Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 112 of 160
Found at i:21258833 original size:2 final size:2
Alignment explanation
Indices: 21258826--21258863 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21258816 AGAAATTTTA
21258826 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21258864 CATGTTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21260158 original size:24 final size:24
Alignment explanation
Indices: 21260116--21260162 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21260106 TATTTATTAA
*
21260116 AATCATTTATAATATATTATTTAC
1 AATCATTTATAATAAATTATTTAC
**
21260140 AATCATTTATCTTAAATTATTTA
1 AATCATTTATAATAAATTATTTA
21260163 ATATAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (24 bp):
AATCATTTATAATAAATTATTTAC
Found at i:21261384 original size:24 final size:25
Alignment explanation
Indices: 21261339--21261386 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21261329 ACTTATATCA
* * *
21261339 ATTTTTTATTATTTTTGCTTTTCTT
1 ATTTTATATGATTTTTGATTTTCTT
21261364 ATTTTATATGATTTTT-ATTTTCT
1 ATTTTATATGATTTTTGATTTTCT
21261387 AAAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (25 bp):
ATTTTATATGATTTTTGATTTTCTT
Found at i:21262664 original size:12 final size:12
Alignment explanation
Indices: 21262628--21262666 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21262618 ATACCTTATA
21262628 TTTCTTTTCCTT
1 TTTCTTTTCCTT
* *
21262640 TTTGTTTCCCTT
1 TTTCTTTTCCTT
*
21262652 TTTCTTTTTCTT
1 TTTCTTTTCCTT
21262664 TTT
1 TTT
21262667 TTGTCAACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTCTTTTCCTT
Found at i:21263473 original size:18 final size:18
Alignment explanation
Indices: 21263417--21263474 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 18
21263407 TAATGAACTT
*
21263417 CTTTTTTCTTTTTTAATA
1 CTTTTTTCTTTTTTTATA
*
21263435 -TTTTTT-TATTTTT-TA
1 CTTTTTTCTTTTTTTATA
**
21263450 GGTTTTTCTTTTTTTATA
1 CTTTTTTCTTTTTTTATA
21263468 CTTTTTT
1 CTTTTTT
21263475 ATTAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 12 0.39
18 7 0.23
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (18 bp):
CTTTTTTCTTTTTTTATA
Found at i:21263934 original size:9 final size:9
Alignment explanation
Indices: 21263920--21263962 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
21263910 GACACCTTAC
21263920 CTTTTTTTT
1 CTTTTTTTT
*
21263929 CTTTTTATT
1 CTTTTTTTT
21263938 CTTTTTTTGT
1 CTTTTTTT-T
**
21263948 GATTTTTTT
1 CTTTTTTTT
21263957 CTTTTT
1 CTTTTT
21263963 CCTTTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:21265402 original size:25 final size:27
Alignment explanation
Indices: 21265365--21265421 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
21265355 TATAAATTAT
*
21265365 TATTTTAGATT-AATTAGA-ATTAATA
1 TATTTTAGATTAAAATAGATATTAATA
* * *
21265390 TATTTTTGTTTAAAATATATATTAATA
1 TATTTTAGATTAAAATAGATATTAATA
21265417 TATTT
1 TATTT
21265422 ACAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 9 0.35
26 5 0.19
27 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (27 bp):
TATTTTAGATTAAAATAGATATTAATA
Found at i:21266281 original size:16 final size:17
Alignment explanation
Indices: 21266262--21266305 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
21266252 AGGTTTTTTT
21266262 TATAAATATATTTT-AA
1 TATAAATATATTTTCAA
*
21266278 TATATATAT-TTTTCAA
1 TATAAATATATTTTCAA
*
21266294 TAAAAATATATT
1 TATAAATATATT
21266306 AATTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 17 0.74
17 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAAATATATTTTCAA
Found at i:21268263 original size:50 final size:49
Alignment explanation
Indices: 21268144--21268259 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 49
21268134 AAATGACTAT
**
21268144 TTTTAGTAATTTTTAATTATTTACAGCAAAAGTATTATAATAAATATAA
1 TTTTAGTAATTTTTAATTATTTACAGCAAAAACATTATAATAAATATAA
* * * *
21268193 TTTTAGTTATTTTTTATTATTTGTCAAG-AAAAACATTATTATAAA-ATAA
1 TTTTAGTAATTTTTAATTATTT-AC-AGCAAAAACATTATAATAAATATAA
*
21268242 TTTTAATAATTTTTAATT
1 TTTTAGTAATTTTTAATT
21268260 TATTAATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 39 0.70
50 15 0.27
51 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (49 bp):
TTTTAGTAATTTTTAATTATTTACAGCAAAAACATTATAATAAATATAA
Found at i:21268891 original size:24 final size:24
Alignment explanation
Indices: 21268844--21268892 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
21268834 CATAATCTTT
* *
21268844 TCTTAAAATATTAAAAATTGATAA
1 TCTTAAAATATAAAAAAATGATAA
21268868 TCTTAAATATATAAAAAAAT-ATAA
1 TCTTAAA-ATATAAAAAAATGATAA
21268892 T
1 T
21268893 AGTAAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
TCTTAAAATATAAAAAAATGATAA
Found at i:21272366 original size:8 final size:8
Alignment explanation
Indices: 21272312--21272368 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
21272302 ACTTTTTGTT
21272312 TTTTTTAA
1 TTTTTTAA
*
21272320 TTCTTTAA
1 TTTTTTAA
21272328 TTTTTTAAGA
1 TTTTTT-A-A
21272338 TTTTCTT-A
1 TTTT-TTAA
*
21272346 TTTTTGTAT
1 TTTTT-TAA
21272355 TTTTTTAA
1 TTTTTTAA
21272363 TTTTTT
1 TTTTTT
21272369 CCTTTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
7 1 0.03
8 26 0.65
9 6 0.15
10 5 0.12
11 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTTTTAA
Found at i:21272477 original size:46 final size:46
Alignment explanation
Indices: 21272427--21272533 Score: 144
Period size: 46 Copynumber: 2.3 Consensus size: 46
21272417 TAAGATATTT
* * * * *
21272427 CACAATTTTTGAAAATAAATTTAAAAGCTCCTTTTA-CTAGAGGCTC
1 CACAACTTTTGAAAATAAATTTAAAAACTCATTTCATC-AAAGGCTC
*
21272473 CACAACTTTTGAAAATAAATTTAAAAACTCATTTCATCAAAGGTTC
1 CACAACTTTTGAAAATAAATTTAAAAACTCATTTCATCAAAGGCTC
21272519 CACAACTTTTGAAAA
1 CACAACTTTTGAAAA
21272534 CTAATACCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 53 0.98
47 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (46 bp):
CACAACTTTTGAAAATAAATTTAAAAACTCATTTCATCAAAGGCTC
Found at i:21272755 original size:84 final size:84
Alignment explanation
Indices: 21272667--21272824 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
21272657 ACACCCAAAA
* * * * * * * * * *
21272667 GTCTTATAAAACTCGAAATTTAAATAGATTCAGCTTGTAAGATTTACGAATCTTGCCTGAAAGGC
1 GTCTTATAAAACTCGAAACTAAAACAAATTCAACTTGAAAGACTTACGAATCTTACCCGAAAGAC
21272732 TTAGAGATTGTACTTGAAG
66 TTAGAGATTGTACTTGAAG
** * *
21272751 GTCTTATAATTCTCGATACTAAAACAAATTCAACTTGAAAGACTTATGAATCTTACCCGAAAGAC
1 GTCTTATAAAACTCGAAACTAAAACAAATTCAACTTGAAAGACTTACGAATCTTACCCGAAAGAC
21272816 TTAGAGATT
66 TTAGAGATT
21272825 AAGCTCAAAG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (84 bp):
GTCTTATAAAACTCGAAACTAAAACAAATTCAACTTGAAAGACTTACGAATCTTACCCGAAAGAC
TTAGAGATTGTACTTGAAG
Found at i:21275647 original size:13 final size:14
Alignment explanation
Indices: 21275631--21275667 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
21275621 GCTTTTCAAA
21275631 ATTTTTTTTTTG-G
1 ATTTTTTTTTTGAG
21275644 A-TTTTTTTTTGAG
1 ATTTTTTTTTTGAG
21275657 ACTTTTTTTTT
1 A-TTTTTTTTT
21275668 ATTTTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.48
13 3 0.14
15 8 0.38
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (14 bp):
ATTTTTTTTTTGAG
Found at i:21278800 original size:37 final size:38
Alignment explanation
Indices: 21278738--21278860 Score: 101
Period size: 38 Copynumber: 3.3 Consensus size: 38
21278728 TAAAATTGAC
* *
21278738 ACTA-CTAA-TAAAATGTA-CATAAGATAGAGTGCATGT
1 ACTATCTAATTAAAATG-AGCATGAGATAGAATGCATGT
* * * **
21278774 ACTAT-TTATTGAAATGAGCATGAGATAAAATATATGT
1 ACTATCTAATTAAAATGAGCATGAGATAGAATGCATGT
* * **
21278811 ACTATCTAATTAAAATGTGCATGAGATGGAATGCATAC
1 ACTATCTAATTAAAATGAGCATGAGATAGAATGCATGT
*
21278849 ACTATCTTATTA
1 ACTATCTAATTA
21278861 TTTTCAACAT
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
36 7 0.11
37 25 0.38
38 34 0.52
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (38 bp):
ACTATCTAATTAAAATGAGCATGAGATAGAATGCATGT
Found at i:21279779 original size:24 final size:22
Alignment explanation
Indices: 21279744--21279787 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
21279734 AGTGGTATGT
21279744 ACAAAAATACATAATAAAAAAA
1 ACAAAAATACATAATAAAAAAA
*
21279766 ACAATAAATGACATAATTAAAA
1 ACAA-AAAT-ACATAATAAAAA
21279788 TAAGAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 11 0.58
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.18
Consensus pattern (22 bp):
ACAAAAATACATAATAAAAAAA
Found at i:21280324 original size:20 final size:20
Alignment explanation
Indices: 21280299--21280339 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21280289 CTTTTTTCTC
*
21280299 TCTTTTTTTTAAAAATAAGA
1 TCTTTTATTTAAAAATAAGA
*
21280319 TCTTTTATTTAGAAATAAGA
1 TCTTTTATTTAAAAATAAGA
21280339 T
1 T
21280340 GAAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (20 bp):
TCTTTTATTTAAAAATAAGA
Found at i:21282600 original size:144 final size:142
Alignment explanation
Indices: 21282284--21282601 Score: 326
Period size: 144 Copynumber: 2.2 Consensus size: 142
21282274 TTAATATATC
* * * * **
21282284 AAAAATTATAAAATAATATGAAATCATAATCTAAAGGATTTTGTAAAAACTGACTACAGAAAGAT
1 AAAAATCATAAAATAATATAAAATCATGATCTAAAGGATTTCGTAAAAACCAACTACAGAAAGAT
* * *
21282349 CAAAATACAAAAATATTTCGAAAGGTATTGTGATAATTTCATGCCTTTCAAGGTGTGATCAAGGT
66 CAAAATACAAAAATATTCCGAAAGGTATTGTGATAATTTCATACCTTTCAAGGTGTGATCAAGGG
21282414 TTTTAATGCATA
131 TTTTAATGCATA
* * * *
21282426 AAAAATCATGAAATAATTTCAAAA-CCTGATCTAGAATG-TTTCGTAAAAAACCAACCT-CAGAA
1 AAAAATCATAAAATAATAT-AAAATCATGATCTA-AAGGATTTCGT-AAAAACCAA-CTACAGAA
* * * * **
21282488 A-AGTCAAATTATAAAAATATTCCTAAAGGGTATT-TTAGTAATTTCATACCTTTCAATTTGCT-
62 AGA-TCAAAATACAAAAATATTCCGAAA-GGTATTGTGA-TAATTTCATACCTTTCAAGGTG-TG
*
21282550 ATTAAGGGTTTTAATGCACT-
123 ATCAAGGGTTTTAATGCA-TA
21282570 AAAAATCATAAAATAATATAAAATCATGATCT
1 AAAAATCATAAAATAATATAAAATCATGATCT
21282602 GAAGCATATC
Statistics
Matches: 143, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
142 29 0.20
143 45 0.31
144 67 0.47
145 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (142 bp):
AAAAATCATAAAATAATATAAAATCATGATCTAAAGGATTTCGTAAAAACCAACTACAGAAAGAT
CAAAATACAAAAATATTCCGAAAGGTATTGTGATAATTTCATACCTTTCAAGGTGTGATCAAGGG
TTTTAATGCATA
Found at i:21282618 original size:144 final size:143
Alignment explanation
Indices: 21282341--21282650 Score: 310
Period size: 144 Copynumber: 2.2 Consensus size: 143
