
Indices: 17982243--17982295 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
17982233 AATTGATAAA
17982243 AAAAAATGAGAAAAAAAAT
1 AAAAAATGA-AAAAAAAAT
17982262 AAAAAATGAAGAAAAAAATT
1 AAAAAATGAA-AAAAAAA-T
*
17982282 AAAAAATTAAAAAA
1 AAAAAATGAAAAAA
17982296 GTGAAAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 20 0.65
20 10 0.32
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAAATGAAAAAAAAAT
Found at i:17982303 original size:37 final size:37
Alignment explanation
Indices: 17982253--17982348 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
17982243 AAAAAATGAG
* *
17982253 AAAAAAAA-T-AAAAAATGAAGAAA-A-AAATTAAAA
1 AAAAAAAAGTGAAAAAATGAAAAAATAGAAAATAAAA
* *
17982286 AATTAAAAAAGTGAAAAAGTGAAAAAATAGAAAATGAAA
1 AA--AAAAAAGTGAAAAAATGAAAAAATAGAAAATAAAA
*
17982325 AACAAAAAGTGAAAAAATGAAAAA
1 AAAAAAAAGTGAAAAAATGAAAAA
17982349 TTGTAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
33 2 0.04
35 6 0.12
36 1 0.02
37 32 0.63
38 1 0.02
39 9 0.18
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.12
Consensus pattern (37 bp):
AAAAAAAAGTGAAAAAATGAAAAAATAGAAAATAAAA
Found at i:17982345 original size:8 final size:8
Alignment explanation
Indices: 17982274--17982348 Score: 66
Period size: 8 Copynumber: 9.6 Consensus size: 8
17982264 AAAATGAAGA
*
17982274 AAAAAATT
1 AAAAAATG
*
17982282 AAAAAATT
1 AAAAAATG
17982290 AAAAAAGTG
1 AAAAAA-TG
*
17982299 AAAAAGTG
1 AAAAAATG
17982307 AAAAAAT-
1 AAAAAATG
*
17982314 AGAAAATG
1 AAAAAATG
*
17982322 -AAAAA-C
1 AAAAAATG
*
17982328 AAAAAGTG
1 AAAAAATG
17982336 AAAAAATG
1 AAAAAATG
17982344 AAAAA
1 AAAAA
17982349 TTGTAAAATG
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 14 0.26
8 34 0.63
9 6 0.11
ACGTcount: A:0.73, C:0.01, G:0.12, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:17983674 original size:42 final size:42
Alignment explanation
Indices: 17983452--17983786 Score: 215
Period size: 43 Copynumber: 7.8 Consensus size: 42
17983442 GATCTATAAG
* * * **
17983452 GCCTCTGCTTAGAAGAGCCTTATTTATTTTTTAAAAGTTGTTGA
1 GCCTTTGCTTAGAGGAGCCTTATTTA-TTTTTCAAAG-TCATGA
* * * * * * * *
17983496 GCCTCTACTTAAATGATCTTTATTTATTTTTCAAAGTTATTAA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCA-TGA
* * * * * *
17983539 ACATTTGTTTAAAAGAGCCTTATTTATTTTTTAAAGTCATGA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGA
*** * ** *
17983581 GCCTCAACTTAAAATAACCTTAATTT-TTTTTCAACA-TCATGA
1 GCCTTTGCTTAGAGGAGCCTT-ATTTATTTTTCAA-AGTCATGA
* * *
17983623 GCCTCTGCTTAGAGGTGCCTTATTTATTTTTCAAAGTCATAA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGA
* * * *
17983665 GCTTTTGCTTAGAGGAACCTTATTTATTTCTCAAAAGTTATGA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTC-AAAGTCATGA
* * * *
17983708 GCCTTTGTTTAGATGAGCTTTATTTACTTTTCAAAAGTCATTGA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTC-AAAGTCA-TGA
* * * *
17983752 GCCTTTACTTAGAGGTGCTTTATTTATTTCTCAAA
1 GCCTTTGCTTAGAGGAGCCTTATTTATTTTTCAAA
17983787 AGTTGTGAAA
Statistics
Matches: 226, Mismatches: 58, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
41 5 0.02
42 83 0.37
43 88 0.39
44 50 0.22
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (42 bp):
GCCTTTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGA
Found at i:17983684 original size:84 final size:85
