Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 33 of 161
Found at i:10162870 original size:34 final size:34
Alignment explanation
Indices: 10162729--10162904 Score: 125
Period size: 34 Copynumber: 5.2 Consensus size: 34
10162719 AAAATTATGC
10162729 TATGTAAGTTATGTAAGTCATATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--TATAAGTTATGTAAAT
* *
10162763 TATGTAAGTTATGTAAGTTATTTA-TTATGCAAAT
1 TATGTAAGTTATGTAAGTTA-TAAGTTATGTAAAT
* * * *
10162797 TAAGTAAGTTATGTAATTTATGAA-TAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTAT-AAGTTATGT-AAAT
* * *
10162831 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATAAGTTATGTAAAT
* *
10162865 TATGTATA-ATAT-TAA-TTAACTAAGTTATGTAATT
1 TATGTA-AGTTATGTAAGTT-A-TAAGTTATGTAAAT
10162899 TATGTA
1 TATGTA
10162905 TAATATTAAT
Statistics
Matches: 113, Mismatches: 19, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
32 9 0.08
33 8 0.07
34 94 0.83
35 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (34 bp):
TATGTAAGTTATGTAAGTTATAAGTTATGTAAAT
Found at i:10162892 original size:84 final size:84
Alignment explanation
Indices: 10162751--10162908 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 84
10162741 GTAAGTCATA
* * * * *
10162751 TAAGTTATGTATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTAATTT
1 TAAGTTATGTAGTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAATTT
10162816 ATGAATAATTAAAAAAATG
66 ATGAATAATTAAAAAAATG
**
10162835 TAAGTTATGTAAGT-TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATT
1 TAAGTTATGT-AGTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAATT
*
10162899 TATGTATAAT
65 TATGAATAAT
10162909 ATTAATGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
84 63 0.97
85 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (84 bp):
TAAGTTATGTAGTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAATTT
ATGAATAATTAAAAAAATG
Found at i:10162905 original size:34 final size:34
Alignment explanation
Indices: 10162851--10163343 Score: 334
Period size: 38 Copynumber: 14.4 Consensus size: 34
10162841 ATGTAAGTTG
* *
10162851 TAAGTTATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
10162885 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
10162916 TAAGTTATGTAATTTATG--T-ATATTAACTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
10162947 TAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 TAAGTTATGTAATTTATGTATAATATTAAT-TAA-T
* * * * *
10162983 TATGTATAATATTAATTAAT-TA-AGTTATGTAATTTAT
1 TAAGT-T-AT-GTAATTTATGTATA-ATAT-TAATTAAT
*
10163020 GTATA-ATAT-TAATGTAAGTTATGTATAATATTAATTAAT
1 -TA-AGTTATGTAA--T---TTATGTATAATATTAATTAAT
*
10163059 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
10163090 TAAGTTATGT-A--TA-ATATTA-ATTAATTAAGT
1 TAAGTTATGTAATTTATGTATAATATTAATTAA-T
* * * * * *
10163120 TATGTAAT-TTATGTAT-AATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTATAAT-ATTAATTAAT
10163153 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAAT
10163191 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAAT
10163229 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAAT
10163267 TAAGTTATGTAATTTATGTATAATATTAATGT-A-
1 TAAGTTATGTAATTTATGTATAATATTAAT-TAAT
* * **
10163300 T--GTTATGTAATTTATGAATAAT-TAAAAAAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
10163331 GTAAGTTATGTAA
1 -TAAGTTATGTAA
10163344 GTTGTAAGTT
Statistics
Matches: 380, Mismatches: 34, Indels: 90
0.75 0.07 0.18
Matches are distributed among these distances:
26 5 0.01
27 5 0.01
28 9 0.02
29 3 0.01
30 12 0.03
31 66 0.17
32 5 0.01
33 11 0.03
34 85 0.22
35 7 0.02
36 10 0.03
37 7 0.02
38 125 0.33
39 24 0.06
40 5 0.01
41 1 0.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAT
Found at i:10162922 original size:56 final size:56
Alignment explanation
Indices: 10162857--10163258 Score: 516
Period size: 56 Copynumber: 7.0 Consensus size: 56
10162847 GTTGTAAGTT
*
10162857 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
*
10162913 ATGTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
10162975 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
10163031 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
10163087 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* * * * *
10163143 AT-TAA-TTAAT-TA-AGTTATGTAATTTATGTATA-ATAT-TAATTAAT-TAATTAA-GTT-
1 ATGTAAGTT-ATGTATA-ATAT-TAATTAAT-TA-AGTTATGTAATTTATGT-A-TAATATTA
*
10163197 ATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
10163257 AT
1 AT
10163259 TAATTAATTA
Statistics
Matches: 307, Mismatches: 14, Indels: 46
0.84 0.04 0.13
Matches are distributed among these distances:
53 1 0.00
54 10 0.03
55 27 0.09
56 178 0.58
57 3 0.01
58 9 0.03
59 22 0.07
60 5 0.02
61 1 0.00
62 51 0.17
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:10162923 original size:22 final size:22
Alignment explanation
Indices: 10162891--10162998 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 22
10162881 TAACTAAGTT
*
10162891 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10162913 ATGTAAGTTATG--TAAT-TT-
1 ATGTAAGTTATGTATAATATTA
** *
10162931 ATGTATA-TTAACTAATTAA-GTT-
1 ATGTA-AGTTATGT-A-TAATATTA
*
10162953 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10162975 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10162997 AT
1 AT
10162999 TAATTAAGTT
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
18 8 0.11
19 3 0.04
20 7 0.10
21 4 0.06
22 48 0.69
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:10163041 original size:22 final size:22
Alignment explanation
Indices: 10163009--10163054 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10162999 TAATTAAGTT
*
10163009 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10163031 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10163053 AT
1 AT
10163055 TAATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:10163097 original size:22 final size:22
Alignment explanation
Indices: 10163065--10163110 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10163055 TAATTAAGTT
*
10163065 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10163087 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
10163109 AT
1 AT
10163111 TAATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:10163114 original size:4 final size:4
Alignment explanation
Indices: 10163105--10163269 Score: 58
Period size: 4 Copynumber: 39.2 Consensus size: 4
10163095 TATGTATAAT
* *
10163105 ATTA ATTA ATTA AGTT- ATGTA ATTT ATGTA TAATA -TTA ATTA ATTA
1 ATTA ATTA ATTA A-TTA AT-TA ATTA AT-TA -ATTA ATTA ATTA ATTA
* *
10163151 ATTA AGTT- ATGTA ATTT ATGT- ATAA TATTA ATTA ATTA ATTA AGTT-
1 ATTA A-TTA AT-TA ATTA AT-TA ATTA -ATTA ATTA ATTA ATTA A-TTA
* * *
10163197 ATGTA ATTT ATGT- ATAA TATTA ATTA ATTA ATTA AGTT- ATGTA ATTT
1 AT-TA ATTA AT-TA ATTA -ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA
*
10163244 ATGT- ATAA TATTA ATTA ATTA ATTA A
1 AT-TA ATTA -ATTA ATTA ATTA ATTA A
10163270 GTTATGTAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 48
0.67 0.07 0.26
Matches are distributed among these distances:
3 6 0.05
4 86 0.69
5 31 0.25
6 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:10163171 original size:9 final size:9
Alignment explanation
Indices: 10162729--10163315 Score: 120
Period size: 9 Copynumber: 63.4 Consensus size: 9
10162719 AAAATTATGC
*
10162729 TATGTAAGT
1 TATGTAATT
*
10162738 TATGTAAGT
1 TATGTAATT
* * *
10162747 CATATAAGT
1 TATGTAATT
10162756 TATGT-A-T
1 TATGTAATT
*
10162763 TATGTAAGT
1 TATGTAATT
*
10162772 TATGTAAGT
1 TATGTAATT
*
10162781 TAT-TTA-T
1 TATGTAATT
* *
10162788 TATGCAAAT
1 TATGTAATT
* *
10162797 TAAGTAAGT
1 TATGTAATT
10162806 TATGTAATT
1 TATGTAATT
10162815 TATG-AA-T
1 TATGTAATT
* **
10162822 AAT-TAAAAA
1 TATGT-AATT
* *
10162831 AATGTAAGT
1 TATGTAATT
*
10162840 TATGTAA-G
1 TATGTAATT
*
10162848 T-TGTAAGT
1 TATGTAATT
*
10162856 TATGTAAGT
1 TATGTAATT
*
10162865 TATGT-ATAA
1 TATGTAAT-T
10162874 TAT-TAA-T
1 TATGTAATT
** *
10162881 TAACTAAGT
1 TATGTAATT
10162890 TATGTAATT
1 TATGTAATT
10162899 TATGTATAATAT
1 TATG--TAAT-T
*
10162911 TAATGTAAGT
1 T-ATGTAATT
10162921 TATGTAATT
1 TATGTAATT
10162930 TATGTATATT
1 TATGTA-ATT
*
10162940 AACTAAT-TAAGT
1 ---T-ATGTAATT
10162952 TATGTAATT
1 TATGTAATT
10162961 TATGTATAATAT
1 TATG--TAAT-T
*
10162973 TAATGTAAGT
1 T-ATGTAATT
*
10162983 TATGT-ATAA
1 TATGTAAT-T
10162992 TAT-TAATT
1 TATGTAATT
* *
10163000 AAT-TAAGT
1 TATGTAATT
10163008 TATGTAATT
1 TATGTAATT
10163017 TATGTATAATAT
1 TATG--TAAT-T
*
10163029 TAATGTAAGT
1 T-ATGTAATT
*
10163039 TATGT-ATAA
1 TATGTAAT-T
10163048 TAT-TAATT
1 TATGTAATT
* *
10163056 AAT-TAAGT
1 TATGTAATT
10163064 TATGTAATT
1 TATGTAATT
10163073 TATGTATAATAT
1 TATG--TAAT-T
*
10163085 TAATGTAAGT
1 T-ATGTAATT
*
10163095 TATGT-ATAA
1 TATGTAAT-T
10163104 TAT-TAATT
1 TATGTAATT
* *
10163112 AAT-TAAGT
1 TATGTAATT
10163120 TATGTAATT
1 TATGTAATT
10163129 TATGTATAATAT
1 TATG--TAAT-T
10163141 TAAT-TAATT
1 T-ATGTAATT
* *
10163150 AAT-TAAGT
1 TATGTAATT
10163158 TATGTAATT
1 TATGTAATT
10163167 TATGTATAATAT
1 TATG--TAAT-T
10163179 TAAT-TAATT
1 T-ATGTAATT
* *
10163188 AAT-TAAGT
1 TATGTAATT
10163196 TATGTAATT
1 TATGTAATT
10163205 TATGTATAATAT
1 TATG--TAAT-T
10163217 TAAT-TAATT
1 T-ATGTAATT
* *
10163226 AAT-TAAGT
1 TATGTAATT
10163234 TATGTAATT
1 TATGTAATT
10163243 TATGTATAATAT
1 TATG--TAAT-T
10163255 TAAT-TAATT
1 T-ATGTAATT
* *
10163264 AAT-TAAGT
1 TATGTAATT
10163272 TATGTAATT
1 TATGTAATT
10163281 TATGTATAATAT
1 TATG--TAAT-T
10163293 TAATGT-ATGT
1 T-ATGTAAT-T
10163303 TATGTAATT
1 TATGTAATT
10163312 TATG
1 TATG
10163316 AATAATTAAA
Statistics
Matches: 437, Mismatches: 71, Indels: 140
0.67 0.11 0.22
Matches are distributed among these distances:
7 20 0.05
8 80 0.18
9 206 0.47
10 34 0.08
11 49 0.11
12 20 0.05
13 26 0.06
14 2 0.00
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.48
Consensus pattern (9 bp):
TATGTAATT
Found at i:10167733 original size:16 final size:17
Alignment explanation
Indices: 10167707--10167738 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10167697 CTAACCCCTA
10167707 AATTAACCTTAAATCTC
1 AATTAACCTTAAATCTC
10167724 AATT-ACCTTAAATCT
1 AATTAACCTTAAATCT
10167739 ATACCCCGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAACCTTAAATCTC
Found at i:10168275 original size:41 final size:41
Alignment explanation
Indices: 10168148--10168385 Score: 182
Period size: 41 Copynumber: 5.8 Consensus size: 41
10168138 TTTTGTTACT
* * *
10168148 ATTAGCGGCGCTTC-GGTAAAAACGCCGCTAAAGGT-CAATAC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGATCCAA-GC
* * * * * * *
10168189 ATTAGTGGTGCTTAGATACAAACGCCGCTGAAGA-CAAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCA-AGC
* *
10168230 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCAAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCAAGC
* * *
10168271 ATTAGCGGCGCAT-AGACAAAAACACCGCTAAAGA-CTCGAGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGATC-CAAGC