21282331 AACTGACTAC
* * * *
21282341 AGAAAGATCAAAATACAAAAATATTTCGAAAGGTATTGTGATAATTTCATGCCTTTCAAGGTGTG
1 AGAAAG-TCAAATTATAAAAATATTCCGAAAGGTATTGTGATAATTTCATACCTTTCAAGGTGTG
* * * * * *
21282406 ATCAAGGTTTTTAATGCATAAAAAATCATGAAATAATTTCAAAACCTGATCTAGAATGTTTCGTA
65 ATCAAGGGTTTTAATGCATAAAAAATCATAAAATAATATCAAAACATGATCTAGAATGTATCGCA
21282471 AAAAACCAACCTCAG
130 AAAAACCAA-CTCAG
* * **
21282486 A-AAAGTCAAATTATAAAAATATTCCTAAAGGGTATT-TTAGTAATTTCATACCTTTCAATTTGC
1 AGAAAGTCAAATTATAAAAATATTCCGAAA-GGTATTGTGA-TAATTTCATACCTTTCAAGGTG-
*
21282549 T-ATTAAGGGTTTTAATGCACT-AAAAATCATAAAATAATAT-AAAATCATGATCT-GAA-GCAT
63 TGATCAAGGGTTTTAATGCA-TAAAAAATCATAAAATAATATCAAAA-CATGATCTAGAATG--T
*** * *
21282609 ATCGCAAAAAATGGATTTAG
124 ATCGCAAAAAACCAACTCAG
21282629 AGAAAGTCAAATTATAAAAATA
1 AGAAAGTCAAATTATAAAAATA
21282651 CCCCTAAAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
142 1 0.01
143 33 0.24
144 100 0.73
145 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (143 bp):
AGAAAGTCAAATTATAAAAATATTCCGAAAGGTATTGTGATAATTTCATACCTTTCAAGGTGTGA
TCAAGGGTTTTAATGCATAAAAAATCATAAAATAATATCAAAACATGATCTAGAATGTATCGCAA
AAAACCAACTCAG
Found at i:21282657 original size:144 final size:143
Alignment explanation
Indices: 21282487--21282846 Score: 341
Period size: 142 Copynumber: 2.5 Consensus size: 143
21282477 CAACCTCAGA
* * * *
21282487 AAAGTCAAATTATAAAAATATTCCTAAAGGGTATTTTAGTAATTTCATACCTTTCAATTTGCTAT
1 AAAGTCAAATTATAAAAATACTCCTAAAGGGTA-ATTAGTAATTTCATACCTTTCAATGTGCGAT
* * * * *
21282552 TAAGGGTTTTAATGCACTAAAAATCATAAAATAATATAAAATCATGATCTGAAGCATATCGCAAA
65 CAAGGGTTTTAATACACCAAAAATAATAAAATAATATAAAATCATGATCTGAAGCATATAGCAAA
*
21282617 AAATGGATTTAGAG
130 AAATGGACTTAGAG
* ** **
21282631 AAAGTCAAATTATAAAAATACCCCTAAA--AAACATTAGTAATTTCATATTTTTCAATGTGCGAT
1 AAAGTCAAATTATAAAAATACTCCTAAAGGGTA-ATTAGTAATTTCATACCTTTCAATGTGCGAT
* * * * * * * ** * *
21282694 CAAGGTTTTTAATACCCCCAAAATAATAAAATGATATCAAATGATGATTTGGGGCTTTTAGCAAA
65 CAAGGGTTTTAATACACCAAAAATAATAAAATAATATAAAATCATGATCTGAAGCATATAGCAAA
* *
21282759 AAATTGACTTCGAG
130 AAATGGACTTAGAG
* * * * * * *
21282773 AAGGTTAAATTACAAAAATACTCTTAAAGGGTACTTAGGTAATTTCAT-CCTTTTCAATGTACAA
1 AAAGTCAAATTATAAAAATACTCCTAAAGGGTAATTA-GTAATTTCATACC-TTTCAATGTGCGA
21282837 TC-AGGGTTTT
64 TCAAGGGTTTT
21282847 CAACGCATAA
Statistics
Matches: 170, Mismatches: 42, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
142 110 0.65
143 10 0.06
144 50 0.29
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (143 bp):
AAAGTCAAATTATAAAAATACTCCTAAAGGGTAATTAGTAATTTCATACCTTTCAATGTGCGATC
AAGGGTTTTAATACACCAAAAATAATAAAATAATATAAAATCATGATCTGAAGCATATAGCAAAA
AATGGACTTAGAG
Found at i:21302447 original size:15 final size:16
Alignment explanation
Indices: 21302429--21302468 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
21302419 TTATTTTTGC
21302429 AAAAAATTTTT-TAAA
1 AAAAAATTTTTATAAA
21302444 AAAAACATTTTTATAAA
1 AAAAA-ATTTTTATAAA
21302461 AATAAAAT
1 AA-AAAAT
21302469 GAAATTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 8 0.36
18 3 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAAATTTTTATAAA
Found at i:21306679 original size:3 final size:3
Alignment explanation
Indices: 21306665--21306766 Score: 132
Period size: 3 Copynumber: 34.0 Consensus size: 3
21306655 AACAAGATAG
* *
21306665 TGA TGA TAA TGA TGA TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
* * * * *
21306713 TAA TGA GGA TGA TAA TGA TGA TGA TGA GGA TGA TGA TGA TGA TAA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
*
21306761 TTA TGA
1 TGA TGA
21306767 AACACATGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:21307156 original size:18 final size:18
Alignment explanation
Indices: 21307129--21307163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21307119 CATGATCCAA
21307129 CATACAGGTCAACTTCAT
1 CATACAGGTCAACTTCAT
* *
21307147 CATACGGGTCAAGTTCA
1 CATACAGGTCAACTTCA
21307164 CCCCAGATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (18 bp):
CATACAGGTCAACTTCAT
Found at i:21310917 original size:20 final size:20
Alignment explanation
Indices: 21310887--21310943 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
21310877 AATTATTGAT
*
21310887 AAATTTGTACTTTTACCAATA
1 AAATTT-TACTATTACCAATA
21310908 AAATTTTACTATTACCAATA
1 AAATTTTACTATTACCAATA
21310928 AAATTTTTACTATTAC
1 AAA-TTTTACTATTAC
21310944 AAACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATTTTACTATTACCAATA
Found at i:21310953 original size:20 final size:21
Alignment explanation
Indices: 21310887--21310943 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
21310877 AATTATTGAT
* *
21310887 AAATTTGTACTTTTACCAATA
1 AAATTTTTACTATTACCAATA
21310908 AAA-TTTTACTATTACCAATA
1 AAATTTTTACTATTACCAATA
21310928 AAATTTTTACTATTAC
1 AAATTTTTACTATTAC
21310944 AAACAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATTTTTACTATTACCAATA
Found at i:21311018 original size:20 final size:20
Alignment explanation
Indices: 21310993--21311031 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21310983 TTTTCATTGT
*
21310993 TATTATTGATGAAATTTTAC
1 TATTATCGATGAAATTTTAC
21311013 TATTATCGATGAAATTTTA
1 TATTATCGATGAAATTTTA
21311032 ATTTGACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (20 bp):
TATTATCGATGAAATTTTAC
Found at i:21311088 original size:20 final size:19
Alignment explanation
Indices: 21311047--21311088 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
21311037 ACCAATGGAT
* *
21311047 TTATTGATGAATTTTTTTA
1 TTATTGATGAAATTTATTA
21311066 TTATTGATGAAAATTTATTA
1 TTATTGATG-AAATTTATTA
21311086 TTA
1 TTA
21311089 CTAACAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TTATTGATGAAATTTATTA
Found at i:21311099 original size:51 final size:52
Alignment explanation
Indices: 21310995--21311100 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 52
21310985 TTCATTGTTA
* **
21310995 TTATTGATGAAATTTTACTATTATCGATGAAATTTTAATTTGACCAATGGAT
1 TTATTGATGAAATTTTACTATTATCGATGAAAATTTAATTTGACCAACAGAT
** * * *
21311047 TTATTGATG-AATTTTTTTATTATTGATGAAAATTT-ATTATTACTAACAGAT
1 TTATTGATGAAATTTTACTATTATCGATGAAAATTTAATT-TGACCAACAGAT
21311098 TTA
1 TTA
21311101 CTAATGGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
50 3 0.07
51 33 0.73
52 9 0.20
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (52 bp):
TTATTGATGAAATTTTACTATTATCGATGAAAATTTAATTTGACCAACAGAT
Found at i:21311613 original size:13 final size:15
Alignment explanation
Indices: 21311578--21311610 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21311568 AAATATGATT
*
21311578 TTAAATTAAATTATA
1 TTAAATAAAATTATA
21311593 TTAAATAAAATTAT-
1 TTAAATAAAATTATA
21311607 TTAA
1 TTAA
21311611 TAATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATAAAATTATA
Found at i:21311667 original size:20 final size:20
Alignment explanation
Indices: 21311639--21311714 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
21311629 TAAATATATG
*
21311639 TATTGATAAAATTATAAACA
1 TATTTATAAAATTATAAACA
*
21311659 TATTTATAAAATTAGATAA-A
1 TATTTATAAAATTATA-AACA
**
21311679 T-TTTAT-AAATTATAGTCA
1 TATTTATAAAATTATAAACA
*
21311697 TATTT-TATCAATTATAAA
1 TATTTATA-AAATTATAAA
21311715 ATCAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
18 10 0.23
19 8 0.19
20 23 0.53
21 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
TATTTATAAAATTATAAACA
Found at i:21313446 original size:28 final size:27
Alignment explanation
Indices: 21313395--21313451 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
21313385 ATGATCCATT
* * *
21313395 TTTTATATATTTCATTTCATATTTAGA
1 TTTTATATATTTCAGTTAAAATTTAGA
*
21313422 TTTTATTATATTTCAGTTAAAATTTTGA
1 TTTTA-TATATTTCAGTTAAAATTTAGA
21313450 TT
1 TT
21313452 AATTCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTTATATATTTCAGTTAAAATTTAGA
Found at i:21313603 original size:27 final size:27
Alignment explanation
Indices: 21313550--21313603 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21313540 GATAATAGAC
* *
21313550 CAATTAATTGAATTAAATCAATTTTAT
1 CAATTAATTCAATTAAATCAATATTAT
21313577 CAATTAATTCAATTAAAATCAA-ATTAT
1 CAATTAATTCAATT-AAATCAATATTAT
21313604 AAACACCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (27 bp):
CAATTAATTCAATTAAATCAATATTAT
Found at i:21318838 original size:1 final size:1
Alignment explanation
Indices: 21318832--21318857 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21318822 AGAAGGGCTC
21318832 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
21318858 CCATTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21322125 original size:39 final size:40
Alignment explanation
Indices: 21322077--21322171 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 40
21322067 TGTAAAAAAA
* *
21322077 AAACACCTTAATTGATATCAAATAAGTTGTTTGTAGGAAC
1 AAACACCTTAATTAATATCAAATAAGATGTTTGTAGGAAC
* *
21322117 AAA-GCCTTAATTAATATCAAATAAGATGTTTGTAGGATC
1 AAACACCTTAATTAATATCAAATAAGATGTTTGTAGGAAC
21322156 AAACACCTTAATTAAT
1 AAACACCTTAATTAAT
21322172 TGTCATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 35 0.71
40 14 0.29
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (40 bp):
AAACACCTTAATTAATATCAAATAAGATGTTTGTAGGAAC
Found at i:21324426 original size:20 final size:20
Alignment explanation
Indices: 21324403--21324440 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21324393 TATATATAAG
* *
21324403 ATGGAAGAATTATACTTTAA
1 ATGGAAAAATTAAACTTTAA
21324423 ATGGAAAAATTAAACTTT
1 ATGGAAAAATTAAACTTT
21324441 TACATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGGAAAAATTAAACTTTAA
Found at i:21326055 original size:21 final size:22
Alignment explanation
Indices: 21326031--21326082 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
21326021 CCTGAAATTA
21326031 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
21326052 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
21326074 AT-AAATATT
1 ATAAAATATT
21326083 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:21326830 original size:12 final size:12
Alignment explanation
Indices: 21326815--21326842 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21326805 TTTTTTAATT
21326815 TTTTTAGTTTAA
1 TTTTTAGTTTAA
21326827 TTTTTAGTTTAA
1 TTTTTAGTTTAA
21326839 TTTT
1 TTTT
21326843 GTTTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTTAGTTTAA
Found at i:21327518 original size:16 final size:20
Alignment explanation
Indices: 21327477--21327514 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21327467 TTTTGCATAA
21327477 ATTTGCATGACTAATATTAT
1 ATTTGCATGACTAATATTAT
21327497 ATTTGCATGA-TAAT-TTAT
1 ATTTGCATGACTAATATTAT
21327515 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTTGCATGACTAATATTAT
Found at i:21327540 original size:17 final size:17
Alignment explanation
Indices: 21327488--21327550 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 17
21327478 TTTGCATGAC
*
21327488 TAATAT-TATATTTGCA
1 TAATATATATTTTTGCA
* *
21327504 TGATA-AT-TTATTTGCC
1 TAATATATATT-TTTGCA
21327520 TAATATATATTTTTGCA
1 TAATATATATTTTTGCA
21327537 TAATTAATATATTT
1 TAA-T-ATATATTT
21327551 ATTTGTGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 10 0.28
18 3 0.08
19 8 0.22
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TAATATATATTTTTGCA
Found at i:21327555 original size:21 final size:19
Alignment explanation
Indices: 21327509--21327555 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
21327499 TTGCATGATA
*
21327509 ATTTATTTGCCTAATATAT
1 ATTTATTTGCATAATATAT
21327528 A-TT-TTTGCATAATTAATAT
1 ATTTATTTGCATAA-T-ATAT
21327547 ATTTATTTG
1 ATTTATTTG
21327556 TGTGATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 8 0.35
18 3 0.13
19 6 0.26
20 2 0.09
21 4 0.17
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (19 bp):
ATTTATTTGCATAATATAT
Found at i:21327606 original size:24 final size:23
Alignment explanation
Indices: 21327574--21327656 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 23
21327564 ATTAATATAT
21327574 TTGCATGATTATTAATTTATTTA
1 TTGCATGATTATTAATTTATTTA
* * *
21327597 TATGTATGATTA-TACTTAATTTGA
1 T-TGCATGATTATTAATTTATTT-A
* *
21327621 TTGGATGATTATTAATATATTTA
1 TTGCATGATTATTAATTTATTTA
21327644 TTTGCATGATTAT
1 -TTGCATGATTAT
21327657 ACATTTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 19 0.40
24 29 0.60
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (23 bp):
TTGCATGATTATTAATTTATTTA
Found at i:21327634 original size:47 final size:47
Alignment explanation
Indices: 21327539--21327658 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
21327529 TTTTTGCATA
*
21327539 ATTAATATATTTATTTGTGTGATT-TA-TTAATATATTTGCATGATT
1 ATTAATATATTTATTTGTATGATTATACTTAATATATTTGCATGATT
* * * *
21327584 ATTAATTTATTTATATGTATGATTATACTTAATTTGA-TTGGATGATT
1 ATTAATATATTTATTTGTATGATTATACTTAATAT-ATTTGCATGATT
*
21327631 ATTAATATATTTATTTGCATGATTATAC
1 ATTAATATATTTATTTGTATGATTATAC
21327659 ATTTAATTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 21 0.33
46 2 0.03
47 40 0.62
48 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (47 bp):
ATTAATATATTTATTTGTATGATTATACTTAATATATTTGCATGATT
Found at i:21327701 original size:14 final size:14
Alignment explanation
Indices: 21327682--21327729 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
21327672 TTTTGCATGG
21327682 TTTATATATTATTA
1 TTTATATATTATTA
*
21327696 TTTATATGATTGCATGA
1 TTTATAT-ATT--ATTA
*
21327713 TTTATGTATTATTA
1 TTTATATATTATTA
21327727 TTT
1 TTT
21327730 GCATAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 13 0.46
15 3 0.11
16 3 0.11
17 9 0.32
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.60
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:21327717 original size:17 final size:16
Alignment explanation
Indices: 21327668--21327722 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
21327658 CATTTAATTG
* *
21327668 TATATTTTGCATGGTT
1 TATATATTGCATGATT
*
21327684 TATATATT--ATTATT
1 TATATATTGCATGATT
21327698 TATATGATTGCATGATT
1 TATAT-ATTGCATGATT
*
21327715 TATGTATT
1 TATATATT
21327723 ATTATTTGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 9 0.29
15 3 0.10
16 10 0.32
17 9 0.29
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (16 bp):
TATATATTGCATGATT
Found at i:21327717 original size:31 final size:30
Alignment explanation
Indices: 21327645--21327729 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
21327635 ATATATTTAT
* * *
21327645 TTGCATGA-TTATACATT-TAATTGTATATT
1 TTGCATGATTTATATATTATTATT-TATATA
*
21327674 TTGCATGGTTTATATATTATTATTTATATGA
1 TTGCATGATTTATATATTATTATTTATAT-A
*
21327705 TTGCATGATTTATGTATTATTATTT
1 TTGCATGATTTATATATTATTATTT
21327730 GCATAATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.15
30 13 0.28
31 27 0.57
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (30 bp):
TTGCATGATTTATATATTATTATTTATATA
Found at i:21327759 original size:20 final size:22
Alignment explanation
Indices: 21327704--21327759 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
21327694 TATTTATATG
*
21327704 ATTGCATGATTTATGTATTATTA
1 ATTGCATG-TTTATATATTATTA
* **
21327727 TTTGCATAATTATATA-T-TTA
1 ATTGCATGTTTATATATTATTA
21327747 ATTGCATGTTTAT
1 ATTGCATGTTTAT
21327760 TTACATGGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
20 13 0.50
21 1 0.04
22 6 0.23
23 6 0.23
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (22 bp):
ATTGCATGTTTATATATTATTA
Found at i:21327889 original size:22 final size:22
Alignment explanation
Indices: 21327864--21327930 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 22
21327854 TGGTTATTTA
21327864 TTTATTAATATTATTGCATGAT
1 TTTATTAATATTATTGCATGAT
* *
21327886 TTTA-T-AT-TTATTACATAAT
1 TTTATTAATATTATTGCATGAT
*
21327905 ATGATATTATATATTATTGCATGAT
1 -T-TTATTA-ATATTATTGCATGAT
21327930 T
1 T
21327931 AATATTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
19 10 0.29
20 3 0.09
21 3 0.09
22 5 0.15
24 3 0.09
25 10 0.29
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (22 bp):
TTTATTAATATTATTGCATGAT
Found at i:21327935 original size:24 final size:23
Alignment explanation
Indices: 21327866--21327939 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
21327856 GTTATTTATT
21327866 TATTA-ATATTATTGCATGA-T-
1 TATTATATATTATTGCATGATTA
* *
21327886 T-TTATAT-TTATTACATAATATGA
1 TATTATATATTATTGCATGAT-T-A
21327909 TATTATATATTATTGCATGATTAA
1 TATTATATATTATTGCATGATT-A
21327933 TATTATA
1 TATTATA
21327940 ATTGAATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.29
20 3 0.07
21 1 0.02
23 1 0.02
24 15 0.36
25 10 0.24
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (23 bp):
TATTATATATTATTGCATGATTA
Found at i:21327939 original size:22 final size:21
Alignment explanation
Indices: 21327866--21327939 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 21
21327856 GTTATTTATT
*
21327866 TATTAATATTATTGCATGATTT
1 TATT-ATATTATTGCATGATTA
* *
21327888 TA-TAT-TTATTACATAATATGA
1 TATTATATTATTGCATGAT-T-A
21327909 TATTATATATTATTGCATGATTAA
1 TA-T-TATATTATTGCATGATT-A
21327933 TATTATA
1 TATTATA
21327940 ATTGAATGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
19 10 0.25
20 3 0.08
21 3 0.08
22 6 0.15
23 1 0.03
24 7 0.17
25 10 0.25
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (21 bp):
TATTATATTATTGCATGATTA
Found at i:21328093 original size:18 final size:19
Alignment explanation
Indices: 21328069--21328172 Score: 67
Period size: 18 Copynumber: 5.7 Consensus size: 19
21328059 ATGGTTATTA
21328069 ATATATTTGCATGATATTTT
1 ATATA-TTGCATGATATTTT
* **
21328089 ATATTATTGTA-GA-ATAAT
1 ATA-TATTGCATGATATTTT
*
21328107 ATAT-TTGCATGATATTAT
1 ATATATTGCATGATATTTT
* *
21328125 ATAT-TTACATGAT-TGTT
1 ATATATTGCATGATATTTT
* * *
21328142 AT-TATTACATGATAATTA
1 ATATATTGCATGATATTTT
21328160 ATATATTGCATGA
1 ATATATTGCATGA
21328173 CATTCTTGCA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.08
17 16 0.24
18 25 0.38
19 11 0.17
20 7 0.11
21 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.48
Consensus pattern (19 bp):
ATATATTGCATGATATTTT
Found at i:21328233 original size:20 final size:19
Alignment explanation
Indices: 21328208--21328245 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21328198 GATTTAGCTA
*
21328208 TGATATTATTACATAATATT
1 TGATATGATTA-ATAATATT
21328228 TGATATGATTAATAATAT
1 TGATATGATTAATAATAT
21328246 ATTTGCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (19 bp):
TGATATGATTAATAATATT
Found at i:21329064 original size:59 final size:58
Alignment explanation
Indices: 21328919--21329307 Score: 374
Period size: 59 Copynumber: 6.7 Consensus size: 58
21328909 GTTTTTGTGC
* * *
21328919 AGAAGAAATTGATACTTTCAACTTTTTCCT-AAAAATATTCTTTT-GAAATTTTAATTTCG
1 AGAA-AAATTGATACTTTCAAC-TTTTCCTCAAAAATATT-TTTTGGAAATTTGATTTTCA
* **
21328978 AGAAAAATT-A-A--TACAACTTTTTTTCAAAAATATTTTTTGGAAACTTTGATTTTCA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-TTTGATTTTCA
* *
21329033 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTT-GAAATTTTA-TTTCAA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGGAAATTTGATTTTC-A
* * *
21329090 AGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTGAAAATTTTGATTTTCA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-TTTGATTTTCA
* *
21329149 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATGTTTTTTGGAAACTTTGATTTTCA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-TTTGATTTTCA
* ** * * * * *
21329208 AGGAAAATTGATTA-TATTTTA-TTTT-TTGAAAATTTATTTTTTTGAAAATTT-ATTTTTA
1 AGAAAAATTGA-TACT-TTCAACTTTTCCTCAAAA-ATA-TTTTTTGGAAATTTGATTTTCA
21329266 AGAAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTT
1 AGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTT
21329308 TTCTAATTTT
Statistics
Matches: 273, Mismatches: 36, Indels: 44
0.77 0.10 0.12
Matches are distributed among these distances:
53 9 0.03
54 18 0.07
55 16 0.06
56 7 0.03
57 55 0.20
58 40 0.15
59 108 0.40
60 20 0.07
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (58 bp):
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTGATTTTCA
Found at i:21329142 original size:116 final size:112
Alignment explanation
Indices: 21328924--21329307 Score: 433
Period size: 116 Copynumber: 3.3 Consensus size: 112
21328914 TGTGCAGAAG
*
21328924 AAATTGATACTTTCAACTTTTTCCT-AAAAATATTCTTTTGAAATTTTAATTTCGAGAAAAATT-
1 AAATTGATACTTTCAAC-TTTTCCTCAAAAATATT-TTTTGAAATTTT-ATTTCAAGAAAAATTG
* *
21328987 A-A-TACAACTTTTTTTCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGA
63 ATATTTCAAC-TTTTTTCAAAAATATTTTTT-GAAAATTTGATTTTCAAGGA
21329037 AAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAATTTTATTTCAAAGAAAAATTGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAATTTTATTTC-AAGAAAAATTGA
*