Alignment explanation
Indices: 17983452--17983789 Score: 250
Period size: 85 Copynumber: 3.9 Consensus size: 85
17983442 GATCTATAAG
* * ** * * * * *
17983452 GCCTCTGCTTAGAAGAGCCTTATTTATTTTTTAAAAGTTGTTGAGCCTCTACTTAAATGATCTTT
1 GCCTCTGCTTAGAGGAGCCTTATTTA-TTTTTCAAAG-TCATGAGCCTTTACTTAGAGGAACCTT
* * *
17983517 ATTTATTTTTC-AAAGTTATTAA
64 ATTTATTTCTCAAAAGTCA-TGA
* * * * * * * ** * **
17983539 ACATTTGTTTAAAAGAGCCTTATTTATTTTTTAAAGTCATGAGCCTCAACTTAAAATAACCTTAA
1 GCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGAGCCTTTACTTAGAGGAACCTT-A
* *
17983604 TTT-TTTTTCAACA-TCATGA
65 TTTATTTCTCAAAAGTCATGA
* * * *
17983623 GCCTCTGCTTAGAGGTGCCTTATTTATTTTTCAAAGTCATAAGCTTTTGCTTAGAGGAACCTTAT
1 GCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGAGCCTTTACTTAGAGGAACCTTAT
*
17983688 TTATTTCTCAAAAGTTATGA
66 TTATTTCTCAAAAGTCATGA
* * * * * ** *
17983708 GCCTTTGTTTAGATGAGCTTTATTTACTTTTCAAAAGTCATTGAGCCTTTACTTAGAGGTGCTTT
1 GCCTCTGCTTAGAGGAGCCTTATTTATTTTTC-AAAGTCA-TGAGCCTTTACTTAGAGGAACCTT
17983773 ATTTATTTCTCAAAAGT
64 ATTTATTTCTCAAAAGT
17983790 TGTGAAACCT
Statistics
Matches: 198, Mismatches: 47, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
83 4 0.02
84 57 0.29
85 59 0.30
86 22 0.11
87 56 0.28
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (85 bp):
GCCTCTGCTTAGAGGAGCCTTATTTATTTTTCAAAGTCATGAGCCTTTACTTAGAGGAACCTTAT
TTATTTCTCAAAAGTCATGA
Found at i:17983772 original size:44 final size:42
Alignment explanation
Indices: 17983553--17983789 Score: 199
Period size: 42 Copynumber: 5.5 Consensus size: 42
17983543 TTGTTTAAAA
** *** * *
17983553 GAGCCTTATTTATTTTTTAAAGTCATGAGCCTCAACTTAAAA
1 GAGCCTTATTTATTTTCAAAAGTCATGAGCCTTTGCTTAGAG
* * * * *
17983595 TAACCTTAATTTTTTTTCAACA-TCATGAGCCTCTGCTTAGAG
1 GAGCCTT-ATTTATTTTCAAAAGTCATGAGCCTTTGCTTAGAG
* * *
17983637 GTGCCTTATTTATTTTTC-AAAGTCATAAGCTTTTGCTTAGAG
1 GAGCCTTATTTA-TTTTCAAAAGTCATGAGCCTTTGCTTAGAG
* * * *
17983679 GAACCTTATTTATTTCTCAAAAGTTATGAGCCTTTGTTTAGAT
1 GAGCCTTATTTATTT-TCAAAAGTCATGAGCCTTTGCTTAGAG
* *
17983722 GAGCTTTATTTACTTTTCAAAAGTCATTGAGCCTTTACTTAGAG
1 GAGCCTTATTTA-TTTTCAAAAGTCA-TGAGCCTTTGCTTAGAG
* *
17983766 GTGCTTTATTTATTTCTCAAAAGT
1 GAGCCTTATTTATTT-TCAAAAGT
17983790 TGTGAAACCT
Statistics
Matches: 155, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
41 9 0.06
42 59 0.38
43 51 0.33
44 36 0.23
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (42 bp):
GAGCCTTATTTATTTTCAAAAGTCATGAGCCTTTGCTTAGAG
Found at i:17983808 original size:44 final size:42
Alignment explanation
Indices: 17983673--17983808 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 42
17983663 AAGCTTTTGC
* * *
17983673 TTAGAGGAACCTTATTTATTTCTCAAAAGTTATGAGCCTTTGT
1 TTAGAGGAGCTTTATTTATTTCTCAAAAGTT-TGAGCCTTTAT
* *
17983716 TTAGATGAGCTTTATTTACTTT-TCAAAAGTCATTGAGCCTTTAC
1 TTAGAGGAGCTTTATTTA-TTTCTCAAAAGT--TTGAGCCTTTAT
* * *
17983760 TTAGAGGTGCTTTATTTATTTCTCAAAAGTTGTGAAACCTCTAT
1 TTAGAGGAGCTTTATTTATTTCTCAAAAGTT-TG-AGCCTTTAT
17983804 TTAGA
1 TTAGA
17983809 AGAGTTTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 28 0.36
44 47 0.61
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (42 bp):
TTAGAGGAGCTTTATTTATTTCTCAAAAGTTTGAGCCTTTAT
Found at i:17984278 original size:18 final size:20