* * *
10168312 ATTAGCGACGC-CTACACAAAAACGCCGCTAAAGATCCAAGC
1 ATTAGCGGCGCTC-AGATAAAAACGCCGCTAAAGATCCAAGC
* * * *
10168353 ATTAGCGGCGCTTACACAAAAACGCCACTAAAG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG
10168386 GTTTAAAAAA
Statistics
Matches: 158, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.01
41 151 0.96
42 5 0.03
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCAAGC
Found at i:10168299 original size:82 final size:82
Alignment explanation
Indices: 10168164--10168385 Score: 234
Period size: 82 Copynumber: 2.7 Consensus size: 82
10168154 GGCGCTTCGG
* * * * * * * *
10168164 TAAAAACGCCGCTAAAGGT-CAATACATTAGTGGTGCTTAGATACAAACGCCGCTGAAGACAAGA
1 TAAAAACGCCGCTAAAGATCCAA-GCATTAGCGGCGCTTAGACAAAAACACCGCTAAAGACAAGA
* *
10168228 GAATTAGTGGCG-CT-CA
65 GAATTAGCGACGCCTACA
* **
10168244 GTTAAAAACGCCGCTAAAGATCCAAGCATTAGCGGCGCATAGACAAAAACACCGCTAAAGACTCG
1 --TAAAAACGCCGCTAAAGATCCAAGCATTAGCGGCGCTTAGACAAAAACACCGCTAAAGACAAG
*
10168309 AGCATTAGCGACGCCTACA
64 AGAATTAGCGACGCCTACA
* * * *
10168328 CAAAAACGCCGCTAAAGATCCAAGCATTAGCGGCGCTTACACAAAAACGCCACTAAAG
1 TAAAAACGCCGCTAAAGATCCAAGCATTAGCGGCGCTTAGACAAAAACACCGCTAAAG
10168386 GTTTAAAAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 111 0.94
83 5 0.04
84 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (82 bp):
TAAAAACGCCGCTAAAGATCCAAGCATTAGCGGCGCTTAGACAAAAACACCGCTAAAGACAAGAG
AATTAGCGACGCCTACA
Found at i:10168555 original size:40 final size:40
Alignment explanation
Indices: 10168443--10168558 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
10168433 GCGCTTTATG
* * *
10168443 TAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCCGGA
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTT-TGGA
** *
10168483 T-AATCGCCGCTGAA-GCTCTACCTGTAGCGGCGCTTTGGA
1 TAAATCGCCGCT-AATGCTCTATTTTTAGCGGCGCTTTGGA
* * *
10168522 TAAATCGCCGCTAATGCTCGATTTTTTGTGGCGCTTT
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTT
10168559 TGTTCCAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
39 16 0.27
40 44 0.73
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (40 bp):
TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGGA
Found at i:10173589 original size:21 final size:19
Alignment explanation
Indices: 10173565--10173625 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 19
10173555 GAAACCCTAG
10173565 CCTTGTCTTTCTCCTTTCTTT
1 CCTT-TCTTT-TCCTTTCTTT
* *
10173586 CCTTCCCTTTTTCTTTTCTTT
1 CCTT-TC-TTTTCCTTTCTTT
10173607 CCTTTCTGTTT-CTTTCTTT
1 CCTTTCT-TTTCCTTTCTTT
10173626 TTCGTTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 18 0.55
22 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (19 bp):
CCTTTCTTTTCCTTTCTTT
Found at i:10173658 original size:10 final size:10
Alignment explanation
Indices: 10173592--10173659 Score: 57
Period size: 10 Copynumber: 6.4 Consensus size: 10
10173582 CTTTCCTTCC
10173592 CTTTTTCTTT
1 CTTTTTCTTT
*
10173602 -TCTTTCCTTT
1 CT-TTTTCTTT
*
10173612 CTGTTTCTTT
1 CTTTTTCTTT
10173622 CTTTTTCGTTT
1 CTTTTTC-TTT
*
10173633 GTTGTTTCTATTT
1 CTT-TTTC--TTT
10173646 CTTTTTCTTT
1 CTTTTTCTTT
10173656 CTTT
1 CTTT
10173660 ATTTGTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 1 0.02
10 26 0.57
11 6 0.13
12 8 0.17
13 5 0.11
ACGTcount: A:0.01, C:0.19, G:0.06, T:0.74
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:10177142 original size:25 final size:25
Alignment explanation
Indices: 10177114--10177163 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10177104 CCACAACTTT
* *
10177114 CATGAGCTTCCTGATATTTAGCTCG
1 CATGAGCTTCCCGATATTCAGCTCG
*
10177139 CATGAGCTTCCCGTTATTCAGCTCG
1 CATGAGCTTCCCGATATTCAGCTCG
10177164 GAGGACCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (25 bp):
CATGAGCTTCCCGATATTCAGCTCG
Found at i:10179182 original size:57 final size:57
Alignment explanation
Indices: 10179119--10179234 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
10179109 TTGGCTATAG
10179119 ATATGTATTTGTGACATAAAAAAAATTAACTTTTGGTTGCTATAATTATAATATAAT
1 ATATGTATTTGTGACATAAAAAAAATTAACTTTTGGTTGCTATAATTATAATATAAT
10179176 ATATGTATTTGTGACATAAAAAAAATTAACTTTTGGTTGCTATAATTATAATATAAT
1 ATATGTATTTGTGACATAAAAAAAATTAACTTTTGGTTGCTATAATTATAATATAAT
10179233 AT
1 AT
10179235 TATTTGTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (57 bp):
ATATGTATTTGTGACATAAAAAAAATTAACTTTTGGTTGCTATAATTATAATATAAT
Found at i:10180063 original size:22 final size:22
Alignment explanation
Indices: 10180038--10180089 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
10180028 TTCCTTAAGG
10180038 GTTTGCATATATAACAAATAAA
1 GTTTGCATATATAACAAATAAA
*
10180060 GTTTACATATATAACAAATAAA
1 GTTTGCATATATAACAAATAAA
10180082 GTTTGCAT
1 GTTTGCAT
10180090 GTTATCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (22 bp):
GTTTGCATATATAACAAATAAA
Found at i:10180285 original size:14 final size:13
Alignment explanation
Indices: 10180272--10180304 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10180262 TCACACATAG
10180272 GGGTTCGTCTATA
1 GGGTTCGTCTATA
*
10180285 GGGTTAGTCTATA
1 GGGTTCGTCTATA
10180298 GGGTTCG
1 GGGTTCG
10180305 CACATATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.36, T:0.36
Consensus pattern (13 bp):
GGGTTCGTCTATA
Found at i:10180405 original size:34 final size:34
Alignment explanation
Indices: 10180366--10180472 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
10180356 CAGTTCACTA
10180366 TGTCATACTATATAACATGAGGGTTCACATACTC
1 TGTCATACTATATAACATGAGGGTTCACATACTC
* ** * *
10180400 TGTCATACTATACAACAT-AGAATTTCGCATACTT
1 TGTCATACTATATAACATGAG-GGTTCACATACTC
* * * * *
10180434 TTTCATTCTATGTAACGTGAGGGTTCACATACTG
1 TGTCATACTATATAACATGAGGGTTCACATACTC
10180468 TGTCA
1 TGTCA
10180473 CGCTTTGTCA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
33 2 0.04
34 52 0.93
35 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (34 bp):
TGTCATACTATATAACATGAGGGTTCACATACTC
Found at i:10181317 original size:19 final size:18
Alignment explanation
Indices: 10181297--10181331 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10181287 ATTGTTTAAT
10181297 TTTA-ATTAATTAGTCTAA
1 TTTACATTAATTA-TCTAA
10181315 TTTACATTAATTATCTA
1 TTTACATTAATTATCTA
10181332 TCAATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTACATTAATTATCTAA
Found at i:10182996 original size:18 final size:18
Alignment explanation
Indices: 10182969--10183004 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10182959 ATACTATAGC
*
10182969 ACATACTATAATAATTAT
1 ACATAATATAATAATTAT
*
10182987 ACATAATATATTAATTAT
1 ACATAATATAATAATTAT
10183005 TATATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ACATAATATAATAATTAT
Found at i:10183068 original size:5 final size:5
Alignment explanation
Indices: 10183058--10183099 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
10183048 CCCTCCTACT
*
10183058 ATATA ATATA ATATA ATATA GTATA ATATCA TATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATAT-A -ATATA ATATA
10183100 TTAGTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 27 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:10183584 original size:24 final size:20
Alignment explanation
Indices: 10183539--10183578 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10183529 CGTAAATATT
10183539 TTTAATAAATATTTACGAAG
1 TTTAATAAATATTTACGAAG
10183559 TTTAATAAATATTTACGAAG
1 TTTAATAAATATTTACGAAG
10183579 CTAGTTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTAATAAATATTTACGAAG
Found at i:10183791 original size:5 final size:5
Alignment explanation
Indices: 10183781--10183858 Score: 90
Period size: 5 Copynumber: 15.6 Consensus size: 5
10183771 AATTAAAATA
*
10183781 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-ACT TA-A- TAAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT TATAT
*
10183829 AAGTAAT TATAT TATAT TATAT TATAT TAT
1 TA-T-AT TATAT TATAT TATAT TATAT TAT
10183859 TATATAAACA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 57 0.88
6 1 0.02
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:10184872 original size:25 final size:25
Alignment explanation
Indices: 10184820--10184874 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10184810 CCTTAGTGCA
* * **
10184820 CTCTCTGATTATTAGCACGTTGGAG
1 CTCTCTGATTACTAGCACATCAGAG
*
10184845 CTCTCTGATTACTAGCACATCAGTG
1 CTCTCTGATTACTAGCACATCAGAG
10184870 CTCTC
1 CTCTC
10184875 CGTTTAGCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (25 bp):
CTCTCTGATTACTAGCACATCAGAG
Found at i:10184885 original size:22 final size:21
Alignment explanation
Indices: 10184857--10184918 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
10184847 CTCTGATTAC
*
10184857 TAGCACATCAGTGCTCTCCGTT
1 TAGCACAT-AGTGCTCTCCGTA
**
10184879 TAGCACATATGTGCTCTTTGTA
1 TAGCACATA-GTGCTCTCCGTA
*
10184901 TAGCACTTTAGTGCTCTC
1 TAGCAC-ATAGTGCTCTC
10184919 TGTTCATTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (21 bp):
TAGCACATAGTGCTCTCCGTA
Found at i:10197027 original size:19 final size:18
Alignment explanation
Indices: 10196981--10197016 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10196971 ATATTTGATC
10196981 ATTATATTTGT-ATAATTT
1 ATTATATTT-TCATAATTT
10196999 ATTATATTTTCATAATTT
1 ATTATATTTTCATAATTT
10197017 TATGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATATTTTCATAATTT
Found at i:10197051 original size:12 final size:12
Alignment explanation
Indices: 10197024--10197062 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10197014 TTTTATGTAA
*
10197024 TTTTAAAACTATT
1 TTTTAAAA-TAAT
10197037 TTTTAAAATAAT
1 TTTTAAAATAAT
*
10197049 TTTTAAAAAAAT
1 TTTTAAAATAAT
10197061 TT
1 TT
10197063 CCAAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:10210955 original size:6 final size:6
Alignment explanation
Indices: 10210946--10210975 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10210936 ACTAAACTTC
10210946 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
10210976 CATATTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:10213538 original size:31 final size:31
Alignment explanation
Indices: 10213493--10213587 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
10213483 TGAATTTAAA
*
10213493 TGTATATGTTTTATACATTGCCGAATTTGATT
1 TGTATATG-GTTATACATTGCCGAATTTGATT
* *
10213525 TGTATATGGTTATACATTGGCTAATTTGATT
1 TGTATATGGTTATACATTGCCGAATTTGATT
* *
10213556 TGTATATGGATATATATTGCCGAA-TTGATT
1 TGTATATGGTTATACATTGCCGAATTTGATT
10213586 TG
1 TG
10213588 AGCATTGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 8 0.14
31 40 0.71
32 8 0.14
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.47
Consensus pattern (31 bp):
TGTATATGGTTATACATTGCCGAATTTGATT
Found at i:10213760 original size:43 final size:43
Alignment explanation
Indices: 10213707--10213852 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
10213697 CGAGGTGTGG
* *
10213707 TTTCATGTAAGACCAT-GTCTGGGCTATTGACATCAATTTGAGA
1 TTTCATGTAAGACCATAG-CTGGGCTATTGGCATCGATTTGAGA
* * *
10213750 TTTCGTGTAAGACAATAGCTAGGCTATTGGCATCGATTTGAGA