21329101 TACTTTCAACTTTTTCTCAAAAATACTTTTTGAAAATTTTGATTTTCAAGGA
64 TA-TTTCAACTTTTT-TCAAAAATATTTTTTGAAAA-TTTGATTTTCAAGGA
* * *
21329153 AAATTGATACTTTCAACTTTTCCTCAAAAATGTTTTTTGGAAACTTTGATTTTCAAGGAAAATTG
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAA-TTTTA-TTTCAAGAAAAATTG
** * * * *
21329218 ATTATATTTTA-TTTTTTGAAAATTTATTTTTTTGAAAATTT-ATTTTTAAGAA
63 A-TAT-TTCAACTTTTTTCAAAA-ATA-TTTTTTGAAAATTTGATTTTCAAGGA
21329270 AAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTT
1 AAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTT
21329308 TTCTAATTTT
Statistics
Matches: 239, Mismatches: 14, Indels: 32
0.84 0.05 0.11
Matches are distributed among these distances:
111 5 0.02
112 28 0.12
113 25 0.10
114 2 0.01
115 10 0.04
116 71 0.30
117 53 0.22
118 26 0.11
119 19 0.08
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (112 bp):
AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTCAAGAAAAATTGATA
TTTCAACTTTTTTCAAAAATATTTTTTGAAAATTTGATTTTCAAGGA
Found at i:21329248 original size:16 final size:16
Alignment explanation
Indices: 21329225--21329264 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
21329215 TTGATTATAT
21329225 TTTA-TTTTTTGAAAA
1 TTTATTTTTTTGAAAA
21329240 TTTATTTTTTTGAAAA
1 TTTATTTTTTTGAAAA
21329256 TTTATTTTT
1 TTTATTTTT
21329265 AAGAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTATTTTTTTGAAAA
Found at i:21329274 original size:17 final size:16
Alignment explanation
Indices: 21329225--21329271 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
21329215 TTGATTATAT
*
21329225 TTTATTTTT-TGAAAA
1 TTTATTTTTAAGAAAA
**
21329240 TTTATTTTTTTGAAAA
1 TTTATTTTTAAGAAAA
21329256 TTTATTTTTAAGAAAA
1 TTTATTTTTAAGAAAA
21329272 ATTGATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTATTTTTAAGAAAA
Found at i:21329352 original size:10 final size:9
Alignment explanation
Indices: 21329322--21329427 Score: 65
Period size: 10 Copynumber: 11.2 Consensus size: 9
21329312 AATTTTTATT
*
21329322 TAAAGAAAA
1 TAAAAAAAA
*
21329331 T-AAAATAA
1 TAAAAAAAA
21329339 TAAAACAAAA
1 TAAAA-AAAA
21329349 TAAAAATAAAAA
1 T--AAA-AAAAA
21329361 TAAATAAAAA
1 TAAA-AAAAA
21329371 T-AAAAAAA
1 TAAAAAAAA
*
21329379 TAAAGAAAAG
1 TAAA-AAAAA
*
21329389 TAAAACAAA
1 TAAAAAAAA
*
21329398 -AATAAAAA
1 TAAAAAAAA
21329406 TAAAATAAAGA
1 TAAAA-AAA-A
*
21329417 TAAAAAGAA
1 TAAAAAAAA
21329426 TA
1 TA
21329428 TTAAATAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
8 18 0.23
9 17 0.22
10 27 0.35
11 6 0.08
12 8 0.10
13 1 0.01
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:21329356 original size:6 final size:6
Alignment explanation
Indices: 21329327--21329422 Score: 80
Period size: 6 Copynumber: 16.7 Consensus size: 6
21329317 TTATTTAAAG
21329327 AAAAT- AAAATA ATAAA-A CAAAATA AAAATA AAAAT- -AAATA AAAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
* * * *
21329373 AAAA-A ATAAAGA AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
21329419 AAAA
1 AAAA
21329423 GAATATTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
4 4 0.05
5 15 0.20
6 48 0.65
7 7 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:21329370 original size:22 final size:22
Alignment explanation
Indices: 21329327--21329436 Score: 82
Period size: 22 Copynumber: 4.8 Consensus size: 22
21329317 TTATTTAAAG
21329327 AAAATAAAATAATAAA-ACAAAATA
1 AAAAT-AAA-AATAAATA-AAAATA
21329351 AAAATAAAAATAAATAAAAATA
1 AAAATAAAAATAAATAAAAATA
* *
21329373 AAAA-AATAAAGAAA-AGTAAAACA
1 AAAATAA-AAATAAATA--AAAATA
*
21329396 AAAATAAAAATAAAATAAAGATA
1 AAAATAAAAAT-AAATAAAAATA
* * *
21329419 AAAAGAATATTAAATAAA
1 AAAATAAAAATAAATAAA
21329437 CCTAATCTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
21 3 0.04
22 29 0.41
23 28 0.39
24 10 0.14
25 1 0.01
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAATAAAAATA
Found at i:21329372 original size:40 final size:40
Alignment explanation
Indices: 21329327--21329425 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
21329317 TTATTTAAAG
* *
21329327 AAAATAAAATAATAAA-ACAAAATAAAAATAAAAATAAATA-
1 AAAATAAAATAATAAAGA-AAAAT-AAAACAAAAATAAAAAT
* *
21329367 AAAATAAAAAAATAAAGAAAAGTAAAACAAAAATAAAAAT
1 AAAATAAAATAATAAAGAAAAATAAAACAAAAATAAAAAT
21329407 AAAATAAAGATAA-AAAGAA
1 AAAATAAA-ATAATAAAGAA
21329426 TATTAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.27
40 33 0.65
41 4 0.08
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (40 bp):
AAAATAAAATAATAAAGAAAAATAAAACAAAAATAAAAAT
Found at i:21329401 original size:35 final size:34
Alignment explanation
Indices: 21329327--21329410 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
21329317 TTATTTAAAG
*
21329327 AAAAT-AAAATAATAAAACAAAATAAAAATAAAAA
1 AAAATAAAAATAA-AAAACAAAAGAAAAATAAAAA
* *
21329361 TAAATAAAAATAAAAAA-ATAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAAAACA-AAAGAAAAATAAAA-A
21329396 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
21329411 TAAAGATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 20 0.47
35 22 0.51
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (34 bp):
AAAATAAAAATAAAAAACAAAAGAAAAATAAAAA
Found at i:21329423 original size:35 final size:32
Alignment explanation
Indices: 21329327--21329423 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 32
21329317 TTATTTAAAG
21329327 AAAATAAAATAATAAAACAAAATAAAAA-TAAAAA
1 AAAAT-AAA-AATAAAA-AAAATAAAAAGTAAAAA
* *
21329361 TAAATAAAAATAAAAAAATAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAAAAA-ATA-AAAAGTAAAA-A
21329396 AAAATAAAAATAAAATAAAGATAAAAAG
1 AAAATAAAAATAAAA-AAA-ATAAAAAG
21329424 AATATTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
31 3 0.06
32 9 0.17
33 7 0.13
34 9 0.17
35 20 0.38
36 5 0.09
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (32 bp):
AAAATAAAAATAAAAAAAATAAAAAGTAAAAA
Found at i:21329995 original size:24 final size:23
Alignment explanation
Indices: 21329968--21330012 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21329958 ATCTGGAAAT
* *
21329968 TCTTCAGAAATTTCTAGAAAAAAA
1 TCTTCAAAAATCTCTA-AAAAAAA
21329992 TCTTCAAAAATCTCTAAAAAA
1 TCTTCAAAAATCTCTAAAAAA
21330013 TTTCTGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (23 bp):
TCTTCAAAAATCTCTAAAAAAAA
Found at i:21330333 original size:21 final size:21
Alignment explanation
Indices: 21330264--21330343 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
21330254 AATTTTCAGC
*
21330264 CAGATAAAT-AAAAAAAATAA
1 CAGATAAATCAAAAAAATTAA
* * *
21330284 AAGAAAAAATCAAACAAAAATAAA
1 CAG-ATAAATC-AA-AAAAATTAA
21330308 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATTAA
*
21330330 CAGATAAATTAAAA
1 CAGATAAATCAAAA
21330344 TTAAATAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 2 0.04
21 18 0.38
22 8 0.17
23 4 0.09
24 13 0.28
25 2 0.04
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.16
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATTAA
Found at i:21330517 original size:12 final size:12
Alignment explanation
Indices: 21330496--21330547 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 12
21330486 TATATAAAAT
*
21330496 AATAATAATAAA
1 AATAAAAATAAA
21330508 AATAAAAAT-AA
1 AATAAAAATAAA
*
21330519 AATAAAAATGTAA
1 AATAAAAAT-AAA
21330532 AATACAAAATACAA
1 AATA-AAAATA-AA
21330546 AA
1 AA
21330548 AATAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.32
12 8 0.24
13 6 0.18
14 9 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:21330540 original size:26 final size:26
Alignment explanation
Indices: 21330489--21330540 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
21330479 ATATACATAT
* *
21330489 ATAAAATAATAATAATAAAAATAAAA
1 ATAAAATAAAAATAATAAAAACAAAA
*
21330515 ATAAAATAAAAAT-GTAAAATACAAAA
1 ATAAAATAAAAATAATAAAA-ACAAAA
21330541 TACAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (26 bp):
ATAAAATAAAAATAATAAAAACAAAA
Found at i:21330556 original size:6 final size:6
Alignment explanation
Indices: 21330496--21330547 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
21330486 TATATAAAAT
* *
21330496 AATAAT AATAAA AATAAA AAT-AA AATAAA AATGTAA AATACAA AATACAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATA-AA
21330546 AA
1 AA
21330548 AATAAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
5 5 0.12
6 19 0.47
7 16 0.40
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:21330975 original size:42 final size:42
Alignment explanation
Indices: 21330782--21331451 Score: 853
Period size: 42 Copynumber: 15.6 Consensus size: 42
21330772 AAGGCTCAAT
* * * * *
21330782 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 GACTTTGAGAAA-GTAAATTGCTCCTCTAAACAGAGGCACCAC
* * * *
21330825 AACTTTAAAAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTT-GAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
21330868 GACTTT--GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
21330908 GACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAAGCACCAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
21330949 GACTTTGGGAAAGTAAATTGCTCCTCTAAACAGAGGCACTAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
21330991 GACTTTTAGAAAGTAAATTACTCTTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAGAAAGT-AA--A---TTGCTCCTCTAAACAGAGGCACCAC
*
21331039 GACTTTTAGAAAGTAAATTACTCTTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAGAAAGT-AA--A---TTGCTCCTCTAAACAGAGGCACCAC
* * *
21331087 GACTTTGAAAAAGTAAATTGCTCCTTTAAATAGAGGCACCAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
21331129 GACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
21331170 GACTTTGAAAAAAATAAATTGTTCCTCTAAACAGAGGCACCAC
1 GACTTTG-AGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
21331213 GACTTTGAGAAAGTAAATTGCTCTTCTAAACAGAGGCACCAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
21331255 AACTTTGGGAAAGTAAATTGCTTCTCTAAACAGAGGCACCAC
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
21331297 GACTTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCATCAC
1 GAC-TTT-GAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
21331341 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
21331383 GACTTTTGAAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GAC-TTTG-AGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
21331427 GACTTTGAGAAAGTAAATTGCTCCT
1 GACTTTGAGAAAGTAAATTGCTCCT
21331452 TGACAATCAT
Statistics