Alignment explanation
Indices: 17984257--17984294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17984247 CTCTAAAAAA
*
17984257 TTTTT-AGATTTCGATGAAT
1 TTTTTCAGATTTCAATGAAT
17984276 TTTTTCAGATTTCAATGAA
1 TTTTTCAGATTTCAATGAA
17984295 GATTCTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTTTCAGATTTCAATGAAT
Found at i:17984877 original size:24 final size:24
Alignment explanation
Indices: 17984826--17984881 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
17984816 TCCAATGATG
*
17984826 AAATTTTTAGAAATTTTAAATAGT
1 AAATTTTTAGAAATTTTAAATAGA
* *
17984850 AAATTTTTATAAATTCTTAAGT-GA
1 AAATTTTTAGAAATT-TTAAATAGA
17984874 AAATTTTT
1 AAATTTTT
17984882 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (24 bp):
AAATTTTTAGAAATTTTAAATAGA
Found at i:17988401 original size:14 final size:15
Alignment explanation
Indices: 17988382--17988423 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
17988372 ACAATTTAGA
*
17988382 ATCAATCAAG-ATAT
1 ATCAATAAAGCATAT
17988396 ATCAATAAAGCATAT
1 ATCAATAAAGCATAT
* *
17988411 AGCAATTAAGCAT
1 ATCAATAAAGCAT
17988424 TTCAATATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (15 bp):
ATCAATAAAGCATAT
Found at i:17988997 original size:396 final size:396
Alignment explanation
Indices: 17988265--17989054 Score: 1131
Period size: 396 Copynumber: 2.0 Consensus size: 396
17988255 AAATATATAA
*
17988265 ACAATCAAGCTCATATATTTCAAAATCATGCAATTTATAACATATAATCAATTTCAATCAAATTT
1 ACAATCAAGCTCATATATTTCAAAATCATGCAAATTATAACATATAATCAATTTCAATCAAATTT
* * * * *
17988330 GCAATATCAATATGGCATATATGGGCATTTATTTTCTTCAAAACAATTTAGAATCAATCAAGATA
66 GCAATATCAAAATAGCATATATAGGCATATATTTTCTTCAAAACAATTTAGAATCAATCAAGAAA
* *
17988395 TATCAATAAAGCATATAGCAATTAAGCATTTCAATATTCAATCCAAAATAGGCAACCAATTTCAA
131 TATCAATAAAGCATATAACAATTAAGCACTTCAATATTCAATCCAAAATAGGCAACCAATTTCAA
*
17988460 ATTCACTTCAAATAAAAATTTAAAAGTTACCATTTCCATTATGTGTATAAAGTATCCAATCTTCA
196 ATTCACTTCAAATAAAAATTTAAAAGTTACCATCTCCATTATGTGTATAAAGTATCCAATCTTCA
* * *
17988525 AAAGCATATTATAGCTCCATACTCTAGCACACCTATAAAAAAACATTACTTATATGATTTTTAGT
261 AAAGCACATTATAGATCCATACTCTAGCACACCTATAAAAAAACATTACTCATATGATTTTTAGT
* * * ** *
17988590 ACCCAAATTACTTTAAG-TCCTTGAAAGTTAGTGACTAAGTCTCTAGTTTCTTTTGGAACCCATA
326 ACCCAAATTACTTTAGGCT-CTTGAAAGTTAGTGACCAAGACTCTAGTGCCTTTTCGAACCCATA
17988654 CTTGTAC
390 CTTGTAC
* * * *
17988661 ACAATCAAGCTCATATTTTTTAAAATCATTCAAATTATAACATATAATCAATTTTAATCAAATTT
1 ACAATCAAGCTCATATATTTCAAAATCATGCAAATTATAACATATAATCAATTTCAATCAAATTT
** * * *
17988726 GTGATATCAAAATAGCATATATAGGCATATATTTTTTTCACAATAATTTAGAATCAATCAAGAAA
66 GCAATATCAAAATAGCATATATAGGCATATATTTTCTTCAAAACAATTTAGAATCAATCAAGAAA
* * *
17988791 TATCAATAAAGCATATAACAATTAAGCACTTCAATATTCAATCTAGAATATGCAACCAAATTT-A
131 TATCAATAAAGCATATAACAATTAAGCACTTCAATATTCAATCCAAAATAGGCAACC-AATTTCA
* * * *
17988855 AATTCA-TGTCAAATAAAAATTTAGAGGTTATTCATCTCCATTATGTGTTTAAAGTATCCAAT-T
195 AATTCACT-TCAAATAAAAATTTAAAAGTTA-CCATCTCCATTATGTGTATAAAGTATCCAATCT
* * * * * *
17988918 TGCAAAAGTACATTATAGATCCTTTCTCTAGCACACCTAT-AAGATACATTACTCATTTGATTTT
258 T-CAAAAGCACATTATAGATCCATACTCTAGCACACCTATAAAAAAACATTACTCATATGATTTT
*
17988982 TAGTACCCAAATTACTTTAGGCTCTTGATAGTTAGTGACCAAGACTCTAGTGCCTTTTCGAACCC
322 TAGTACCCAAATTACTTTAGGCTCTTGAAAGTTAGTGACCAAGACTCTAGTGCCTTTTCGAACCC