1 TTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGA
* * ***
10213793 TTTCGTATAAGACCATAGCTGGGCTATTGGCATCGATACAAGA
1 TTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGA
10213836 TTTCCATGTAAGACCAT
1 TTT-CATGTAAGACCAT
10213853 GTCTGGGACA
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 76 0.86
44 12 0.14
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGA
Found at i:10216610 original size:10 final size:11
Alignment explanation
Indices: 10216595--10216653 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
10216585 TAAGATGACT
10216595 ATATAAAA-AA
1 ATATAAAATAA
*
10216605 ATATAAAA-AT
1 ATATAAAATAA
10216615 AT-TAAATATTAA
1 ATATAAA-A-TAA
10216627 ATATTAAAATAA
1 ATA-TAAAATAA
10216639 A-ATAAAATAA
1 ATATAAAATAA
10216649 ATATA
1 ATATA
10216654 TTTTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 4 0.10
10 21 0.51
11 4 0.10
12 7 0.17
13 1 0.02
14 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATATAAAATAA
Found at i:10216623 original size:15 final size:15
Alignment explanation
Indices: 10216603--10216640 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10216593 CTATATAAAA
10216603 AAATATAAAAATATT
1 AAATATAAAAATATT
*
10216618 AAATAT-TAAATATT
1 AAATATAAAAATATT
10216632 AAA-ATAAAA
1 AAATATAAAA
10216641 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 12 0.60
15 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATAAAAATATT
Found at i:10229440 original size:41 final size:41
Alignment explanation
Indices: 10229352--10229488 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
10229342 TACACCAGCT
* * * * * *
10229352 TTAAGCCCGCTAGACTTATAGTCCGAATTTATTTTACCGGCA
1 TTAAGCCTGCTAGACGTAAAGTCTGAATTT-TTTTACTGGAA
10229394 TTAAGCCTGCTAGACGTAAAGTCTGAATTTTTTTACTGGAA
1 TTAAGCCTGCTAGACGTAAAGTCTGAATTTTTTTACTGGAA
** *
10229435 TTAAGCCTGCTAGACGTAAAGTCTGAATGGTTTCACTGGCAA
1 TTAAGCCTGCTAGACGTAAAGTCTGAATTTTTTTACTGG-AA
*
10229477 -CAAGCCTGCTAG
1 TTAAGCCTGCTAG
10229489 GTACTGAGTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 56 0.67
42 28 0.33
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
TTAAGCCTGCTAGACGTAAAGTCTGAATTTTTTTACTGGAA
Found at i:10229942 original size:21 final size:22
Alignment explanation
Indices: 10229900--10229942 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
10229890 TACCTGTACG
** *
10229900 TATATATATACATATTTGAATT
1 TATATATATACATAAATAAATT
10229922 TATA-ATATACATAAATAAATT
1 TATATATATACATAAATAAATT
10229943 CATACTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATATATACATAAATAAATT
Found at i:10233380 original size:30 final size:30
Alignment explanation
Indices: 10233344--10233426 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
10233334 ATCCAATGCT
*
10233344 CAAATCAATTCGACAATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
*
10233374 CAAATCAATTCGGCCATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
* *
10233404 CAAATAAATTCGGGAATATATAT
1 CAAATCAATTCGGCAATATATAT
10233427 GTATACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:10233431 original size:28 final size:30
Alignment explanation
Indices: 10233344--10233447 Score: 118
Period size: 30 Copynumber: 3.3 Consensus size: 30
10233334 ATCCAATGCT
* * *
10233344 CAAATCAATTCGACAATATATATACATATA
1 CAAATAAATTCGGCCATATATATACATATA
*
10233374 CAAATCAATTCGGCCATATATATACATATA
1 CAAATAAATTCGGCCATATATATACATATA
**
10233404 CAAATAAATTCGGGAATATATATGTATACATATA
1 CAAATAAATTC-GG-CCATATA--TATACATATA
10233438 CAAATAAATT
1 CAAATAAATT
10233448 TAAAAACATT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 38 0.58
31 2 0.03
32 5 0.08
34 20 0.31
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
CAAATAAATTCGGCCATATATATACATATA
Found at i:10236963 original size:13 final size:13
Alignment explanation
Indices: 10236898--10236963 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
10236888 TTTAAACCAA
* *
10236898 ACTTTTCAAAAAC
1 ACTTTTCCAAAGC
* *
10236911 ACTTCTCAAAAGC
1 ACTTTTCCAAAGC
* *
10236924 ACTTTTCCACAGT
1 ACTTTTCCAAAGC
**
10236937 ACTTTTAAAAAGC
1 ACTTTTCCAAAGC
*
10236950 ACTTTTCCATAGC
1 ACTTTTCCAAAGC
10236963 A
1 A
10236964 ATGAAGAACT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCCAAAGC
Found at i:10241072 original size:30 final size:30
Alignment explanation
Indices: 10241036--10241118 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
10241026 ATCCAATGCT
**
10241036 CAAATCAATTCAACAATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
*
10241066 CAAATCAATTCGGTAATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
*
10241096 CAAATTAATTCGGCAATATATAT
1 CAAATCAATTCGGCAATATATAT
10241119 GTATACATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:10241506 original size:28 final size:26
Alignment explanation
Indices: 10241465--10241523 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
10241455 AACTTTCATT
*
10241465 TATTTCACATTTTAACACTCAATTTGCA
1 TATTTCACAATTTAA-ACTCAATTTG-A
* *
10241493 TATTTCACAATTTAATCTCTATTTGA
1 TATTTCACAATTTAAACTCAATTTGA
10241519 TATTT
1 TATTT
10241524 TTGTCAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 8 0.29
28 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (26 bp):
TATTTCACAATTTAAACTCAATTTGA
Found at i:10242490 original size:91 final size:91
Alignment explanation
Indices: 10242341--10242522 Score: 240
Period size: 91 Copynumber: 2.0 Consensus size: 91
10242331 CTTCATTTTC
* ** ** *
10242341 CATGTAACACCCCTAACCCATCTTCGTCACTGGATTAGGGTTACAGAGTGTTATCGTACAATCGA
1 CATGTAACACCCCTAACCCATCTCCGTCACCAGATTAGGGTTACAGAGCATTACCGTACAAT-GA
10242406 -AAACATTTAAACATTATATCATTCAA
65 GAAACATTTAAACATTATATCATTCAA
*** * * *
10242432 CATGTAACACCCCTAACTTGTCTCCGTCGCCAGATTGGGGTTACAGAGCATTACCGTACAATTAG
1 CATGTAACACCCCTAACCCATCTCCGTCACCAGATTAGGGTTACAGAGCATTACCGTACAATGAG
10242497 AAACATTTAAACATTATATCATTCAA
66 AAACATTTAAACATTATATCATTCAA
10242523 TAATTTAATC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 1 0.01
91 77 0.99
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (91 bp):
CATGTAACACCCCTAACCCATCTCCGTCACCAGATTAGGGTTACAGAGCATTACCGTACAATGAG
AAACATTTAAACATTATATCATTCAA
Found at i:10247647 original size:17 final size:18
Alignment explanation
Indices: 10247625--10247661 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10247615 AATTTTAAAA
*
10247625 AATAATTT-TATATTTTT
1 AATAATTTCTAAATTTTT
10247642 AATAATTTCTAAATTTTT
1 AATAATTTCTAAATTTTT
10247660 AA
1 AA
10247662 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
AATAATTTCTAAATTTTT
Found at i:10256063 original size:17 final size:17
Alignment explanation
Indices: 10256030--10256063 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10256020 AAATAACCAG
10256030 TATATTATTTAATAAAT
1 TATATTATTTAATAAAT
10256047 TATATATATTTAA-AAAT
1 TATAT-TATTTAATAAAT
10256064 GTCAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATTATTTAATAAAT
Found at i:10283263 original size:17 final size:19
Alignment explanation
Indices: 10283225--10283263 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
10283215 TTAAAATTCG
10283225 AGTT-AAATTATTGATATT
1 AGTTAAAATTATTGATATT
10283243 -GTTAAAATTATT-AT-TT
1 AGTTAAAATTATTGATATT
10283259 AGTTA
1 AGTTA
10283264 TATAGCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (19 bp):
AGTTAAAATTATTGATATT
Found at i:10283327 original size:20 final size:22
Alignment explanation
Indices: 10283288--10283337 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
10283278 TGTATTTTTT
* * *
10283288 AACTTTAAAATGTTATTAAT-A
1 AACTTAAAAATATTAATAATTA
10283309 AA-TTAAAAATATTAATAATTA
1 AACTTAAAAATATTAATAATTA
10283330 AACTTAAA
1 AACTTAAA
10283338 GATCTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.58
21 5 0.21
22 5 0.21
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AACTTAAAAATATTAATAATTA
Found at i:10289976 original size:9 final size:9
Alignment explanation
Indices: 10289962--10290100 Score: 53
Period size: 10 Copynumber: 15.4 Consensus size: 9
10289952 ACATGTGATA
10289962 AAAAATTAT
1 AAAAATTAT
10289971 -AAAA--AT
1 AAAAATTAT
*
10289977 AAAAATCAAT
1 AAAAAT-TAT
*
10289987 AAAAGTTAT
1 AAAAATTAT
10289996 AAAAATTATT
1 AAAAATTA-T
*
10290006 AAAATTTAAT
1 AAAAATT-AT
10290016 AAAAA-TA-
1 AAAAATTAT
10290023 AAAGAA--AT
1 AAA-AATTAT
*
10290031 -AAATTTATT
1 AAAAATTA-T
*
10290040 AAAAATTAG
1 AAAAATTAT
**
10290049 AAAAAAAAT
1 AAAAATTAT
*
10290058 ATAAAATTGT
1 A-AAAATTAT
*
10290068 -AAAATTTT
1 AAAAATTAT
10290076 ATAAAATTCAT
1 A-AAAATT-AT
10290087 AAAAAATTAT
1 -AAAAATTAT
10290097 AAAA
1 AAAA
10290101 TGCATCAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
6 3 0.03
7 10 0.10
8 15 0.15
9 22 0.23
10 38 0.39
11 8 0.08
12 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10290089 original size:19 final size:18
Alignment explanation
Indices: 10289959--10290101 Score: 70
Period size: 19 Copynumber: 7.9 Consensus size: 18
10289949 GTGACATGTG
10289959 ATAAAAAATTATAAAA--
1 ATAAAAAATTATAAAATT
*
10289975 AT-AAAAATCAATAAAAGTT
1 ATAAAAAAT-TATAAAA-TT
10289994 AT-AAAAATTATTAAAATT
1 ATAAAAAATTA-TAAAATT
*
10290012 -TAATAAAA--ATAAAA-G
1 ATAA-AAAATTATAAAATT
*
10290027 A-AATAAATTTATTAAAAATT
1 ATAA-AAAATTA-T-AAAATT
* *
10290047 AGAAAAAAAATATAAAATT
1 A-TAAAAAATTATAAAATT
* **
10290066 GTAAAATTTTATAAAATT
1 ATAAAAAATTATAAAATT
10290084 CATAAAAAATTATAAAAT
1 -ATAAAAAATTATAAAAT
10290102 GCATCAAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 29
0.69 0.11 0.21
Matches are distributed among these distances:
15 12 0.12
16 13 0.14
17 3 0.03
18 18 0.19
19 41 0.43
20 2 0.02
21 5 0.05
22 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAAAAATTATAAAATT
Found at i:10290110 original size:19 final size:19
Alignment explanation
Indices: 10290074--10290111 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10290064 TTGTAAAATT
*
10290074 TTATAAAATTCATAAAAAA
1 TTATAAAATGCATAAAAAA
*
10290093 TTATAAAATGCATCAAAAA
1 TTATAAAATGCATAAAAAA
10290112 GACACTTTAA
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:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:10290391 original size:10 final size:10
Alignment explanation
Indices: 10290350--10290439 Score: 53
Period size: 10 Copynumber: 9.0 Consensus size: 10
10290340 TTTATAAAAC
10290350 TTTATAATTT
1 TTTATAATTT
*
10290360 TTTCT-ATATT
1 TTTATAAT-TT
* *
10290370 TCTAT-ATAT
1 TTTATAATTT
10290379 TTTATAATTT
1 TTTATAATTT
10290389 TTT-TACGA-TT
1 TTTATA--ATTT
10290399 TTTATAATTT
1 TTTATAATTT
* *
10290409 TTAATATTTT
1 TTTATAATTT
*
10290419 TTTATTAAATT
1 TTTA-TAATTT
*
10290430 TTAATAATTT
1 TTTATAATTT
10290440 AATAAATTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
9 10 0.17
10 40 0.67
11 10 0.17
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTATAATTT
Found at i:10290399 original size:29 final size:27
Alignment explanation
Indices: 10290350--10290420 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
10290340 TTTATAAAAC
*
10290350 TTTATAATTTTTTCTATATTTCTATATAT
1 TTTATAATTTTTT-TAGATTTCTATA-AT
*