Matches: 564, Mismatches: 47, Indels: 33
0.88 0.07 0.05
Matches are distributed among these distances:
40 37 0.07
41 76 0.13
42 197 0.35
43 90 0.16
44 76 0.13
45 2 0.00
47 2 0.00
48 84 0.15
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (42 bp):
GACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:21331346 original size:86 final size:85
Alignment explanation
Indices: 21330782--21331451 Score: 829
Period size: 86 Copynumber: 7.8 Consensus size: 85
21330772 AAGGCTCAAT
* * * * * * * *
21330782 GACTTTGAGAAACA-TAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAAAATAAATTG
1 GACTTTG-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGTAAATTG
21330846 CTCCTCTAAACAGAGGCACCAC
64 CTCCTCTAAACAGAGGCACCAC
*
21330868 GACTTT-G--AAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTG-AAAAGTAAATTGCT
1 GACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
*
21330929 CCTCTAAACAGAAGCACCAC
66 CCTCTAAACAGAGGCACCAC
* * * *
21330949 GACTTTGG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGACTTTTAGAAAGTAAATTACT
1 GACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT-AA--A--
21331013 CTTGCTCCTCTAAACAGAGGCACCAC
61 -TTGCTCCTCTAAACAGAGGCACCAC
* *
21331039 GACTTT-TAGAAAGTAAATTACTCTTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAA
1 GACTTTGGAAAAAGT-AA--A---TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAA
* *
21331103 ATTGCTCCTTTAAATAGAGGCACCAC
60 ATTGCTCCTCTAAACAGAGGCACCAC
* *
21331129 GACTTTGG--AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAAATAAATTGT
1 GACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAAGTAAATTGC
21331192 TCCTCTAAACAGAGGCACCAC
65 TCCTCTAAACAGAGGCACCAC
* * * **
21331213 GACTTT-GAGAAAGTAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGGAAAGTAAATTGCT
1 GACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
*
21331277 TCTCTAAACAGAGGCACCAC
66 CCTCTAAACAGAGGCACCAC
* *
21331297 GACTTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCATCACGACTTTGAAAAAGTAAATTGC
1 GAC-TTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGC
*
21331362 TCCTCTAAACAGAGGCACCAT
65 TCCTCTAAACAGAGGCACCAC
* * *
21331383 GACTTTTGAAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAGAAAGTAAATTGC
1 GAC-TTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGC
21331448 TCCT
65 TCCT
21331452 TGACAATCAT
Statistics
Matches: 515, Mismatches: 46, Indels: 46
0.85 0.08 0.08
Matches are distributed among these distances:
81 38 0.07
82 3 0.01
83 99 0.19
84 76 0.15
85 43 0.08
86 141 0.27
87 1 0.00
88 2 0.00
89 5 0.01
90 65 0.13
91 2 0.00
93 2 0.00
95 2 0.00
96 36 0.07
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (85 bp):
GACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
CCTCTAAACAGAGGCACCAC
Found at i:21331478 original size:128 final size:125
Alignment explanation
Indices: 21330782--21331451 Score: 842
Period size: 128 Copynumber: 5.2 Consensus size: 125
21330772 AAGGCTCAAT
* * * * * * *
21330782 GACTTTGAGAAACA-TAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAAAATAAATTG
1 GACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGTAAATTG
*
21330846 CTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
63 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* **
21330908 GACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAAGCACCACGACTTTGGGAAAGTAAATTGCTC
1 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTC
* *
21330972 CTCTAAACAGAGGCACTACGACTTTTAGAAAGTAAATTACTCTTGCTCCTCTAAACAGAGGCACC
66 CTCTAAACAGAGGCACCACGACTTTGA-AAAGT-AA--A---TTGCTCCTCTAAACAGAGGCACC
21331037 AC
124 AC
* *
21331039 GACTTTTAGAAAGTAAATTACTCTTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAA
1 GACTTTGAAAAAGT-AA--A---TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAA
* * *
21331104 TTGCTCCTTTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
60 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
21331169 C
125 C
* * *
21331170 GACTTTGAAAAAAATAAATTGTTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCT
1 GACTTTG-AAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
* * * *
21331235 CTTCTAAACAGAGGCACCACAACTTTGGGAAAGTAAATTGCTTCTCTAAACAGAGGCACCAC
65 CCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
21331297 GACTTTTGGAAAAAGTAAATTGCTCATCTAAACAGAGGCATCACGACTTTGAAAAAGTAAATTGC
1 GAC-TTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGC
* *
21331362 TCCTCTAAACAGAGGCACCATGACTTTTGAAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
64 TCCTCTAAACAGAGGCACCACGAC-TTTG--AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
21331427 GACTTTGAGAAAGTAAATTGCTCCT
1 GACTTTGAAAAAGTAAATTGCTCCT
21331452 TGACAATCAT
Statistics
Matches: 475, Mismatches: 46, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
123 38 0.08
124 32 0.07
125 5 0.01
126 76 0.16
127 37 0.08
128 94 0.20
129 8 0.02
130 34 0.07
131 63 0.13
132 10 0.02
133 2 0.00
134 1 0.00
135 1 0.00
136 2 0.00
137 5 0.01
138 67 0.14
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (125 bp):
GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTC
CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:21332695 original size:33 final size:33
Alignment explanation
Indices: 21332658--21332748 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 33
21332648 AATTTTAATA
21332658 TCTTTTTTTTTTCTCATTTTTTCATTCATTTTT
1 TCTTTTTTTTTTCTCATTTTTTCATTCATTTTT
21332691 TCTTTTTTTCCTTT-T--TTTTTTCA-TCA-TTTT
1 TCTTTTTTT--TTTCTCATTTTTTCATTCATTTTT
* *
21332721 T-TTTCTTTTTTCTCA-TTTTTCATCCATT
1 TCTTTTTTTTTTCTCATTTTTTCATTCATT
21332749 GTTGATATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 13 0.27
30 7 0.14
31 4 0.08
32 8 0.16
33 9 0.18
34 1 0.02
35 3 0.06
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (33 bp):
TCTTTTTTTTTTCTCATTTTTTCATTCATTTTT
Found at i:21332724 original size:28 final size:28
Alignment explanation
Indices: 21332660--21332724 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
21332650 TTTTAATATC
21332660 TTTTTTTTTTCTCATTTTTTCATTCAT-
1 TTTTTTTTTTCTCATTTTTTCATTCATA
* * **
21332687 TTTTTCTTTTTTTCCTTTTTTTTTTCATCA
1 TTTTT-TTTTTCTCATTTTTTCATTCAT-A
21332717 TTTTTTTT
1 TTTTTTTT
21332725 CTTTTTTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 5 0.16
28 18 0.58
29 3 0.10
30 5 0.16
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTTTTTTTTCTCATTTTTTCATTCATA
Found at i:21332740 original size:31 final size:31
Alignment explanation
Indices: 21332660--21332740 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
21332650 TTTTAATATC
21332660 TTTTTTTTTTCTCA-TTTTTTCATTCATTTT
1 TTTTTTTTTTCTCATTTTTTTCATTCATTTT
* **
21332690 TTCTTTTTTTCCTTTTTTTTTTCA-TCATTTT
1 TT-TTTTTTTTCTCATTTTTTTCATTCATTTT
21332721 TTTTCTTTTTTCTCATTTTT
1 TTTT-TTTTTTCTCATTTTT
21332741 CATCCATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 4 0.10
31 30 0.71
32 8 0.19
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (31 bp):
TTTTTTTTTTCTCATTTTTTTCATTCATTTT
Found at i:21332740 original size:32 final size:32
Alignment explanation
Indices: 21332660--21332740 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
21332650 TTTTAATATC
21332660 TTTTTTTTTTCTCA--TTTTTTCATTCATTTT
1 TTTTTTTTTTCTCATTTTTTTTCATTCATTTT
* *
21332690 TTCTTTTTTTC-CTTTTTTTTTTCA-TCATTTT
1 TTTTTTTTTTCTC-ATTTTTTTTCATTCATTTT
21332721 TTTTCTTTTTTCTCATTTTT
1 TTTT-TTTTTTCTCATTTTT
21332741 CATCCATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 1 0.02
30 10 0.24
31 10 0.24
32 20 0.48
33 1 0.02
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTTTTTTTCTCATTTTTTTTCATTCATTTT
Found at i:21336699 original size:59 final size:57
Alignment explanation
Indices: 21336637--21337321 Score: 715
Period size: 59 Copynumber: 11.7 Consensus size: 57
21336627 TTTGTGTAGA
* *
21336637 AAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTCTTTTGAAATTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTC-AAAAATATT-TTTTGAAATTTTATTTTCAAG
* * * *
21336695 AAAAATT--TA--TACAACTTTT-CTCAAAAAATATTTTTTGAAAACTTTGATTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTG-AAA-TTTTATTTTCAAG
* * *
21336750 AAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTATATTTTATTTTAAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAATTTTATTTTCAAG
* *
21336807 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTCTAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAATTTT-ATTTTCAAG
* * * * *
21336866 GAAAATTGATACTTTCAACTTTTCCCCGAAAATGTTTTTTGGAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAA-TTTTATTTTCAAG
** *
21336925 AAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAATTTTATTTTAAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTCAAG
* * * *
21336982 GAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAATTTT-ATTTTCAAG
* * *
21337041 AAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTGAAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAA-TTTTATTTTCAAG
* *
21337100 AAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTGAAATTTTATTTTCAAG
* ** *
21337160 AAAAATTGATACTTTTAACTTTT-CTCCAAAAATACTTTTTTTGAAAACTTAGATTTT-AAA
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTTG-AAA-TTTTATTTTCAAG
* * * *
21337220 AGAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAA
1 A-AAAATTGATACTTTCAACTTTTCCTCAAAAA--TA-TTTTTTGAAATTTTATTTTCAAG
*
21337281 AAAAATTGATACTTTCAACTTTT-TTCCAAAAATATATTTTT
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAATAT-TTTTT
21337322 TTATTTTTAT
Statistics
Matches: 540, Mismatches: 55, Indels: 64
0.82 0.08 0.10
Matches are distributed among these distances:
53 6 0.01
54 22 0.04
55 15 0.03
56 3 0.01
57 100 0.19
58 33 0.06
59 207 0.38
60 90 0.17
61 44 0.08
62 18 0.03
63 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTCAAG
Found at i:21336935 original size:175 final size:176
Alignment explanation
Indices: 21336638--21337303 Score: 888
Period size: 175 Copynumber: 3.8 Consensus size: 176
21336628 TTGTGTAGAA
* ** *
21336638 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTCTTTTG-AAATTTT-AATTTCGAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATT-TTTTGAAAATTTTGATTTTAAAAAAAAA
* * * *
21336700 TT--TA--TACAACTTTTCTCAAAAAATATTTTTTGAAAACTTTGATTTTAAAAAAAAATTGATA
64 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAAAAAAATTGATA
*