17989047 ATACTTGT
387 ATACTTGT
17989055 CTAATTCTAA
Statistics
Matches: 348, Mismatches: 41, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
395 1 0.00
396 280 0.80
397 67 0.19
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (396 bp):
ACAATCAAGCTCATATATTTCAAAATCATGCAAATTATAACATATAATCAATTTCAATCAAATTT
GCAATATCAAAATAGCATATATAGGCATATATTTTCTTCAAAACAATTTAGAATCAATCAAGAAA
TATCAATAAAGCATATAACAATTAAGCACTTCAATATTCAATCCAAAATAGGCAACCAATTTCAA
ATTCACTTCAAATAAAAATTTAAAAGTTACCATCTCCATTATGTGTATAAAGTATCCAATCTTCA
AAAGCACATTATAGATCCATACTCTAGCACACCTATAAAAAAACATTACTCATATGATTTTTAGT
ACCCAAATTACTTTAGGCTCTTGAAAGTTAGTGACCAAGACTCTAGTGCCTTTTCGAACCCATAC
TTGTAC
Found at i:17993348 original size:25 final size:25
Alignment explanation
Indices: 17993320--17993372 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 25
17993310 ATTACATGAA
17993320 GTCAACCAACCTTAACAAATAACTT
1 GTCAACCAACCTTAACAAATAACTT
17993345 GT----CAACCTTAACAAATAACTT
1 GTCAACCAACCTTAACAAATAACTT
17993366 GTCAACC
1 GTCAACC
17993373 TAGACCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
21 21 0.88
25 3 0.12
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (25 bp):
GTCAACCAACCTTAACAAATAACTT
Found at i:17993352 original size:21 final size:21
Alignment explanation
Indices: 17993326--17993373 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
17993316 TGAAGTCAAC
17993326 CAACCTTAACAAATAACTTGT
1 CAACCTTAACAAATAACTTGT
17993347 CAACCTTAACAAATAACTTGT
1 CAACCTTAACAAATAACTTGT
17993368 CAACCT
1 CAACCT
17993374 AGACCACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (21 bp):
CAACCTTAACAAATAACTTGT
Found at i:17997300 original size:9 final size:9
Alignment explanation
Indices: 17997286--17997338 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
17997276 ATTTAATTTT
17997286 TATTTTAAA
1 TATTTTAAA
17997295 TATTTTAAA
1 TATTTTAAA
17997304 TA--TT-AA
1 TATTTTAAA
17997310 TATTTCT-AA
1 TATTT-TAAA
17997319 TATTTTAATA
1 TATTTTAA-A
17997329 TACTTTTAAA
1 TA-TTTTAAA
17997339 CAAATTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
8 2 0.05
9 20 0.53
10 4 0.11
11 6 0.16
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTTTAAA
Found at i:17997311 original size:15 final size:17
Alignment explanation
Indices: 17997293--17997329 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17997283 TTTTATTTTA
17997293 AATATTT-TAA-ATATT
1 AATATTTCTAATATATT
*
17997308 AATATTTCTAATATTTT
1 AATATTTCTAATATATT
17997325 AATAT
1 AATAT
17997330 ACTTTTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 3 0.16
17 9 0.47
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTTCTAATATATT
Found at i:17998215 original size:45 final size:46
Alignment explanation
Indices: 17998164--17998250 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
17998154 TGTTAACTTT
* *
17998164 TTTGTTTTTTTTTA-ATTAGATAAATTTTGTAACAAATTAATATCA
1 TTTGTTTTTTTTTATATTAGATAAATTTTATAACAAAATAATATCA
17998209 TTTGTTTTTTTTTATATTAGATAAATTTTATAACAAAATAAT
1 TTTGTTTTTTTTTATATTAGATAAATTTTATAACAAAATAAT
17998251 CTAATTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 14 0.36
46 25 0.64
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (46 bp):
TTTGTTTTTTTTTATATTAGATAAATTTTATAACAAAATAATATCA
Done.