10290379 TTTATAATTTTTTTACGATTTTTATAAT
1 TTTATAATTTTTTTA-GATTTCTATAAT
10290407 TTT-TAATATTTTTT
1 TTTATAAT-TTTTTT
10290421 TATTAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 4 0.11
28 13 0.34
29 21 0.55
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTATAATTTTTTTAGATTTCTATAAT
Found at i:10290434 original size:28 final size:28
Alignment explanation
Indices: 10290403--10290476 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
10290393 ACGATTTTTA
10290403 TAATTTTTAATATTTTTTTATTAAATTT
1 TAATTTTTAATATTTTTTTATTAAATTT
* ** *
10290431 TAATAATTTAATA-AATTTTATTTAATTT
1 TAAT-TTTTAATATTTTTTTATTAAATTT
*
10290459 T-ATTTTTTATCATTTTTT
1 TAATTTTTAAT-ATTTTTT
10290477 GCGACATGTC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
26 5 0.14
27 3 0.09
28 20 0.57
29 7 0.20
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TAATTTTTAATATTTTTTTATTAAATTT
Found at i:10292185 original size:12 final size:12
Alignment explanation
Indices: 10292165--10292198 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10292155 GATGCTACAC
10292165 GGCCATGTGGTA
1 GGCCATGTGGTA
* *
10292177 GGCCGTGTGTTA
1 GGCCATGTGGTA
10292189 GGCCATGTGG
1 GGCCATGTGG
10292199 CAGACCGTGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.44, T:0.26
Consensus pattern (12 bp):
GGCCATGTGGTA
Found at i:10295302 original size:93 final size:93
Alignment explanation
Indices: 10295205--10295390 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
10295195 GCCTAAAAAG
*
10295205 CAAGGAAATTGATTAAAAATTATTTTACGAGCCTAGGGGCAAAATTGTAATTTTGTGAAATTTTA
1 CAAGGAAATTGAATAAAAATTATTTTACGAGCCTAGGGGCAAAATTGTAATTTTGTGAAATTTTA
10295270 GGGGCAAAAACATAATTATGCTAAAGTA
66 GGGGCAAAAACATAATTATGCTAAAGTA
10295298 CAAGGAAATTGAATAAAAATTATTTTACGAGCCTAGGGGCAAAATTGTAATTTTGTGAAATTTTA
1 CAAGGAAATTGAATAAAAATTATTTTACGAGCCTAGGGGCAAAATTGTAATTTTGTGAAATTTTA
10295363 GGGGCAAAAACATAATTATGCTAAAGTA
66 GGGGCAAAAACATAATTATGCTAAAGTA
10295391 TGATTTTTGG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (93 bp):
CAAGGAAATTGAATAAAAATTATTTTACGAGCCTAGGGGCAAAATTGTAATTTTGTGAAATTTTA
GGGGCAAAAACATAATTATGCTAAAGTA
Found at i:10295669 original size:69 final size:68
Alignment explanation
Indices: 10295591--10295727 Score: 170
Period size: 69 Copynumber: 2.0 Consensus size: 68
10295581 GACTGTGTGT
*
10295591 AGGCCACTAT-GTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGT
1 AGGCCACTATCGT-AAAG-GAAAGT-ATCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGT
10295654 GTATCC
63 GTATCC
* ** * *
10295660 AGGCTACTATGCGTACCGGATAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGT
1 AGGCCACTAT-CGTAAAGGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGT
10295725 ATC
65 ATC
10295728 GAATGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
68 1 0.02
69 54 0.92
70 2 0.03
71 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (68 bp):
AGGCCACTATCGTAAAGGAAAGTATCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
TCC
Found at i:10297681 original size:21 final size:21
Alignment explanation
Indices: 10297655--10297749 Score: 61
Period size: 21 Copynumber: 4.6 Consensus size: 21
10297645 ACGAAGGCTG
10297655 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * *
10297676 AACAGAA-CCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
10297696 AA-TGAAAGCTCATAAAAGCTA
1 AACAG-AAGCTCATAAGAGCTA
* * * *
10297717 AACGGGAA-CCCATAAGGGTTA
1 AAC-AGAAGCTCATAAGAGCTA
10297738 AACAGAAGCTCA
1 AACAGAAGCTCA
10297750 ATACTCATAA
Statistics
Matches: 52, Mismatches: 17, Indels: 10
0.66 0.22 0.13
Matches are distributed among these distances:
19 1 0.02
20 16 0.31
21 32 0.62
22 2 0.04
23 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:10297747 original size:42 final size:41
Alignment explanation
Indices: 10297655--10297749 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
10297645 ACGAAGGCTG
* *
10297655 AACAGAAGCTCATAAGAGCTAAACAGAACCCATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTAAACAGAACCCATAAGGGTTA
* *
10297696 AA-TGAAAGCTCATAAAAGCTAAACGGGAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAAAGCTAAAC-AGAACCCATAAGGGTTA
10297738 AACAGAAGCTCA
1 AACAGAAGCTCA
10297750 ATACTCATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 20 0.43
42 24 0.52
43 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (41 bp):
AACAGAAGCTCATAAAAGCTAAACAGAACCCATAAGGGTTA
Found at i:10307658 original size:20 final size:20
Alignment explanation
Indices: 10307630--10307669 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10307620 TTATTAAAAA
10307630 ATAAAAATTA-ATAAAATAGT
1 ATAAAAATTATA-AAAATAGT
*
10307650 ATAATAATTATAAAAATAGT
1 ATAAAAATTATAAAAATAGT
10307670 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAAAAATTATAAAAATAGT
Found at i:10315166 original size:13 final size:13
Alignment explanation
Indices: 10315148--10315173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10315138 TTTAATTTTG
10315148 TTTTAAAAAGGTT
1 TTTTAAAAAGGTT
10315161 TTTTAAAAAGGTT
1 TTTTAAAAAGGTT
10315174 ATATTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTTAAAAAGGTT
Found at i:10333307 original size:22 final size:23
Alignment explanation
Indices: 10333266--10333308 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10333256 AAATCAATAG
* *
10333266 TTAATGCAAAGAGAAGCATAGCA
1 TTAATGCAAAGAAAAACATAGCA
10333289 TTAATG-AAAGAAAAACATAG
1 TTAATGCAAAGAAAAACATAG
10333309 TGCCTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (23 bp):
TTAATGCAAAGAAAAACATAGCA
Found at i:10335152 original size:62 final size:62
Alignment explanation
Indices: 10335086--10335218 Score: 257
Period size: 62 Copynumber: 2.1 Consensus size: 62
10335076 GACTGATTAT
*
10335086 TTTGAAGATATTTGAACGAGTTAAGCCCATAAATTGAAGAACAATTGAGTTGAAATTTAAGA
1 TTTGAAGATATTTGAACGAGTAAAGCCCATAAATTGAAGAACAATTGAGTTGAAATTTAAGA
10335148 TTTGAAGATATTTGAACGAGTAAAGCCCATAAATTGAAGAACAATTGAGTTGAAATTTAAGA
1 TTTGAAGATATTTGAACGAGTAAAGCCCATAAATTGAAGAACAATTGAGTTGAAATTTAAGA
10335210 TTTGAAGAT
1 TTTGAAGAT
10335219 TGAATTATGA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.31
Consensus pattern (62 bp):
TTTGAAGATATTTGAACGAGTAAAGCCCATAAATTGAAGAACAATTGAGTTGAAATTTAAGA
Found at i:10335824 original size:25 final size:22
Alignment explanation
Indices: 10335781--10335826 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
10335771 GCTCGCCCAT
*
10335781 ATTATTTTTTAATTTTTTTAAA
1 ATTATTTTTTAATTATTTTAAA
10335803 ATTATTTATATTATATTATTTTAA
1 ATTATTT-T-TTA-ATTATTTTAA
10335827 TATTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 3 0.15
25 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTATTTTTTAATTATTTTAAA
Found at i:10340256 original size:16 final size:16
Alignment explanation
Indices: 10340231--10340273 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
10340221 AAAATACATC
10340231 CAAAACAAAACAAAAAA
1 CAAAA-AAAACAAAAAA
*
10340248 CAAAAAAAATAAAAAA
1 CAAAAAAAACAAAAAA
10340264 CAGAAAAAAA
1 CA-AAAAAAA
10340274 ACCTGGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (16 bp):
CAAAAAAAACAAAAAA
Found at i:10340768 original size:14 final size:14
Alignment explanation
Indices: 10340749--10340777 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10340739 TAACTGAAAC
10340749 TAGAATAATTAAAT
1 TAGAATAATTAAAT
10340763 TAGAATAATTAAAT
1 TAGAATAATTAAAT
10340777 T
1 T
10340778 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:10341396 original size:14 final size:14
Alignment explanation
Indices: 10341377--10341405 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10341367 TTTTTGTATC
10341377 AATTTAATTATTCT
1 AATTTAATTATTCT
10341391 AATTTAATTATTCT
1 AATTTAATTATTCT
10341405 A
1 A
10341406 GTTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:10341896 original size:27 final size:27
Alignment explanation
Indices: 10341823--10341900 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
10341813 ATAACACGAG
**
10341823 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
10341850 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
* *
10341877 TGGTGCCACCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGTTCCCTT
10341901 CACCCAGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:10341956 original size:18 final size:18
Alignment explanation
Indices: 10341933--10341967 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10341923 GTCCAGGTTT
10341933 TTTTTTTCTGTTTTTTTG
1 TTTTTTTCTGTTTTTTTG
*
10341951 TTTTTTTTTGTTTTTTT
1 TTTTTTTCTGTTTTTTT
10341968 ATATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.89
Consensus pattern (18 bp):
TTTTTTTCTGTTTTTTTG
Found at i:10350071 original size:19 final size:18
Alignment explanation
Indices: 10350035--10350073 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10350025 GAAGCAAAGA
* *
10350035 TATCAAAAACGTAGAAAT
1 TATCAAAAACGAACAAAT
10350053 TATCAAAAATCGAACAAAT
1 TATCAAAAA-CGAACAAAT
10350072 TA
1 TA
10350074 CATACCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (18 bp):
TATCAAAAACGAACAAAT
Found at i:10355322 original size:20 final size:21
Alignment explanation
Indices: 10355282--10355322 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10355272 GCGCAGGGGG
* *
10355282 TATGTCGTGACATAGAAGGGC
1 TATGTCATGACATACAAGGGC
10355303 TATGTCATGACAT-CAAGGGC
1 TATGTCATGACATACAAGGGC
10355323 AGTTTCGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (21 bp):
TATGTCATGACATACAAGGGC
Found at i:10356034 original size:68 final size:70
Alignment explanation
Indices: 10355836--10356044 Score: 255
Period size: 69 Copynumber: 3.0 Consensus size: 70
10355826 GAGGTTTAAA
* * * * *
10355836 GTGTAAAACCATACCTCGACTATGACAACCAATAGAGAGTTTGC-CAGAATGTTAAACATGAG-G
1 GTGTAAGACCATAACTCGACTATGACAACCAATAGAGAGTCTGCTAAG-ATGTTAAACATGAGTT
* *
10355899 AATAGT
65 CATAAT
* * * *
10355905 GTGTAAGACCATAACTCGGCTATGACAACCAATAGAGAGTCCGCTAGGATGTTAAATATGAGTTC
1 GTGTAAGACCATAACTCGACTATGACAACCAATAGAGAGTCTGCTAAGATGTTAAACATGAGTTC
10355970 ATAAT
66 ATAAT
* * *
10355975 GTGTAAGACCATAGCTCGACTATGGCAA-C-ATAAAGAGTCTGCTAAGATGTTAAACATGAGTTC
1 GTGTAAGACCATAACTCGACTATGACAACCAATAGAGAGTCTGCTAAGATGTTAAACATGAGTTC
10356038 ATAAT
66 ATAAT
10356043 GT
1 GT
10356045 TTGCAGGACG
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
68 37 0.31
69 53 0.44
70 30 0.25
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (70 bp):
GTGTAAGACCATAACTCGACTATGACAACCAATAGAGAGTCTGCTAAGATGTTAAACATGAGTTC
ATAAT
Found at i:10380962 original size:364 final size:354
Alignment explanation
Indices: 10380277--10380994 Score: 1301
Period size: 364 Copynumber: 2.0 Consensus size: 354
10380267 GAAATATTAA
10380277 TTTAGATCAAGATTGGGTGGAAATTCGAGGAAAATGGAAAATTATCAAAATGTCCCTGAATTTTG
1 TTTAGATCAAGATTGGGTGGAAATTCGAGGAAAATGGAAAATTATCAAAATGTCCCTGAATTTTG
10380342 GTATTTCTGTGATTTAGCCCGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTTGAAATG
66 GTATTTCTGTGATTTAGCCCGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTTGAAATG
*
10380407 GATGTGGATATGATTTGAATGTTCATTGTATGAAAATTTATGAAACATTGATAAATTTGAAAAAA