21336761 CTTTCAACTTTTCCTCAAAAA-CTTTTTTTTATATTTTATTTTAAAGG
129 CTTTCAACTTTTCCTCAAAAACCTTTTTTTTAAATTTTATTTTAAAGG
** **
21336808 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTCTAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTAAAAAAAAATT
* * * *
21336873 GATACTTTCAACTTTTCCCCGAAAATGTTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATACT
66 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAAAAAAATTGATACT
*
21336938 TTCAACTTTTCCTCAAAAACC-TTTTTTGAAATTTTATTTTAAAGG
131 TTCAACTTTTCCTCAAAAACCTTTTTTTTAAATTTTATTTTAAAGG
*
21336983 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTAAAAAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTAAAAAAAAATT
* *
21337048 GATACTTTCAACTTTTCCCCAAAAATGTTTTTTGAAAACTTTGATTTTCAAGAAAAATTGATACT
66 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAAAAAAATTGATACT
* *
21337113 TTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAAGA
131 TTCAACTTTTCCTCAAAAACC-TTTTTTTT-AAATTTTATTTTAAAGG
* * * *
21337161 AAAATTGATACTTTTAACTTTT-CTCCAAAAATACTTTTTTTGAAAACTTAGATTTTAAAAGAAA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTTGAAAATTTTGATTTTAAAAAAAA
* * *
21337225 ATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTTGAAAA-TTT-ATTTTTAAAAAAAATT
63 ATTGATACTTTCAACTTTTCCCCAAAAA--TA-TTTTTTGAAAACTTTGATTTTCAAAAAAAATT
21337288 GATACTTTCAACTTTT
125 GATACTTTCAACTTTT
21337304 TTCCAAAAAT
Statistics
Matches: 448, Mismatches: 31, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
169 5 0.01
170 40 0.09
171 14 0.03
173 2 0.00
175 236 0.53
176 1 0.00
177 8 0.02
178 45 0.10
180 52 0.12
181 30 0.07
182 4 0.01
183 11 0.02
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTAAAAAAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAAAAAAATTGATACT
TTCAACTTTTCCTCAAAAACCTTTTTTTTAAATTTTATTTTAAAGG
Found at i:21337381 original size:17 final size:16
Alignment explanation
Indices: 21337343--21337424 Score: 78
Period size: 16 Copynumber: 5.1 Consensus size: 16
21337333 TAAAGAAAAT
*
21337343 ATAATAATAAAACA-AA
1 ATAAAAATAAAA-ATAA
* *
21337359 ATAAAAGTGAAAATAA
1 ATAAAAATAAAAATAA
21337375 ATAAAAATAAAAAATAA
1 ATAAAAAT-AAAAATAA
* *
21337392 AGAAAAATAAAACAAAA
1 ATAAAAATAAAA-ATAA
21337409 ATAAAAAT-AAAATAA
1 ATAAAAATAAAAATAA
21337424 A
1 A
21337425 GATAAAAAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.09
16 25 0.46
17 24 0.44
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (16 bp):
ATAAAAATAAAAATAA
Found at i:21337408 original size:11 final size:10
Alignment explanation
Indices: 21337348--21337424 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 10
21337338 AAAATATAAT
*
21337348 AATAAAACAA
1 AATAAAAAAA
*
21337358 AATAAAAGTGAA
1 AATAAAA--AAA
*
21337370 AATAAATAAA
1 AATAAAAAAA
21337380 AAT---AAAA
1 AATAAAAAAA
*
21337387 AATAAAGAAA
1 AATAAAAAAA
21337397 AATAAAACAAA
1 AATAAAA-AAA
21337408 AATAAAAATAA
1 AATAAAAA-AA
21337419 AATAAA
1 AATAAA
21337425 GATAAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
7 6 0.11
10 22 0.41
11 18 0.33
12 8 0.15
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:21337429 original size:11 final size:11
Alignment explanation
Indices: 21337385--21337431 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
21337375 ATAAAAATAA
21337385 AAAATAAAGA-
1 AAAATAAAGAT
*
21337395 AAAATAAA-ACA
1 AAAATAAAGA-T
*
21337406 AAAATAAAAAT
1 AAAATAAAGAT
21337417 AAAATAAAGAT
1 AAAATAAAGAT
21337428 AAAA
1 AAAA
21337432 AGAATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.03
10 8 0.25
11 22 0.69
12 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (11 bp):
AAAATAAAGAT
Found at i:21337429 original size:17 final size:16
Alignment explanation
Indices: 21337338--21337446 Score: 85
Period size: 17 Copynumber: 6.5 Consensus size: 16
21337328 TTATTTAAAG
*
21337338 AAAATATAATAATAAAAC
1 AAAATA-AA-AATAAAAT
*
21337356 AAAATAAAAGTGAAAAT
1 AAAATAAAAAT-AAAAT
*
21337373 -AAATAAAAATAAAAA
1 AAAATAAAAATAAAAT
* *
21337388 ATAAAGAAAAATAAAACA
1 A-AAATAAAAATAAAA-T
21337406 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
* *
21337422 AAAGATAAAAAGAATAT
1 AAA-ATAAAAATAAAAT
*
21337439 TAAATAAA
1 AAAATAAA
21337447 CCTAATCTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
15 4 0.05
16 19 0.25
17 45 0.59
18 8 0.11
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:21337429 original size:28 final size:28
Alignment explanation
Indices: 21337356--21337431 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 28
21337346 ATAATAAAAC
*
21337356 AAAATAAAAGTGAAAAT-AAATAAAAATAA
1 AAAATAAAA-T-AAAATAAAACAAAAATAA
21337385 AAAATAAAGA-AAAATAAAACAAAAAT-A
1 AAAATAAA-ATAAAATAAAACAAAAATAA
21337412 AAAATAAAATAAAGATAAAA
1 AAAATAAAATAAA-ATAAAA
21337432 AGAATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 1 0.02
27 17 0.40
28 15 0.36
29 8 0.19
30 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (28 bp):
AAAATAAAATAAAATAAAACAAAAATAA
Found at i:21337843 original size:20 final size:19
Alignment explanation
Indices: 21337818--21337856 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21337808 TTCACTGGAT
21337818 TCTGAAAAATTTCGTCGAAA
1 TCTG-AAAATTTCGTCGAAA
**
21337838 TCTGAATTTTTCGTCGAAA
1 TCTGAAAATTTCGTCGAAA
21337857 GTTCGTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
TCTGAAAATTTCGTCGAAA
Found at i:21338020 original size:25 final size:24
Alignment explanation
Indices: 21337983--21338034 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
21337973 ACCAGAATCT
* *
21337983 AAAAATTCCCCAGAAATTTTCAGAA
1 AAAAAATCCCCAGAAATCTTCA-AA
*
21338008 AAAAAATCTCCAGAAATCTTCAAA
1 AAAAAATCCCCAGAAATCTTCAAA
21338032 AAA
1 AAA
21338035 TTTTTGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (24 bp):
AAAAAATCCCCAGAAATCTTCAAA
Found at i:21338237 original size:19 final size:19
Alignment explanation
Indices: 21338213--21338252 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21338203 TCCCAAATCC
21338213 TCTTTGGATCGGGATTCAA
1 TCTTTGGATCGGGATTCAA
21338232 TCTTTGGATCGGGATTCAA
1 TCTTTGGATCGGGATTCAA
21338251 TC
1 TC
21338253 ATTGAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (19 bp):
TCTTTGGATCGGGATTCAA
Found at i:21338560 original size:13 final size:11
Alignment explanation
Indices: 21338532--21338579 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
21338522 AATAATAATA
21338532 AAAATACAAAT
1 AAAATACAAAT
21338543 AAAATACAAATGT
1 AAAATACAAA--T
21338556 AAAATAC-AA-
1 AAAATACAAAT
*
21338565 AAAATAAAAAT
1 AAAATACAAAT
21338576 AAAA
1 AAAA
21338580 ATAAAATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 14 0.44
12 2 0.06
13 8 0.25
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAATACAAAT
Found at i:21338599 original size:39 final size:39
Alignment explanation
Indices: 21338493--21338604 Score: 110
Period size: 39 Copynumber: 2.9 Consensus size: 39
21338483 ACCTAAGATA
* *
21338493 AAAAATAATAATAAAA-GAAAAGAAAAAATAATAATAAT
1 AAAAATAAAAATAAAATGAAAAGAAAAAATAATAAAAAT
* *
21338531 AAAAATACAAATAAAAT-ACAAATG-TAAAATACA-AAAAAT
1 AAAAATAAAAATAAAATGA-AAA-GAAAAAATA-ATAAAAAT
21338570 AAAAATAAAAATAAAATGAAGAA-AAAAAAT-ATAAA
1 AAAAATAAAAATAAAATGAA-AAGAAAAAATAATAAA
21338605 CTTACTTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
37 1 0.02
38 18 0.30
39 36 0.60
40 5 0.08
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (39 bp):
AAAAATAAAAATAAAATGAAAAGAAAAAATAATAAAAAT
Found at i:21338845 original size:18 final size:19
Alignment explanation
Indices: 21338824--21338872 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
21338814 AAGCTCGAAA
21338824 TTAATTTTGTTTTTTA-TT
1 TTAATTTTGTTTTTTATTT
**
21338842 TTAATTTTG-AATTTATTT
1 TTAATTTTGTTTTTTATTT
21338860 TTAATTTTAGTTT
1 TTAATTTT-GTTT
21338873 GGTCATGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
TTAATTTTGTTTTTTATTT
Found at i:21340325 original size:28 final size:27
Alignment explanation
Indices: 21340284--21340336 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
21340274 AAAACTGGAA
* *
21340284 TTTTCTTATTTATTTTTTGTTTTAATT
1 TTTTCTTATTTATTTATTATTTTAATT
*
21340311 TTTTCCTTGTTTATTTATTATTTTAA
1 TTTT-CTTATTTATTTATTATTTTAA
21340337 GCGCCTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTTCTTATTTATTTATTATTTTAATT
Found at i:21340451 original size:25 final size:25
Alignment explanation
Indices: 21340398--21340462 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
21340388 TATTTGTATG
* *
21340398 TGATATTATTTGCAAGTTTTATTTA
1 TGATATTATTTGCATGTCTTATTTA
*
21340423 TGATTTTATTTGCATGCTCTTATTT-
1 TGATATTATTTGCATG-TCTTATTTA
21340448 TGATATT-TTTGCATG
1 TGATATTATTTGCATG
21340463 AACTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.23
25 20 0.57
26 7 0.20
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (25 bp):
TGATATTATTTGCATGTCTTATTTA
Found at i:21340468 original size:24 final size:26
Alignment explanation
Indices: 21340398--21340474 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
21340388 TATTTGTATG
* **
21340398 TGATATTATTTGCAAG-TTTTATTTA
1 TGATATTATTTGCATGAACTTATTTA
* **
21340423 TGATTTTATTTGCATGCTCTTATTT-
1 TGATATTATTTGCATGAACTTATTTA
21340448 TGATATT-TTTGCATGAACTTATATTA
1 TGATATTATTTGCATGAACTTAT-TTA
21340474 T
1 T
21340475 TGTATGATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 13 0.30
25 22 0.51
26 8 0.19
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.56
Consensus pattern (26 bp):
TGATATTATTTGCATGAACTTATTTA
Found at i:21340491 original size:20 final size:20
Alignment explanation
Indices: 21340443--21340522 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
21340433 TGCATGCTCT
*
21340443 TATTTTGATATTTTTGCATGA
1 TATTTT-ATATTATTGCATGA
* *
21340464 -A-CTTATATTATTGTATGA
1 TATTTTATATTATTGCATGA
21340482 TATTTTATATTATTGCATGA
1 TATTTTATATTATTGCATGA
* *
21340502 TATTATATATTATTACATGA
1 TATTTTATATTATTGCATGA
21340522 T
1 T
21340523 TTATTGCATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
18 12 0.24
19 3 0.06
20 35 0.70
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
TATTTTATATTATTGCATGA
Found at i:21342096 original size:23 final size:24
Alignment explanation
Indices: 21342065--21342114 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
21342055 TCATATTCTA
21342065 GATCTAACTTAAGTTTCTAATCTG
1 GATCTAACTTAAGTTTCTAATCTG
21342089 GATC-AACTTAAGTTTCTAATCTG
1 GATCTAACTTAAGTTTCTAATCTG
21342112 GAT