131 GATGTGGATATGATTTGAATGTTCATTGTATGAAAATTGATGAAACATTGATAAATTTGAAAAAA
10380472 GGAGAAGAAATCTCAGTTGAATGGAAGGAAAATTCGATGGATCTTTGAAAAGGAATTGACGGTAA
196 GGAGAAGAAATCTCAGTTGAATGGAAGGAAAATTCGATGGATCTTTGAAAAGGAATTGACGGTAA
10380537 AAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATATGTGGAAAAT
261 AAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATATGTGGAAAAT
10380602 GGATTTACCCCAGGCGGGTAATCTGAATT
326 GGATTTACCCCAGGCGGGTAATCTGAATT
10380631 TTTAGATCAAGATTGGGTGGAAATTCGAGGAAAATGGAAAATTATCAAAATGTCCCTGAATTTTG
1 TTTAGATCAAGATTGGGTGGAAATTCGAGGAAAATGGAAAATTATCAAAATGTCCCTGAATTTTG
10380696 GTATTTCTGTGATTTAGCCCGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTTGAAATG
66 GTATTTCTGTGATTTAGCCCGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTTGAAATG
* *
10380761 TTTGTTATTGATGTGAATATGATTTGAATGTTCGTTGTATGAAAATTGATGAAACATTGATATAT
131 ---G--A-TG-TG-G-ATATGATTTGAATGTTCATTGTATGAAAATTGATGAAACATTGATAAAT
* *
10380826 TTGATAAAAAGGGGAAGAAATCTCGGTTGAATGGAAGGAAAATTCGATGGATCTTTGAAAAGGAA
187 TTGA-AAAAAGGAGAAGAAATCTCAGTTGAATGGAAGGAAAATTCGATGGATCTTTGAAAAGGAA
10380891 TTGACGGTAAAAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATA
251 TTGACGGTAAAAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATA
10380956 TGTGGAAAATGGATTTACCCCAGGCGGGTAATCTGAATT
316 TGTGGAAAATGGATTTACCCCAGGCGGGTAATCTGAATT
10380995 AGGTCTGAAT
Statistics
Matches: 349, Mismatches: 5, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
354 130 0.37
357 1 0.00
359 1 0.00
360 2 0.01
361 2 0.01
362 1 0.00
363 50 0.14
364 162 0.46
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (354 bp):
TTTAGATCAAGATTGGGTGGAAATTCGAGGAAAATGGAAAATTATCAAAATGTCCCTGAATTTTG
GTATTTCTGTGATTTAGCCCGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTTGAAATG
GATGTGGATATGATTTGAATGTTCATTGTATGAAAATTGATGAAACATTGATAAATTTGAAAAAA
GGAGAAGAAATCTCAGTTGAATGGAAGGAAAATTCGATGGATCTTTGAAAAGGAATTGACGGTAA
AAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATATGTGGAAAAT
GGATTTACCCCAGGCGGGTAATCTGAATT
Found at i:10390710 original size:20 final size:20
Alignment explanation
Indices: 10390673--10390711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10390663 AGATGTCGCC
**
10390673 GTCATGTGCTGGTGACTTTA
1 GTCATGTGCTGGCAACTTTA
10390693 GTCATGTGCTGGCAACTTT
1 GTCATGTGCTGGCAACTTT
10390712 GATACAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.38
Consensus pattern (20 bp):
GTCATGTGCTGGCAACTTTA
Found at i:10391109 original size:38 final size:39
Alignment explanation
Indices: 10391037--10391121 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
10391027 GATTTTACAT
* *
10391037 GTTATATAACGAGATCTAGCATTTGTTATAGATTCTCGG
1 GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
* *
10391076 GTTATTTAACGAGATCTAGC-TTTGTTGCAGATTCTCAG
1 GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
10391114 GTTATATA
1 GTTATATA
10391122 TAACATAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.54
39 19 0.46
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (39 bp):
GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
Found at i:10392590 original size:2 final size:2
Alignment explanation
Indices: 10392583--10392631 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
10392573 GGGTGTTACG
10392583 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10392625 GA GA GA G
1 GA GA GA G
10392632 GTGAGTGAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10394781 original size:53 final size:53
Alignment explanation
Indices: 10394720--10394822 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
10394710 AAGTTTTTGG
* *
10394720 TTTTTTTTTAAATGATAAAGTTTAGATTTTGAAAAATAAGAATAGGTTTTGTT
1 TTTTTTTTTAAATGAGAAAGTTTAGATTTTGAAAAATAAAAATAGGTTTTGTT
* *
10394773 TTTTTTTTTAAATGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTT
1 TTTTTTTTTAAATGAGAAAGTTTAGATTTTGAAAAATAAAAATAGGTTTT
10394823 TTAGCCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.50
Consensus pattern (53 bp):
TTTTTTTTTAAATGAGAAAGTTTAGATTTTGAAAAATAAAAATAGGTTTTGTT
Found at i:10394802 original size:27 final size:27
Alignment explanation
Indices: 10394720--10394803 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 27
10394710 AAGTTTTTGG
*
10394720 TTTTTTTTTAAATGATAAAGTTTAGA-
1 TTTTTTTTTAAATGAGAAAGTTTAGAT
*** * * *
10394746 --TTTTGAAAAATAAGAATAGGTTTTGTT
1 TTTTTTTTTAAATGAGAA-A-GTTTAGAT
10394773 TTTTTTTTTAAATGAGAAAGTTTAGAT
1 TTTTTTTTTAAATGAGAAAGTTTAGAT
10394800 TTTT
1 TTTT
10394804 AAAAATAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 9
0.65 0.21 0.15
Matches are distributed among these distances:
24 11 0.28
25 1 0.03
26 5 0.12
27 10 0.25
28 1 0.03
29 12 0.30
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (27 bp):
TTTTTTTTTAAATGAGAAAGTTTAGAT
Found at i:10395014 original size:48 final size:48
Alignment explanation
Indices: 10394958--10395249 Score: 334
Period size: 48 Copynumber: 5.9 Consensus size: 48
10394948 GAAAAGTAGT
* * * * * *
10394958 GATTTGTATCCATTCCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTG
1 GATTTGTATCCATCCCTTGGATTGAACTCCT-AGTGAAAAACTGTTGTG
10395006 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
1 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
*
10395054 GGTTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
1 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
* * *
10395102 GGTTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAGTGTTGTG
1 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAA-AA--------ACTGTTGTG
* * * * *
10395159 GATTTGTATCTATTCCTTGGCTTGAACTCCTAGTGAAAAACTATTATG
1 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
* *
10395207 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTG
1 GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTG
10395250 CGGTGGATGT
Statistics
Matches: 211, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
48 162 0.77
49 7 0.03
56 2 0.01
57 40 0.19
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (48 bp):
GATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTG
Found at i:10395184 original size:57 final size:56
Alignment explanation
Indices: 10395095--10395276 Score: 193
Period size: 57 Copynumber: 3.4 Consensus size: 56
10395085 AGTGAAAAAC
* *
10395095 TGTTGTGGGTTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAG
1 TGTTATGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTG-GGTGAG
* * * * * *
10395152 TGTTGTGGATTTGTATCTATTCCTTGGCTTGAACTCCTAGTGAAAAAC----T-A-
1 TGTTATGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGGGTGAG
10395202 --TTATGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTG-G
1 TGTTATGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTG-GGTGAG
*
10395256 ATGTTATGGATTTGTCTCCAT
1 -TGTTATGGATTTGTATCCAT
10395277 TTCTTGGCTT
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
48 40 0.39
51 1 0.01
52 1 0.01
53 1 0.01
57 59 0.58
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (56 bp):
TGTTATGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGGGTGAG
Found at i:10395229 original size:105 final size:105
Alignment explanation
Indices: 10395047--10395390 Score: 457
Period size: 105 Copynumber: 3.3 Consensus size: 105
10395037 AGTGAAAAAC
* * * *
10395047 TGTTGTGGGTTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGGTTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATC
10395112 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAG
66 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAG
* * *
10395152 TGTTGTGGATTTGTATCTATTCCTTGGCTTGAACTCCTAGTGAAAAACTATTATGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATC
*
10395217 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTG-G
66 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAG
* * * * * **
10395256 ATGTTATGGATTTGTCTCCATTTCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTACA
1 -TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCT-AGTGAAAAACTGTTGTGGATTTGTA
*
10395317 TCCATCCCTTGAATTGAACTCCCAGTGAAGAACTGTGGTGCA-
64 TCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTG-AG
* *
10395359 TGTTGTGGATTTGTCTCCATTCCTTGACTTGA
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGA
10395391 CTTGATGCGG
Statistics
Matches: 211, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
102 76 0.36
104 10 0.05
105 125 0.59
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (105 bp):
TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATC
CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGAG
Found at i:10396691 original size:11 final size:11
Alignment explanation
Indices: 10396675--10396707 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10396665 GGATCAGACT
10396675 CATAATAAATA
1 CATAATAAATA
*
10396686 CATAATTAATA
1 CATAATAAATA
10396697 CATAA-AAATA
1 CATAATAAATA
10396707 C
1 C
10396708 GTTATTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (11 bp):
CATAATAAATA
Found at i:10398076 original size:7 final size:7
Alignment explanation
Indices: 10398060--10398141 Score: 76
Period size: 7 Copynumber: 10.9 Consensus size: 7
10398050 TTAATATCGA
*
10398060 AATAAGT
1 AATAAAT
10398067 AATAAAT
1 AATAAAT
10398074 AATAAAAT
1 AAT-AAAT
10398082 AAAATAAAGT
1 --AATAAA-T
10398092 AATAAAT
1 AATAAAT
*
10398099 AAAGTAAAGA
1 -AA-TAAA-T
10398109 AATAAAT
1 AATAAAT
10398116 AATAAAT
1 AATAAAT
10398123 AATAAAT
1 AATAAAT
10398130 AATAAA-
1 AATAAAT
10398136 AATAAA
1 AATAAA
10398142 ATTGGGTTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
6 6 0.09
7 30 0.46
8 16 0.25
9 9 0.14
10 4 0.06
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:10398089 original size:17 final size:19
Alignment explanation
Indices: 10398067--10398143 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 19
10398057 CGAAATAAGT
10398067 AATAAA-TAAT-AAAATAA
1 AATAAAGTAATAAAAATAA
10398084 AATAAAGTAAT--AAATAA
1 AATAAAGTAATAAAAATAA
* *
10398101 AGTAAAGAAATAAATAATAAA
1 AATAAAGTAATAAA-AAT-AA
10398122 TAATAAA-TAATAAAAATAA
1 -AATAAAGTAATAAAAATAA
10398141 AAT
1 AAT
10398144 TGGGTTGCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 21 0.42
18 7 0.14
19 3 0.06
20 6 0.12
21 8 0.16
22 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAGTAATAAAAATAA
Found at i:10398101 original size:4 final size:4
Alignment explanation
Indices: 10398067--10398141 Score: 59
Period size: 4 Copynumber: 18.5 Consensus size: 4
10398057 CGAAATAAGT
*
10398067 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AAGA AATA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
*
10398113 AAT- AATA AAT- AATA AATA ATAAA AATA AA
1 AATA AATA AATA AATA AATA A-ATA AATA AA
10398142 ATTGGGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 10 0.17
4 33 0.56
5 16 0.27
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:10402447 original size:39 final size:39
Alignment explanation
Indices: 10402393--10402468 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
10402383 AAAAGTTGTG
10402393 GATTTGTATCCATCCCTTGGATCGAACTCCCAGTGAACA
1 GATTTGTATCCATCCCTTGGATCGAACTCCCAGTGAACA
* *
10402432 GATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAA
1 GATTTGTATCCATCCCTTGGATCGAACTCCCAGTGAA
10402469 AAACTGTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (39 bp):
GATTTGTATCCATCCCTTGGATCGAACTCCCAGTGAACA
Found at i:10402503 original size:48 final size:48
Alignment explanation
Indices: 10402432--10402662 Score: 284
Period size: 48 Copynumber: 4.8 Consensus size: 48
10402422 CCAGTGAACA
*
10402432 GATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTG
1 GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTG
* * *
10402480 GATTTGTATCCATTCCTTGGCTTGAACTTCCAGTGAAAAACTATTATG
1 GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTG
* *
10402528 GATTTGTATCCATTCCTTGACTTGAACTCCCAG-GAAAAAACTGTTGTC
1 GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTG-AAAAACTGTTGTG
* * * * *
10402576 GATTTGTATCCATTTCTTGACTTGAACTCCCAATGAAAAACCGTTTTG
1 GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTG
* * * * * * *
10402624 AATTTGTGTTCGTTCCTTAGTTTGAACTCCCAGGGAAAA
1 GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAA
10402663 GCTGCTGGCA
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 155 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (48 bp):
GATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTG
Found at i:10406012 original size:2 final size:2
Alignment explanation
Indices: 10406005--10406039 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10405995 GCTCACTCAC
10406005 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
10406040 CGTAACACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:10407585 original size:39 final size:38
Alignment explanation
Indices: 10407501--10407585 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
10407491 ACCTATGTTA
* *
10407501 TATATAACCTGAGAATCTGCAACAAAGCTAGATCTCGT
1 TATATAACCCGAGAATCTACAACAAAGCTAGATCTCGT
* *
10407539 TAAATAACCCGAGAATCTATAACAAATGCTAGATCTCGT
1 TATATAACCCGAGAATCTACAACAAA-GCTAGATCTCGT
10407578 TATATAAC
1 TATATAAC
10407586 ATGTAAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.54
39 19 0.46
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (38 bp):
TATATAACCCGAGAATCTACAACAAAGCTAGATCTCGT
Found at i:10410484 original size:48 final size:48
Alignment explanation
Indices: 10410302--10410995 Score: 438
Period size: 48 Copynumber: 14.5 Consensus size: 48
10410292 TGCCAGCAGC
* * * * * * *
10410302 TTTTCCCTGGGAGTTCAAGCCAAGGAACGAACACAAATTCAAAACAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * ** * *
10410350 TTTTCATTGGGAGTTCAAGTCAAGAAATGGATACAAATCGACAACAATT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAAC-AGT
* *
10410399 TTTTC-CTGGGAGTTCAAGTCAAGGAATGGATACAAATCCACAACAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* *
10410446 TTTTCACTGGGAGTTCAAGCCAAGGGATGAATACAAATCCACGACA--
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * ** **** *
10410492 --TCCACCT--CAGTTC-TTCTC------TCCCCCACAACATCCACCACAGT
1 TTTTCA-CTGGGAGTTCAAGC-CAAGGGAT-GGATACAA-ATCCACAACAGT
* *
10410533 TCTTCACTAGGAGTTCAAGCCAAGGGATGGATACAAAT---C--C-G-
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* *
10410574 --TTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAAC---
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * * *
10410617 TTTTCAATGAGAAG-TCAAGCCAAGGAATGGAGACAAATCCACAACATCCACCACAGT
1 TTTTCACTG-GGAGTTCAAGCCAAGGGAT-G-G----AT--ACAA-ATCCACAACAGT
* * *
10410674 TCTTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACAAT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* *
10410722 TTTTCACTAGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACATCTACCACAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAAT---C--CA-C-A--ACAGT
* *
10410779 TCTTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * * *
10410827 TTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACGACAGC
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * * *
10410875 TTTTCCCTGAGAAG-TCAAGCCAAGGAATGGATACAAATCCGCAACAGT
1 TTTTCACTG-GGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
* * * * * **
10410923 TTTTCACTGGAAGCTCAATCCAAGAGATGGATAGAAATCCATC-ATTGT
1 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCA-CAACAGT
*
10410971 TTTTCATTGGGAGTTCAAGCCAAGG
1 TTTTCACTGGGAGTTCAAGCCAAGG
10410996 AGGGACTCCT
Statistics
Matches: 510, Mismatches: 84, Indels: 104
0.73 0.12 0.15
Matches are distributed among these distances:
37 1 0.00
38 4 0.01
39 44 0.09
42 5 0.01
43 10 0.02
44 10 0.02
45 21 0.04
46 4 0.01
47 12 0.02
48 291 0.57
49 19 0.04
50 2 0.00
51 6 0.01
52 2 0.00
53 6 0.01
54 10 0.02
55 2 0.00
56 4 0.01
57 57 0.11
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (48 bp):
TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCCACAACAGT
Found at i:10410589 original size:39 final size:39
Alignment explanation
Indices: 10410535--10410611 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
10410525 ACCACAGTTC
10410535 TTCACTAGGAGTTCAAGCCAAGGGATGGATACAAATCCG
1 TTCACTAGGAGTTCAAGCCAAGGGATGGATACAAATCCG
*
10410574 TTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCC
1 TTCACTAGGAGTTCAAGCCAAGGGATGGATACAAATCC
10410612 ACAACTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (39 bp):
TTCACTAGGAGTTCAAGCCAAGGGATGGATACAAATCCG
Found at i:10410775 original size:105 final size:104
Alignment explanation
Indices: 10410574--10410868 Score: 479
Period size: 105 Copynumber: 2.8 Consensus size: 104
10410564 TACAAATCCG
* * *
10410574 TTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAAC--TTTTCAATGAGAAG-TCAAG
1 TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACATTTTTCACT-AGGAGTTCAAG
*
10410636 CCAAGGAATGGAGACAAATCCACAACATCCACCACAGTTC
65 CCAAGGAATGGATACAAATCCACAACATCCACCACAGTTC
10410676 TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACAATTTTTCACTAGGAGTTCAAG
1 TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAAC-ATTTTTCACTAGGAGTTCAAG
*
10410741 CCAAGGAATGGATACAAATCCACAACATCTACCACAGTTC
65 CCAAGGAATGGATACAAATCCACAACATCCACCACAGTTC
*
10410781 TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACAGTTTTTCACTAGGAGTTCAAT
1 TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACA-TTTTTCACTAGGAGTTCAAG
*
10410846 CCAAGGGATGGATACAAATCCAC
65 CCAAGGAATGGATACAAATCCAC
10410869 GACAGCTTTT
Statistics
Matches: 181, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
102 42 0.23
104 5 0.03
105 134 0.74
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (104 bp):
TTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCACAACATTTTTCACTAGGAGTTCAAGC
CAAGGAATGGATACAAATCCACAACATCCACCACAGTTC
Found at i:10420553 original size:138 final size:139
Alignment explanation
Indices: 10420299--10420580 Score: 557
Period size: 138 Copynumber: 2.0 Consensus size: 139
10420289 AATTGAGTGG
10420299 AGTTGCATGCAATCCTAGAAATAGAACGACATAAATCTACTGGATTAGAGTCAAATCTAATAAGG
1 AGTTGCATGCAATCCTAGAAATAGAACGACATAAATCTACTGGATTAGAGTCAAATCTAATAAGG
10420364 GAATCCATAGATCGAGTTAATGTGACGATAAGAGTTTTAATTAGAAAGAGATTTCAATTAATCAA
66 GAATCCATAGATCGAGTTAATGTGACGATAAGAGTTTTAATTAGAAAGAGATTTCAATTAATCAA
10420429 CCTAGAGTT
131 CCTAGAGTT
10420438 AGTTG-ATGCAATCCTAGAAATAGAACGACATAAATCTACTGGATTAGAGTCAAATCTAATAAGG
1 AGTTGCATGCAATCCTAGAAATAGAACGACATAAATCTACTGGATTAGAGTCAAATCTAATAAGG
10420502 GAATCCATAGATCGAGTTAATGTGACGATAAGAGTTTTAATTAGAAAGAGATTTCAATTAATCAA
66 GAATCCATAGATCGAGTTAATGTGACGATAAGAGTTTTAATTAGAAAGAGATTTCAATTAATCAA
10420567 CCTAGAGTT
131 CCTAGAGTT
10420576 AGTTG
1 AGTTG
10420581 TTTTTACTCT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 138 0.97
139 5 0.03
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (139 bp):
AGTTGCATGCAATCCTAGAAATAGAACGACATAAATCTACTGGATTAGAGTCAAATCTAATAAGG
GAATCCATAGATCGAGTTAATGTGACGATAAGAGTTTTAATTAGAAAGAGATTTCAATTAATCAA
CCTAGAGTT
Found at i:10436423 original size:16 final size:16
Alignment explanation
Indices: 10436399--10436429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10436389 TTAGCCATGC
10436399 TTTTATCTCAAAAGTG
1 TTTTATCTCAAAAGTG
*
10436415 TTTTGTCTCAAAAGT
1 TTTTATCTCAAAAGT
10436430 ACTTCTTAGA
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:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
TTTTATCTCAAAAGTG
Found at i:10439096 original size:31 final size:31
Alignment explanation
Indices: 10439061--10439121 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
10439051 GATGCCAAAT
* * *
10439061 TTGATTTGTGTATGATTATATATTGTCGAAC
1 TTGATTCGTGAATGATTATACATTGTCGAAC
* *
10439092 TTGATTCGTGAATGGTTATACGTTGTCGAA
1 TTGATTCGTGAATGATTATACATTGTCGAA
10439122 TTGTTGGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (31 bp):
TTGATTCGTGAATGATTATACATTGTCGAAC
Found at i:10439124 original size:184 final size:184
Alignment explanation
Indices: 10438628--10439162 Score: 736
Period size: 184 Copynumber: 2.9 Consensus size: 184
10438618 TACCTTGCTA
10438628 AAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCCGAAT
1 AAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCCGAAT
* *
10438693 TGGATTTGTATTTGATTATACATTATCGAACTTGATTCGTGTATGGTTATATATT-ACTGAATTA
66 TGGATTTGTATTTGATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGAC-GAATTG
* * * * * * * *
10438757 TTTGGCATATGGATA-AATTTTGCCGAATTGATTCATATATGGTTTTACCTTGCTG
130 TTTGGTATATGGATATAA-TTTGCTGAATTGATTCGTACAAGGTTGTACATTACTG
* * *
10438812 AAATTAAATTGTACATGGTTTTATATTGTCGATTTTGAATTTTTTATGTATATAGGATGCCGAAT
1 AAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCCGAAT
* *
10438877 TGGATTTGTATTTAATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGCCGAATTGT
66 TGGATTTGTATTTGATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGACGAATTGT
*
10438942 TTGGTATATGGATATAATTTGTTGAATTGATTCGTACAAGGTTGTACATTACTG
131 TTGGTATATGGATATAATTTGCTGAATTGATTCGTACAAGGTTGTACATTACTG
* *
10438996 AAATT-AATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGCCAAA
1 AAATTAAATT-GTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCCGAA
* * * * * * * *
10439060 TTTGATTTGTGTATGATTATATATTGTCGAACTTGATTCGTGAATGGTTATACGTTGTCGAATTG
65 TTGGATTTGTATTTGATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGACGAATTG
* * *
10439125 TTGGGTATATCGATATTCA-TTGCTGAATTGGATTCGTA
130 TTTGGTATATGGATA-TAATTTGCTGAATT-GATTCGTA
10439163 TTTGAATATA
Statistics
Matches: 312, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
183 4 0.01
184 295 0.95
185 13 0.04
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.44
Consensus pattern (184 bp):
AAATTAAATTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGTATATAGGATGCCGAAT
TGGATTTGTATTTGATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGACGAATTGT
TTGGTATATGGATATAATTTGCTGAATTGATTCGTACAAGGTTGTACATTACTG
Found at i:10459936 original size:20 final size:21
Alignment explanation
Indices: 10459911--10459959 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
10459901 AGTTTTACTA
* *
10459911 ATTTTATCTGACAA-AAATTT