1 GAT
21342115 GATCCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (24 bp):
GATCTAACTTAAGTTTCTAATCTG
Found at i:21344479 original size:22 final size:22
Alignment explanation
Indices: 21344453--21344502 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
21344443 TGTTTGAATG
21344453 TGAAAAAATGAAGAAAAAAAA-A
1 TGAAAAAATGAA-AAAAAAAAGA
21344475 TGAAAAAATGAAAAAAAAAAGA
1 TGAAAAAATGAAAAAAAAAAGA
21344497 TGAAAA
1 TGAAAA
21344503 TACATGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (22 bp):
TGAAAAAATGAAAAAAAAAAGA
Found at i:21344502 original size:9 final size:8
Alignment explanation
Indices: 21344453--21344502 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
21344443 TGTTTGAATG
21344453 TGAAAAAA
1 TGAAAAAA
*
21344461 TGAAGAAA
1 TGAAAAAA
21344469 --AAAAAA
1 TGAAAAAA
21344475 TGAAAAAA
1 TGAAAAAA
21344483 TGAAAAAA
1 TGAAAAAA
*
21344491 --AAAAGA
1 TGAAAAAA
21344497 TGAAAA
1 TGAAAA
21344503 TACATGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
6 10 0.29
8 25 0.71
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (8 bp):
TGAAAAAA
Found at i:21344503 original size:20 final size:21
Alignment explanation
Indices: 21344456--21344502 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
21344446 TTGAATGTGA
21344456 AAAAATGAAGAAAAAAAAATG
1 AAAAATGAAGAAAAAAAAATG
21344477 AAAAAATGAA-AAAAAAAAGATG
1 -AAAAATGAAGAAAAAAAA-ATG
21344499 AAAA
1 AAAA
21344503 TACATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAAATGAAGAAAAAAAAATG
Found at i:21346036 original size:44 final size:44
Alignment explanation
Indices: 21345965--21346206 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 44
21345955 AAGATAAGAA
*
21345965 ATGATTTGTAAGACCTTCGAACATAATCTCTAAAACCTCCAGGC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCTAAAACCTCCAGGC
* ** * * ***
21346009 ATGAGTTGTAAGACCTTTGGGCTTAATCTCCAAGAA-CTTTGGGC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCTAA-AACCTCCAGGC
* * * * * * *
21346053 ATGATTTGTAATACCTCCAAACATAATCTTTAAGACCTCCAAGC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCTAAAACCTCCAGGC
* **** *
21346097 ATGAGTTGTAAGACCTCTAGGTGTGTAATCTCTAAGACCTCC-GAGC
1 ATGAGTTGTAAGACCT-T-CGAACATAATCTCTAAAACCTCCAG-GC
* * * * * * *
21346143 ATGAGTTGTAAGATCTCCGAGCGTAATCT-TCAAGATCTCC-GAAC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCT-AAAACCTCCAG-GC
21346187 ATGAGTTGTAAGACCTTCGA
1 ATGAGTTGTAAGACCTTCGA
21346207 GTATGATTTG
Statistics
Matches: 148, Mismatches: 44, Indels: 12
0.73 0.22 0.06
Matches are distributed among these distances:
43 2 0.01
44 111 0.75
45 2 0.01
46 33 0.22
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
ATGAGTTGTAAGACCTTCGAACATAATCTCTAAAACCTCCAGGC
Found at i:21346108 original size:22 final size:22
Alignment explanation
Indices: 21346051--21346247 Score: 80
Period size: 22 Copynumber: 8.9 Consensus size: 22
21346041 AGAACTTTGG
* *
21346051 GCATGATTTGTAATACCTCCAA
1 GCATGAATTGTAAGACCTCCAA
* *
21346073 ACAT-AATCTTTAAGACCTCCAA
1 GCATGAAT-TGTAAGACCTCCAA
* * *
21346095 GCATGAGTTGTAAGACCTCTAG
1 GCATGAATTGTAAGACCTCCAA
** * *
21346117 GTGTGTAATCTCTAAGACCTCCGA
1 GCATG-AAT-TGTAAGACCTCCAA
* * *
21346141 GCATGAGTTGTAAGATCTCCGA
1 GCATGAATTGTAAGACCTCCAA
* *
21346163 GCGT-AATCT-TCAAGATCTCCGAA
1 GCATGAAT-TGT-AAGACCTCC-AA
* * *
21346186 -CATGAGTTGTAAGACCTTCGA
1 GCATGAATTGTAAGACCTCCAA
* * * *
21346207 GTATGATTTGTAAGACCTCTAG
1 GCATGAATTGTAAGACCTCCAA
*
21346229 GCAT-AATTTTTAAGACCTC
1 GCATGAA-TTGTAAGACCTC
21346248 TGGGCAAGAG
Statistics
Matches: 126, Mismatches: 38, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
21 7 0.06
22 96 0.76
23 10 0.08
24 13 0.10
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (22 bp):
GCATGAATTGTAAGACCTCCAA
Found at i:21346144 original size:46 final size:45
Alignment explanation
Indices: 21346076--21346202 Score: 150
Period size: 44 Copynumber: 2.8 Consensus size: 45
21346066 CCTCCAAACA
* * * *
21346076 TAATCTTTAAGACCTCCAAGCATGAGTTGTAAGACCTCTAGGTGTG
1 TAATC-TTAAGACCTCCGAGCATGAGTTGTAAGACCTCTACGAGCG
*
21346122 TAATCTCTAAGACCTCCGAGCATGAGTTGTAAGA--TCTCCGAGCG
1 TAATCT-TAAGACCTCCGAGCATGAGTTGTAAGACCTCTACGAGCG
* *
21346166 TAATCTTCAAGATCTCCGAACATGAGTTGTAAGACCT
1 TAATCTT-AAGACCTCCGAGCATGAGTTGTAAGACCT
21346203 TCGAGTATGA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
43 1 0.01
44 36 0.51
45 1 0.01
46 32 0.46
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
TAATCTTAAGACCTCCGAGCATGAGTTGTAAGACCTCTACGAGCG
Found at i:21346248 original size:22 final size:22
Alignment explanation
Indices: 21346212--21346339 Score: 73
Period size: 22 Copynumber: 5.7 Consensus size: 22
21346202 TTCGAGTATG
21346212 ATTTGTAAGACCTCTAGGCATA
1 ATTTGTAAGACCTCTAGGCATA
* *
21346234 ATTTTTAAGACCTCTGGGCA-A
1 ATTTGTAAGACCTCTAGGCATA
* * *
21346255 GAGTTGTAAAACCT-TAGAGCGTA
1 -ATTTGTAAGACCTCTAG-GCATA
** * * *
21346278 ATCTCTAAAAGACTTCCAGGCATG
1 AT-T-TGTAAGACCTCTAGGCATA
* *
21346302 ATTTGTAAGACCTCTGGGCGTA
1 ATTTGTAAGACCTCTAGGCATA
*
21346324 A-TCGTTAAGACCTCTA
1 ATTTG-TAAGACCTCTA
21346340 AACATGAATT
Statistics
Matches: 75, Mismatches: 24, Indels: 14
0.66 0.21 0.12
Matches are distributed among these distances:
21 5 0.07
22 54 0.72
23 3 0.04
24 11 0.15
25 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
ATTTGTAAGACCTCTAGGCATA
Found at i:21346344 original size:156 final size:156
Alignment explanation
Indices: 21346053--21346346 Score: 344
Period size: 156 Copynumber: 1.9 Consensus size: 156
21346043 AACTTTGGGC
* * *
21346053 ATGATTTGTAATACCTCCAAACATAATCTTTAAGACCTCCAAGCATGAGTTGTAAGACCTCTAGG
1 ATGATTTGTAAGACCTCCAAACATAATCTTTAAGACCTCCAAGCAAGAGTTGTAAAACCTCTAGG
* * * *
21346118 TGTGTAATCTCTAAGACCTCCGAGCATGAGTTGTAAGATCTCCGAGCGTAATCTTCAAGATCTCC
66 AGCGTAATCTCTAAGACCTCCGAGCATGAGTTGTAAGACCTCCGAGCGTAATCTTCAAGACCTCC
*
21346183 GAACATGAGTTGTAAGACCTTCGAGT
131 AAACATGAGTTGTAAGACCTTCGAGT
* ** * ***
21346209 ATGATTTGTAAGACCTCTAGGCATAATTTTTAAGACCTCTGGGCAAGAGTTGTAAAACCT-TA-G
1 ATGATTTGTAAGACCTCCAAACATAATCTTTAAGACCTCCAAGCAAGAGTTGTAAAACCTCTAGG
* * * *
21346272 AGCGTAATCTCTAAAAGACTTCC-AGGCATGATTTGTAAGACCTCTGGGCGTAATCGTT-AAGAC
66 AGCGTAATCTCT--AAGACCTCCGA-GCATGAGTTGTAAGACCTCCGAGCGTAATC-TTCAAGAC
*
21346335 CTCTAAACATGA
127 CTCCAAACATGA
21346347 ATTATAAAAC
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
154 11 0.10
155 3 0.03
156 98 0.86
157 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (156 bp):
ATGATTTGTAAGACCTCCAAACATAATCTTTAAGACCTCCAAGCAAGAGTTGTAAAACCTCTAGG
AGCGTAATCTCTAAGACCTCCGAGCATGAGTTGTAAGACCTCCGAGCGTAATCTTCAAGACCTCC
AAACATGAGTTGTAAGACCTTCGAGT
Found at i:21346370 original size:90 final size:90
Alignment explanation
Indices: 21346209--21346372 Score: 204
Period size: 90 Copynumber: 1.8 Consensus size: 90
21346199 ACCTTCGAGT
** *** * *
21346209 ATGATTTGTAAGACCTCTAGGCATAATTTTTAAGACCTCTGGGCAAGAGTTGTAAAACCTTAGAG
1 ATGATTTGTAAGACCTCTAGGCATAATCGTTAAGACCTCTAAACAAGAATTATAAAACCTTAGAG
*
21346274 CGTAATCTCTAAAAGACTTCCAGGC
66 CATAATCTCTAAAAGACTTCCAGGC
* * * *
21346299 ATGATTTGTAAGACCTCTGGGCGTAATCGTTAAGACCTCTAAACATGAATTATAAAACTTCTA-A
1 ATGATTTGTAAGACCTCTAGGCATAATCGTTAAGACCTCTAAACAAGAATTATAAAACCT-TAGA
21346363 GCATAATCTC
65 GCATAATCTC
21346373 AGGAAAAACT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
90 59 0.97
91 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (90 bp):
ATGATTTGTAAGACCTCTAGGCATAATCGTTAAGACCTCTAAACAAGAATTATAAAACCTTAGAG
CATAATCTCTAAAAGACTTCCAGGC
Found at i:21346802 original size:22 final size:21
Alignment explanation
Indices: 21346744--21346806 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
21346734 GCATAATCTT
21346744 TAAGACTTCAAACATGATTTA
1 TAAGACTTCAAACATGATTTA
21346765 TAAGACTTCAAACATGATTTA
1 TAAGACTTCAAACATGATTTA
*
21346786 TAAGACCTTCAAGCATGATTT
1 TAAGA-CTTCAAACATGATTT
21346807 CTAAAACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 26 0.65
22 14 0.35
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (21 bp):
TAAGACTTCAAACATGATTTA
Found at i:21346815 original size:22 final size:22
Alignment explanation
Indices: 21346744--21346816 Score: 105
Period size: 21 Copynumber: 3.4 Consensus size: 22
21346734 GCATAATCTT
21346744 TAAGA-CTTCAAACATGATTTA
1 TAAGACCTTCAAACATGATTTA
21346765 TAAGA-CTTCAAACATGATTTA
1 TAAGACCTTCAAACATGATTTA
* *
21346786 TAAGACCTTCAAGCATGATTTC
1 TAAGACCTTCAAACATGATTTA
*
21346808 TAAAACCTT
1 TAAGACCTT
21346817 AGGGCATGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 26 0.54
22 22 0.46
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCAAACATGATTTA
Found at i:21354507 original size:81 final size:81
Alignment explanation
Indices: 21354372--21354527 Score: 285
Period size: 81 Copynumber: 1.9 Consensus size: 81
21354362 TAGATGAAAA
* *
21354372 TTGCATTTAATAATCCTAAGCAGGTATGGTTTGCATTTAATAATCCTAGATAAGTTCGGTGTTGA
1 TTGCATTTAATAATCCTAAGCAGCTATGGTTTGCATTTAATAATCCTAGATAAGTTCGATGTTGA
21354437 TGGGTCATTTTTTTTT
66 TGGGTCATTTTTTTTT
*
21354453 TTGCATTTAATAATCCTAAGCATCTATGGTTTGCATTTAATAATCCTAGATAAGTTCGATGTTGA
1 TTGCATTTAATAATCCTAAGCAGCTATGGTTTGCATTTAATAATCCTAGATAAGTTCGATGTTGA
21354518 TGGGTCATTT
66 TGGGTCATTT
21354528 CCTTTTTGGT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (81 bp):
TTGCATTTAATAATCCTAAGCAGCTATGGTTTGCATTTAATAATCCTAGATAAGTTCGATGTTGA
TGGGTCATTTTTTTTT
Found at i:21355835 original size:64 final size:64
Alignment explanation
Indices: 21355623--21355869 Score: 219
Period size: 64 Copynumber: 3.8 Consensus size: 64
21355613 ATTTTTTTAG
* * * * ** * *
21355623 GGGATTATTAAAAGCGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTA-AAAAAAATTTGAAAA
1 GGGATTATTGAAAGCATTTTTTGCCAAAAACACATTCAATAAT-CCATACAAAAAAATTTGAAAA
* * * * * * * *
21355687 -TGATTATTGAAGGCATTTTTTTCCAAAAACGCTTTCAATAATCTAAACAAAAAAATTTTGTTAA
1 GGGATTATTGAAAGCATTTTTTGCCAAAAACACATTCAATAATCCATACAAAAAAA-TTTG-AAA
*
21355751 G
64 A
* *
21355752 GGGATTATTGAATGCATTTTTTGCCAAAAACACATTCAATAATCCATTCAAAAAAATTTGAAAA
1 GGGATTATTGAAAGCATTTTTTGCCAAAAACACATTCAATAATCCATACAAAAAAATTTGAAAA
* ** * * * *
21355816 GGGAATATTGAAAATATTTTTGGTCAAAAATACCTTCAATAATCCATACAAAAA
1 GGGATTATTGAAAGCATTTTTTGCCAAAAACACATTCAATAATCCATACAAAAA
21355870 TTTTTTAATG
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
62 2 0.01
63 40 0.27
64 51 0.35
65 6 0.04
66 47 0.32
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (64 bp):