1 ATTTTATCTGAAAAGAAATCT
10459931 ATTTTAT-TGAAAAGAAATCT
1 ATTTTATCTGAAAAGAAATCT
10459951 ATTTATATC
1 ATTT-TATC
10459960 GATATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATTTTATCTGAAAAGAAATCT
Found at i:10470098 original size:44 final size:45
Alignment explanation
Indices: 10470012--10470098 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
10470002 TTCCTGGAAA
* *
10470012 AAAAATAAAAAAAATAACAGAATTAAAGGTTTGGATCTGAAAACG
1 AAAAATAAAAAAAATAACAGAATTAAAGATTTGAATCTGAAAACG
*
10470057 AAAAATAAAATAAA-AACAGAATT-AAGAATATTGAATC-GAAAA
1 AAAAATAAAAAAAATAACAGAATTAAAG-AT-TTGAATCTGAAAA
10470099 TTCGAGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.08
44 15 0.41
45 19 0.51
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.20
Consensus pattern (45 bp):
AAAAATAAAAAAAATAACAGAATTAAAGATTTGAATCTGAAAACG
Found at i:10476446 original size:22 final size:21
Alignment explanation
Indices: 10476425--10476470 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
10476415 TTTTTTTTTA
10476425 ATTTTT-CTATTATTATTATTT
1 ATTTTTACTATT-TTATTATTT
10476446 ATTTTTACTATTTTA-T-TTT
1 ATTTTTACTATTTTATTATTT
10476465 ATTTTT
1 ATTTTT
10476471 GTAGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
21 9 0.38
22 5 0.21
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTTTTACTATTTTATTATTT
Found at i:10476465 original size:19 final size:18
Alignment explanation
Indices: 10476414--10476470 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
10476404 TTTGAAAAGA
*
10476414 ATTTTTTTTTAATTTTTCT
1 ATTTTATTTT-ATTTTTCT
10476433 ATTATTATTATTTATTTTTACT
1 ATT-TTA-T-TTTATTTTT-CT
10476455 ATTTTATTTTATTTTT
1 ATTTTATTTTATTTTT
10476471 GTAGGAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 12 0.36
20 3 0.09
21 10 0.30
22 8 0.24
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTATTTTATTTTTCT
Found at i:10479356 original size:28 final size:27
Alignment explanation
Indices: 10479325--10479383 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
10479315 AGATAAATAA
10479325 AATAA-GATCCTAAAATTGAATAATCCTT
1 AATAATGATCCTAAAATT-AATAATCC-T
* * *
10479353 AATAATTATCTTAATATTAATAATCCT
1 AATAATGATCCTAAAATTAATAATCCT
10479380 AATA
1 AATA
10479384 TAATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 13 0.48
29 9 0.33
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.37
Consensus pattern (27 bp):
AATAATGATCCTAAAATTAATAATCCT
Found at i:10479977 original size:20 final size:20
Alignment explanation
Indices: 10479954--10480000 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10479944 ATTTTTTCTA
* * *
10479954 ATTTTTTTTCTTTTTTATTT
1 ATTTATTTTCATTTTGATTT
*
10479974 ATTTATTTTGATTTTGATTT
1 ATTTATTTTCATTTTGATTT
10479994 ATTTATT
1 ATTTATT
10480001 ATTTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTTATTTTCATTTTGATTT
Found at i:10480015 original size:20 final size:22
Alignment explanation
Indices: 10479964--10480013 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
10479954 ATTTTTTTTC
10479964 TTTTTTATTTATTTATTTTGAT
1 TTTTTTATTTATTTATTTTGAT
10479986 TTTGATTTATTTA-TTATTTAT-AT
1 TTT--TTTATTTATTTATTT-TGAT
10480009 TTTTT
1 TTTTT
10480014 ATGCCTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 11 0.44
24 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTATTTATTTATTTTGAT
Found at i:10481266 original size:5 final size:5
Alignment explanation
Indices: 10481256--10481314 Score: 66
Period size: 5 Copynumber: 11.4 Consensus size: 5
10481246 AGTAATAAAT
* *
10481256 AATAA AATAA ATTAATA AATAA AGT-A AATAA AATAA AATAA AATAA AATAAA
1 AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA
10481308 AATAA AA
1 AATAA AA
10481315 ATTGGGTGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 3 0.07
5 33 0.72
6 7 0.15
7 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:10481273 original size:20 final size:20
Alignment explanation
Indices: 10481248--10481308 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
10481238 TCCAAATAAG
*
10481248 TAATAAATAATAAAATAAAT
1 TAATAAATAATAAAATAAAA
10481268 TAATAAATAA-AGTAAATAAAA
1 TAATAAATAATA--AAATAAAA
*
10481289 TAA-AATAAAATAAAATAAAA
1 TAATAA-ATAATAAAATAAAA
10481309 ATAAAAATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 20 0.57
21 13 0.37
22 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
TAATAAATAATAAAATAAAA
Found at i:10481310 original size:26 final size:28
Alignment explanation
Indices: 10481249--10481314 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
10481239 CCAAATAAGT
*
10481249 AATAAATAATAAAATAAATTAATAAATAA
1 AATAAA-AATAAAATAAAATAATAAATAA
*
10481278 AGT--AAATAAAATAAAAT-A-AAATAA
1 AATAAAAATAAAATAAAATAATAAATAA
10481302 AATAAAAATAAAA
1 AATAAAAATAAAA
10481315 ATTGGGTGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 8 0.25
25 1 0.03
26 20 0.62
27 1 0.03
29 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
AATAAAAATAAAATAAAATAATAAATAA
Found at i:10489030 original size:2 final size:2
Alignment explanation
Indices: 10489018--10489059 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
10489008 AAGAATAGGT
*
10489018 AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10489060 CCAATAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10491354 original size:24 final size:24
Alignment explanation
Indices: 10491322--10491371 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
10491312 TTAAATAAAC
*
10491322 TTAAATGAAAAGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAAAGTTATG
* *
10491346 TTAAATGAAAGGTTAAAAGTTATG
1 TTAAATGAAAAGTCAAAAGTTATG
10491370 TT
1 TT
10491372 TTTAATGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAAAGTTATG
Found at i:10495873 original size:17 final size:17
Alignment explanation
Indices: 10495851--10495883 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10495841 GATATAGTAA
10495851 TGTGAACAATTTTACAT
1 TGTGAACAATTTTACAT
10495868 TGTGAACAATTTTACA
1 TGTGAACAATTTTACA
10495884 CCAATACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTGAACAATTTTACAT
Found at i:10498116 original size:30 final size:30
Alignment explanation
Indices: 10498082--10498142 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
10498072 TATGAGCAAG
10498082 TAAGGTTAAAACATTCTTTTAAAACACTAA
1 TAAGGTTAAAACATTCTTTTAAAACACTAA
10498112 TAAGGTTAAAACATTCTTTTAAAACACTAA
1 TAAGGTTAAAACATTCTTTTAAAACACTAA
10498142 T
1 T
10498143 GAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (30 bp):
TAAGGTTAAAACATTCTTTTAAAACACTAA
Found at i:10507361 original size:44 final size:44
Alignment explanation
Indices: 10507313--10508138 Score: 305
Period size: 44 Copynumber: 18.6 Consensus size: 44
10507303 TTTAATTCGT
* * *
10507313 TCCACTGTAACTTCAGGGAGATAGGATTGGTTTATTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCATTCAATCTGC
* *
10507357 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCAGTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCATTCAATCTGC
* * * *
10507401 TCTACTACAACTTCAGGAAGATAAGACTT-GTTGGC-TTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGGTT--CATTCAATCTGC
* ** *
10507446 TCCACTGCAACTTCAGGGGGATAAGATTGG---ACGCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCATTCAATCTGC
* * * * *** * *
10507487 TCTACTGCATC-TCTAGAGAGATAATA-TCCATCATTTTAATCCGC
1 TCCACTGCAACTTC-AGGGAGATAAGATTGGTTCA-TTCAATCTGC
* * * * * *
10507531 TCCACTACAACTTTAGGGAGGTAGGATTAG-TAACTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCA-TTCAATCTGC
* * *
10507575 TCCACTGCAACTTCAGGGAGATAAGATTGGTTTAGTT-AGTTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCA-TTCAATCTGC
* *
10507619 TCCTCTGCAACTTCAGGGAGATAAGACTT-GTTGGC-TTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGGTT--CATTCAATCTGC
* *
10507664 TCCACTACAACTTCAGGGAGATAAGATT--TTCCATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTT-CA--TTCAATCTGC
* * **
10507709 CCCACTGCAACTTCAGGGGGATAAGACTTACTTTC-TTCAAT-T--
1 TCCACTGCAACTTCAGGGAGATAAGA-TT-GGTTCATTCAATCTGC
** *
10507751 T----T--AACGCCAGGGAGATAAGATTCGCTGCTTTCAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-G--G--TTCA--TTCAATCTGC
* * * * * * * * *
10507796 TCCGCTGTAA-TGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGT
1 TCCACTGCAACTTC-AGGGAGATAAGATT-G----GTTCA--TTCAATCTGC
* * * **
10507847 TCCACTGTAA-TGCCAATGG-GATAAG-TCTGGTGT-ATTCAATCCAC
1 TCCACTGCAACT-TC-AGGGAGATAAGAT-TGGT-TCATTCAATCTGC
* * *** * * *
10507891 TCCACTACAACTTCAGGGAGATATGA-TCCATCATTTTAATCCGT
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCA-TTCAATCTGC
* * * * *
10507935 TCCACTGCAACTTCAGGAAGGTAGGATTAG-TAACTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCA-TTCAATCTGC
** * * * *
10507979 TATACTGCAACTTCAGAGAGATAAGATTGGTTTAGTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCATTCAATCTGC
* * *
10508023 TCCATTGCATCTTGAGGGAGATAAGACTT-GTTGGC-TTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGGTT--CATTCAATCTGC
* * *
10508068 TCCATTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCA--TTCAATCTGC
* *
10508113 CCCACTGCAACTTCAGGGGGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
10508139 CTTACTTTCT
Statistics
Matches: 580, Mismatches: 142, Indels: 119
0.69 0.17 0.14
Matches are distributed among these distances:
35 2 0.00
36 15 0.03
38 1 0.00
39 3 0.01
40 3 0.01
41 24 0.04
42 8 0.01
43 9 0.02
44 276 0.48
45 177 0.31
46 5 0.01
47 1 0.00
48 1 0.00
49 3 0.01
50 3 0.01
51 45 0.08
52 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGGTTCATTCAATCTGC
Found at i:10507571 original size:218 final size:218
Alignment explanation
Indices: 10507260--10507691 Score: 636
Period size: 218 Copynumber: 2.0 Consensus size: 218
10507250 AAAGTCTGAT
* * * * **
10507260 GCGATCTGCTCTACTACAACTTCAGATAGATAAAATCCATCTTTTTAATTCGTTCCACTGTAACT
1 GCGATCTGCTCTACTACAACTTCAGAGAGATAAAATCCATCATTTTAATCCGCTCCACTACAACT
* *
10507325 TCAGGGAGATAGGATTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTC
66 TCAGGGAGATAGGATTAGTTAATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTC
*
10507390 AGTCAGTCTGCT-CTACTACAACTTCAGGAAGATAAGACTTGTTGGCTTTAATCTGCTCCACTGC
131 AGTCAGTCTGCTCCT-CTACAACTTCAGGAAGATAAGACTTGTTGGCTTTAATCTGCTCCACTAC
*
10507454 AACTTCAGGGGGATAAGATTGGAC
195 AACTTCAGGGAGATAAGATTGGAC
* * *
10507478 GCGATCTGCTCTACTGCATC-TCTAGAGAGATAATATCCATCATTTTAATCCGCTCCACTACAAC
1 GCGATCTGCTCTACTACAACTTC-AGAGAGATAAAATCCATCATTTTAATCCGCTCCACTACAAC
* *
10507542 TTTAGGGAGGTAGGATTAG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT
65 TTCAGGGAGATAGGATTAGTTAA-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT
* * * * *
10507606 TTAGTTAGTTTGCTCCTCTGCAACTTCAGGGAGATAAGACTTGTTGGCTTTAATCTGCTCCACTA
129 TCAGTCAGTCTGCTCCTCTACAACTTCAGGAAGATAAGACTTGTTGGCTTTAATCTGCTCCACTA
10507671 CAACTTCAGGGAGATAAGATT
194 CAACTTCAGGGAGATAAGATT
10507692 TTCCATCTTC
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
217 4 0.02
218 185 0.97
219 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (218 bp):
GCGATCTGCTCTACTACAACTTCAGAGAGATAAAATCCATCATTTTAATCCGCTCCACTACAACT
TCAGGGAGATAGGATTAGTTAATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTC
AGTCAGTCTGCTCCTCTACAACTTCAGGAAGATAAGACTTGTTGGCTTTAATCTGCTCCACTACA
ACTTCAGGGAGATAAGATTGGAC
Found at i:10508003 original size:404 final size:403
Alignment explanation
Indices: 10507504--10508265 Score: 1233
Period size: 404 Copynumber: 1.9 Consensus size: 403
10507494 CATCTCTAGA
* *
10507504 GAGATAATATCCATCATTTTAATCCGCTCCACTACAACTTTAGGGAGGTAGGATTAGTAACTTCA
1 GAGATAATATCCATCATTTTAATCCGCTCCACTACAACTTCAGGAAGGTAGGATTAGTAACTTCA
* * * *
10507569 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTAGTTAGTTTGCTCC-TCTGCAACTTC
66 ATCTGCTACACTGCAACTTCAGAGAGATAAGATTGGTTTAGTCAGTCTGCTCCAT-TGCAACTTC
*
10507633 AGGGAGATAAGACTTGTTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT-TCCA
130 AGGGAGATAAGACTTGTTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT-CA
*
10507697 TCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTTCTTCAATTTTAACGCCAGG
194 TCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTTCTTCAATTTTAACGCCAGG
* * * * *
10507762 GAGATAAGATTCGCTGCTTTCAGCTTTAATCTGCTCCGCTGTAATGCTAGGGAAACAAGATTCGC
259 AAGATAAGATTCGCTGC-TTCAGCTTTAATCGGCTCCGCTGCAATGCCAGGGAAACAAGATTCAC
* *
10507827 TACCTTTAGCTTTAATCTGTTCCACTGTAATGCCAATGGGATAAGTCTGGTGTATTCAATCCACT
323 TACATTTAGCTTTAATCTGTTCCACTGTAACGCCAATGGGATAAGTCTGGTGTATTCAATCCACT
10507892 CCACTACAACTTCAGG
388 CCACTACAACTTCAGG
* *
10507908 GAGAT-ATGATCCATCATTTTAATCCGTTCCACTGCAACTTCAGGAAGGTAGGATTAGTAACTTC
1 GAGATAAT-ATCCATCATTTTAATCCGCTCCACTACAACTTCAGGAAGGTAGGATTAGTAACTTC
* * *
10507972 AATCTGCTATACTGCAACTTCAGAGAGATAAGATTGGTTTAGTCAGTCTGCTCCATTGCATCTTG
65 AATCTGCTACACTGCAACTTCAGAGAGATAAGATTGGTTTAGTCAGTCTGCTCCATTGCAACTTC
* *
10508037 AGGGAGATAAGACTTGTTGGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTCAT
130 AGGGAGATAAGACTTGTTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTCAT
* *
10508102 CTTCAATTTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTTCTTCAATTTTAATGCCAGGA
195 CTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTTCTTCAATTTTAACGCCAGGA
* *
10508167 AGATAAGATTTGGTGCTTCAGCTTTAATCGGCTCCGCTGCAATGCCAGGGAAACAAGATTCACTA
260 AGATAAGATTCGCTGCTTCAGCTTTAATCGGCTCCGCTGCAATGCCAGGGAAACAAGATTCACTA
10508232 CATTTAGCTTTAATCTGTTCCACTGTAACGCCAA
325 CATTTAGCTTTAATCTGTTCCACTGTAACGCCAA
10508266 GGAGATTAGA
Statistics
Matches: 329, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
403 79 0.24
404 248 0.75
405 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (403 bp):
GAGATAATATCCATCATTTTAATCCGCTCCACTACAACTTCAGGAAGGTAGGATTAGTAACTTCA
ATCTGCTACACTGCAACTTCAGAGAGATAAGATTGGTTTAGTCAGTCTGCTCCATTGCAACTTCA
GGGAGATAAGACTTGTTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTCATC
TTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTTCTTCAATTTTAACGCCAGGAA
GATAAGATTCGCTGCTTCAGCTTTAATCGGCTCCGCTGCAATGCCAGGGAAACAAGATTCACTAC
ATTTAGCTTTAATCTGTTCCACTGTAACGCCAATGGGATAAGTCTGGTGTATTCAATCCACTCCA
CTACAACTTCAGG
Found at i:10508154 original size:45 final size:45
Alignment explanation
Indices: 10508057--10508155 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
10508047 GACTTGTTGG
* * * **
10508057 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTCAT
1 CTTCAATTTGCCCCACTGCAACTTCAGGGAGATAAGATTACTCAT
* *
10508102 CTTCAATTTGCCCCACTGCAACTTCAGGGGGATAAGACTTACT-TT
1 CTTCAATTTGCCCCACTGCAACTTCAGGGAGATAAGA-TTACTCAT
10508147 CTTCAATTT
1 CTTCAATTT
10508156 TAATGCCAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 43 0.93
46 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (45 bp):
CTTCAATTTGCCCCACTGCAACTTCAGGGAGATAAGATTACTCAT
Found at i:10508325 original size:21 final size:21
Alignment explanation
Indices: 10508285--10508327 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10508275 ATTTGCTGCT
*
10508285 TTCAGCTTTAATCCGCTCCAC
1 TTCAGCTTTAATCCACTCCAC
* *
10508306 TTCAGCTTTAATCTATTCCAC
1 TTCAGCTTTAATCCACTCCAC
10508327 T
1 T
10508328 ACAATGCCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (21 bp):
TTCAGCTTTAATCCACTCCAC
Found at i:10509958 original size:46 final size:45
Alignment explanation
Indices: 10509907--10510030 Score: 196
Period size: 44 Copynumber: 2.8 Consensus size: 45
10509897 CATCTTTTGG
* *
10509907 ACTCAAAGCGCTCTTTGCGGGTTTTCACCTTGGTTTTTTTTTTAGA
1 ACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGG-TTTTTTTTTAGA
*
10509953 ACTCAAAGCGCCCTTTGTGGGTTTTCACATTGG-TTTTTTTTAGA
1 ACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTTTTTTTTTAGA
*
10509997 ACTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGT
1 ACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGT
10510031 CCTCTTTCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.58
46 30 0.42
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (45 bp):
ACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTTTTTTTTTAGA
Found at i:10519845 original size:40 final size:39
Alignment explanation
Indices: 10519791--10519900 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 39
10519781 CGTTTGGGCA
** * *
10519791 AAAAACGCCACTAAAAATCAAGCATTAGCTGCGCTTTTAT
1 AAAAACGCTGCTAAAAAT-AAGCATTAGCGGCGCTTTTAG
** *
10519831 AAAAACGCTGCTAAAGGTAGAGCATTAGCGGCGCTTTTCG
1 AAAAACGCTGCTAAAAATA-AGCATTAGCGGCGCTTTTAG
*
10519871 AAAAACACTGCTAAAAATAAGCATTAGCGG
1 AAAAACGCTGCTAAAAATAAGCATTAGCGG
10519901 TGTTTTCTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 12 0.20
40 47 0.80
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (39 bp):
AAAAACGCTGCTAAAAATAAGCATTAGCGGCGCTTTTAG
Found at i:10522540 original size:150 final size:149
Alignment explanation
Indices: 10522369--10522769 Score: 601
Period size: 148 Copynumber: 2.7 Consensus size: 149
10522359 AAATAATTTT
10522369 AAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAAACGTCACAAAAAATAATTT
1 AAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAAAC-TCACAAAAAATAATTT
* *
10522434 TACTTTAAAAAAATAGCGCCCTTTTAGTATAGCAAAACAATGTCGTTTTATTCCAAATAAAATAA
65 TACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAACAATATCGTTTTATTCCAAATAAAATAA
*** *
10522499 TTTTTTGCGGCGTTTTCATG
130 TTTTTTGAAACATTTTCATG
* *
10522519 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACACT-ACAAAAAATAATTTT
1 AAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAAACTCACAAAAAATAATTTT
* *
10522583 ACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAATAGTATCGTTTTATTCCAAATAAAATAAT
66 ACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAACAATATCGTTTTATTCCAAATAAAATAAT
*
10522648 TTTTTGAAACATTTTTATG
131 TTTTTGAAACATTTTCATG
* *
10522667 AAAAACGCCGTAAAAGATAAGCAATAGCGACGTTTTTATAAAAAAACAC-CACAAAAAAATAATT
1 AAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAA-ACTCAC-AAAAAATAATT
* ** *
10522731 TTA-TTTTAAAAAATAATGCCCTTTTAACATAGCAAAACA
64 TTACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAACA
10522770 GATAGCGGCA
Statistics
Matches: 228, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
148 132 0.58
149 36 0.16
150 60 0.26
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (149 bp):
AAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAAAACTCACAAAAAATAATTTT
ACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAACAATATCGTTTTATTCCAAATAAAATAAT
TTTTTGAAACATTTTCATG
Found at i:10525769 original size:43 final size:43
Alignment explanation
Indices: 10525703--10525788 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
10525693 AGTTCATTAT
*
10525703 AAGATTTCCTTGATTAAATAAATGTATTATATCTTTTATTACC
1 AAGATTTACTTGATTAAATAAATGTATTATATCTTTTATTACC
* *
10525746 AAGATTTACTTGATTAAGA-AAATGTATTGTATGTTTTATTACC
1 AAGATTTACTTGATTAA-ATAAATGTATTATATCTTTTATTACC
10525789 TTGCATATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.45
Consensus pattern (43 bp):
AAGATTTACTTGATTAAATAAATGTATTATATCTTTTATTACC
Found at i:10526230 original size:43 final size:42
Alignment explanation
Indices: 10526167--10526406 Score: 275
Period size: 43 Copynumber: 5.6 Consensus size: 42
10526157 CCGCACAAAA
* *
10526167 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-GGAAAAGC
* * * * *
10526210 GTCGCTAAAGGTGTTTGTCTTTAGTGGCGTTTGTGATAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTG-GAAAAGC
* *
10526253 GCCGCTAATGGTCTTGGTCTTTAGTGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGG-AAAAGC
* * *
10526296 GCCGCTAAAGGTCATT-GTCTTTAACGGCATTTGTGAAAGAAGC
1 GCCGCTAAAGGTC-TTGGTCTTTAGCGGCGTTTGTGGAA-AAGC
*
10526339 GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-GGAAAAGC
* * *
10526382 GCCGTTAAAGGTCTTGTTATTTAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGC
10526407 AAAGCGCCGC
Statistics
Matches: 166, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.03
43 156 0.94
44 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (42 bp):
GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAGC
Found at i:10526314 original size:86 final size:84
Alignment explanation
Indices: 10526167--10526398 Score: 313
Period size: 86 Copynumber: 2.7 Consensus size: 84
10526157 CCGCACAAAA
* * * * *
10526167 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTGTTTGTCTTT
1 GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGT-CTTGTCTTT
** *
10526232 AGTGGCGTTTGTGATAA-AAGC
64 AACGGCATTTGTGA-AAGAAGC
*
10526253 GCCGCTAATGGTCTTGGTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATTGTCTTT
1 GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTC-TTGTCTTT
10526318 AACGGCATTTGTGAAAGAAGC
64 AACGGCATTTGTGAAAGAAGC
*
10526339 GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGT
1 GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGT
10526399 TATTTAGCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
85 8 0.06
86 121 0.92
87 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (84 bp):
GCCGCTAATGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGTCTTTAA
CGGCATTTGTGAAAGAAGC
Found at i:10526405 original size:129 final size:129
Alignment explanation
Indices: 10526167--10526405 Score: 318
Period size: 129 Copynumber: 1.9 Consensus size: 129
10526157 CCGCACAAAA
* * * * * *
10526167 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTGTTTGTCTTT
1 GCCGCTAAAGATCATGGTCTTTAACGGCATTTGTAGAAAAAGCGCCGCTAAAGGTCTTGGTCTTT
* * * *
10526232 AGTGGCGTTTGTGATAAAAGCGCCGCTAATGGTCTTGGTCTTTAGTGGCGTTTGTGGTAAAAGC
66 AGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGTGGCGTTTGTGGTAAAAGC
* * *
10526296 GCCGCTAAAGGTCATTGTCTTTAACGGCATTTGT-GAAAGAAGCGCCGCTAATGGTCTTGGTCTT
1 GCCGCTAAAGATCATGGTCTTTAACGGCATTTGTAGAAA-AAGCGCCGCTAAAGGTCTTGGTCTT
* * *
10526360 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGTTATTTAG
65 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTATTTAG
10526406 CAAAGCGCCG
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
128 3 0.03
129 90 0.97
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (129 bp):
GCCGCTAAAGATCATGGTCTTTAACGGCATTTGTAGAAAAAGCGCCGCTAAAGGTCTTGGTCTTT
AGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGTGGCGTTTGTGGTAAAAGC
Done.