GGGATTATTGAAAGCATTTTTTGCCAAAAACACATTCAATAATCCATACAAAAAAATTTGAAAA
Found at i:21355871 original size:280 final size:279
Alignment explanation
Indices: 21355344--21355872 Score: 578
Period size: 280 Copynumber: 1.9 Consensus size: 279
21355334 AAATTTAGAA
* * * * * * *
21355344 GGGATTATTGAAGGTGTTTTTGACAAAAATACCTTCAATAATCCATTCAAAAAAATTTGGAGACG
1 GGGATTATTAAAAGCGTTTTTGACAAAAATACCTTCAATAATCCACTAAAAAAAATTTGGAAAAG
* *
21355409 GAATATTGAAAACATTTTCAACCAAAATCGCCTTCAATAATCCAAACAAAAATTTTTGTTAAGGG
66 GAATATTGAAAACATTTTCAACCAAAAACGCCTTCAATAATCCAAACAAAAAATTTTGTTAAGGG
* ** * * * **
21355474 GATTATTAAAGGCGTTTTTGTTCAAAAATGCTTTCAATAATCTAAACAAAAAATTTTGTTAAGGG
131 GATTATTAAAGGCGTTTTTGTCCAAAAACACATTCAATAATCCAAACAAAAAAATTTGAAAAGGG
* * ** * * ** *
21355539 GGGTTGAAGGCATTTTTTGCCAAAAACGCCTTCAATAATCTTTCATAAAAATTTATTGAGGGAAT
196 AGATTGAAAACATTTTTGGCCAAAAACACCTTCAATAATCCATCACAAAAATTTATTGAGGGAAT
21355604 CCCTTTCAAATTTTTTTAG
261 CCCTTTCAAATTTTTTTAG
* * *
21355623 GGGATTATTAAAAGCGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTAAAAAAAATTT-GAAAA
1 GGGATTATTAAAAGCGTTTTTGAC-AAAAATACCTTCAATAATCCACTAAAAAAAATTTGGAAAA
* * ** *** * *
21355687 TGATTATTGAAGGCATTTTTTTCCAAAAACGCTTTCAATAATCTAAACAAAAAAATTTTGTTAAG
65 GGAATATTGAAAACATTTTCAACCAAAAACGCCTTCAATAATCCAAAC-AAAAAATTTTGTTAAG
* * * **
21355752 GGGATTATTGAATGCATTTTT-TGCCAAAAACACATTCAATAATCCATTCAAAAAAATTTGAAAA
129 GGGATTATTAAAGGCGTTTTTGT-CCAAAAACACATTCAATAATCCAAACAAAAAAATTTGAAAA
* * * *
21355816 GGGAATATTGAAAATATTTTTGGTCAAAAATACCTTCAATAATCCAT-ACAAAAATTT
193 GGG-AGATTGAAAACATTTTTGGCCAAAAACACCTTCAATAATCCATCACAAAAATTT
21355873 TTTAATGGGA
Statistics
Matches: 199, Mismatches: 47, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
279 62 0.31
280 106 0.53
281 31 0.16
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (279 bp):
GGGATTATTAAAAGCGTTTTTGACAAAAATACCTTCAATAATCCACTAAAAAAAATTTGGAAAAG
GAATATTGAAAACATTTTCAACCAAAAACGCCTTCAATAATCCAAACAAAAAATTTTGTTAAGGG
GATTATTAAAGGCGTTTTTGTCCAAAAACACATTCAATAATCCAAACAAAAAAATTTGAAAAGGG
AGATTGAAAACATTTTTGGCCAAAAACACCTTCAATAATCCATCACAAAAATTTATTGAGGGAAT
CCCTTTCAAATTTTTTTAG
Found at i:21357733 original size:25 final size:25
Alignment explanation
Indices: 21357704--21357775 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 25
21357694 TTAATATAAC
*
21357704 TATTAAAATATTAGAAATTATTTAT
1 TATTAAAATATTAGAAATTAATTAT
*
21357729 TATTAAAATATATTGAAATTAATTAT
1 TATTAAAATAT-TAGAAATTAATTAT
21357755 TATTAAAATTATTA-AAATTAA
1 TATTAAAA-TATTAGAAATTAA
21357776 AAAATAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 18 0.43
26 21 0.50
27 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTAAAATATTAGAAATTAATTAT
Found at i:21357754 original size:26 final size:26
Alignment explanation
Indices: 21357704--21357775 Score: 103
Period size: 25 Copynumber: 2.8 Consensus size: 26
21357694 TTAATATAAC
* *
21357704 TATTAAAATAT-TAGAAATTATTTAT
1 TATTAAAATATATTGAAATTAATTAT
21357729 TATTAAAATATATTGAAATTAATTAT
1 TATTAAAATATATTGAAATTAATTAT
*
21357755 TATTAAAAT-TATTAAAATTAA
1 TATTAAAATATATTGAAATTAA
21357776 AAAATAACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
TATTAAAATATATTGAAATTAATTAT
Found at i:21357824 original size:19 final size:20
Alignment explanation
Indices: 21357802--21357839 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21357792 AATAATAATA
*
21357802 TTTAATATTAAAAT-CTTAT
1 TTTAATATAAAAATACTTAT
21357821 TTTAATATAAAAATACTTA
1 TTTAATATAAAAATACTTA
21357840 AAATAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATATAAAAATACTTAT
Found at i:21357891 original size:16 final size:16
Alignment explanation
Indices: 21357872--21357950 Score: 71
Period size: 16 Copynumber: 5.2 Consensus size: 16
21357862 TTACATTATT
21357872 TATTAATATATT-ATAA
1 TATT-ATATATTAATAA
*
21357888 TATTATTTATTAATAA
1 TATTATATATTAATAA
21357904 TA-T-T-TATTAAT-A
1 TATTATATATTAATAA
*
21357916 TATTATAT-TTATATTA
1 TATTATATATTA-ATAA
*
21357932 TATTATTTATTAATAA
1 TATTATATATTAATAA
21357948 TAT
1 TAT
21357951 ATTATTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 5 0.09
15 10 0.19
16 24 0.45
17 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATATATTAATAA
Found at i:21357892 original size:23 final size:23
Alignment explanation
Indices: 21357866--21358065 Score: 89
Period size: 23 Copynumber: 8.7 Consensus size: 23
21357856 TATTCTTTAC
21357866 ATTATTTATTAATATATTATAAT
1 ATTATTTATTAATATATTATAAT
21357889 ATTATTTATTAATAATATTTATTAAT
1 ATTATTTATTAAT-ATA-TTA-TAAT
21357915 A-TATTATATT--TATA-T-T-AT
1 ATTATT-TATTAATATATTATAAT
*
21357933 ATTATTTATTAATA-A-TATATT
1 ATTATTTATTAATATATTATAAT
* *
21357954 ATTTATTCA-T-ATATTATCATAAT
1 A-TTATTTATTAATA-TATTATAAT
* * * *
21357977 GTTTATTAATTAA-ATTAATAATATTT
1 -ATTATTTATTAATA-T-ATTATA-AT
* * *
21358003 ATTATTATATTATTAAGAATATAAT
1 ATTATT-TATTAAT-ATATTATAAT
* *
21358028 ATTATTTCTTTATATATTATAAT
1 ATTATTTATTAATATATTATAAT
* *
21358051 GTTATTTCTTAATAT
1 ATTATTTATTAATAT
21358066 TATTTATTAA
Statistics
Matches: 134, Mismatches: 22, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
18 7 0.05
19 7 0.05
20 6 0.04
21 4 0.03
22 7 0.05
23 47 0.35
24 12 0.09
25 25 0.19
26 18 0.13
28 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (23 bp):
ATTATTTATTAATATATTATAAT
Found at i:21357910 original size:36 final size:36
Alignment explanation
Indices: 21357868--21358082 Score: 118
Period size: 36 Copynumber: 6.1 Consensus size: 36
21357858 TTCTTTACAT
21357868 TATTTATTAATATATTATAATATTATTTATTAATAA
1 TATTTATTAATATATTATAATATTATTTATTAATAA
*
21357904 TATTTATTAATATATTAT-AT-TTA--TATT-ATAT
1 TATTTATTAATATATTATAATATTATTTATTAATAA
* *
21357935 TATTTATTAATA-ATATATTATTTATTCATATATTATCATAA
1 TATTTATTAATATAT-TA-TA-ATATT-ATTTATTA--ATAA
* * * *
21357976 TGTTTATTAAT-TA-AATTAATAATATTTATT-ATTA
1 TATTTATTAATATATTA-TAATATTATTTATTAATAA
* * *
21358010 TA-TTATTAAGA-A-TATAATATTATTTCTTTAT-A
1 TATTTATTAATATATTATAATATTATTTATTAATAA
* *
21358042 TA-TTA-TAATGTTATTTCTTAATATTATTTATTAATATA
1 TATTTATTAAT-ATA-TT-ATAATATTATTTATTAATA-A
21358080 TAT
1 TAT
21358083 AATATTATTT
Statistics
Matches: 138, Mismatches: 19, Indels: 41
0.70 0.10 0.21
Matches are distributed among these distances:
30 2 0.01
31 20 0.14
32 23 0.17
33 12 0.09
34 8 0.06
35 5 0.04
36 34 0.25
37 6 0.04
38 10 0.07
39 4 0.03
41 14 0.10
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (36 bp):
TATTTATTAATATATTATAATATTATTTATTAATAA
Found at i:21357942 original size:18 final size:18
Alignment explanation
Indices: 21357866--21358179 Score: 90
Period size: 18 Copynumber: 17.6 Consensus size: 18
21357856 TATTCTTTAC
21357866 ATTATTTATTAATATATTAT
1 ATTATTTATT--TATATTAT
* *
21357886 AATA-TTATTTAT-TAAT
1 ATTATTTATTTATATTAT
*
21357902 AATATTTA-TTA-A-TAT
1 ATTATTTATTTATATTAT
21357917 ATTA--TATTTATATTAT
1 ATTATTTATTTATATTAT
* *
21357933 ATTATTTATTAATAATAT
1 ATTATTTATTTATATTAT
21357951 ATTATTTATTCATATATTAT
1 ATTATTTATT--TATATTAT
* *
21357971 CATAATGTT-TATTA-ATTAA
1 -ATTAT-TTAT-TTATATTAT
*
21357990 ATTAATAATATTTATTATTAT
1 ATT-AT-TTATTTA-TATTAT
*** *
21358011 ATTA-TTAAGAATATAAT
1 ATTATTTATTTATATTAT
*
21358028 ATTATTTCTTTATA-TATT
1 ATTATTTATTTATATTA-T
* * *
21358046 ATAATGTTATTTCT-TAAT
1 ATTAT-TTATTTATATTAT
*
21358064 ATTATTTATTAATA-TAT
1 ATTATTTATTTATATTAT
* *
21358081 ATAATATTATTTATGAATAT
1 ATTAT-TTATTTAT-ATTAT
* * * *
21358101 GTTATAATACTTGTATTAAT
1 ATTAT-TTATTTATATT-AT
*
21358121 ATGT-TTTA-TTA-A-TAC
1 AT-TATTTATTTATATTAT
* *
21358136 ATTA--TATTAATAGTAT
1 ATTATTTATTTATATTAT
* *
21358152 ATTATTTATTCATATAAT
1 ATTATTTATTTATATTAT
21358170 ATTATTTATT
1 ATTATTTATT
21358180 AATAGATTGT
Statistics
Matches: 213, Mismatches: 49, Indels: 66
0.65 0.15 0.20
Matches are distributed among these distances:
13 4 0.02
14 6 0.03
15 10 0.05
16 24 0.11
17 29 0.14
18 68 0.32
19 27 0.13
20 29 0.14
21 13 0.06
22 3 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTATTTATTTATATTAT
Found at i:21358063 original size:77 final size:77
Alignment explanation
Indices: 21357898--21358099 Score: 179
Period size: 77 Copynumber: 2.7 Consensus size: 77
21357888 TATTATTTAT
* **
21357898 TAATAATATTTATTAA-T--A-T-ATTATATTTATATTATATTATTTATTAATAATATATTATTT
1 TAATAATATTTATTAATTAAATTAATAATATTTATATTATATTATTTAAGAATAATATATTATTT
21357958 ATTCATATATTA
66 ATTCATATATTA
* *
21357970 TCATAATGTTTATTAATTAAATTAATAATATTTATTATTATATTA-TTAAGAAT-ATAATATTAT
1 TAATAATATTTATTAATTAAATTAATAATATTTA-TATTATATTATTTAAGAATAAT-ATATTAT
* *
21358033 TTCTTTATATATTA
64 TTATTCATATATTA
** * * * * * *
21358047 TAATGTTATTTCTTAATATTATTTATTAATA--TATATAATATTATTTATGAATA
1 TAATAATATTTATTAAT-TAAATTAATAATATTTATATTATATTATTTAAGAATA
21358100 TGTTATAATA
Statistics
Matches: 103, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
72 14 0.14
73 1 0.01
75 10 0.10
76 12 0.12
77 46 0.45
78 20 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (77 bp):
TAATAATATTTATTAATTAAATTAATAATATTTATATTATATTATTTAAGAATAATATATTATTT
ATTCATATATTA
Found at i:21358068 original size:13 final size:13
Alignment explanation
Indices: 21358024--21358078 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
21358014 ATTAAGAATA
21358024 TAATATTATTTCT
1 TAATATTATTTCT
* *
21358037 TTATA-TA-TT-A
1 TAATATTATTTCT
*
21358047 TAATGTTATTTCT
1 TAATATTATTTCT
*
21358060 TAATATTATTTAT
1 TAATATTATTTCT
21358073 TAATAT
1 TAATAT
21358079 ATATAATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 4 0.12
13 21 0.66
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (13 bp):
TAATATTATTTCT
Found at i:21358088 original size:22 final size:23
Alignment explanation
Indices: 21358060--21358123 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 23
21358050 TGTTATTTCT
21358060 TAATATTATTTATTAATAT-ATA
1 TAATATTATTTATTAATATGATA
* *
21358082 TAATATTATTTATGAATATGTTA
1 TAATATTATTTATTAATATGATA
* *
21358105 TAATACT-TGTATTAATATG
1 TAATATTATTTATTAATATG
21358124 TTTTATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 28 0.78
23 8 0.22
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (23 bp):
TAATATTATTTATTAATATGATA
Found at i:21358100 original size:35 final size:36
Alignment explanation
Indices: 21357866--21358183 Score: 117
Period size: 36 Copynumber: 8.8 Consensus size: 36
21357856 TATTCTTTAC
*
21357866 ATTATTTATTAATA-TA-TTA-TAATATTATTTATTAAT
1 ATTATTTATTAATATTATTTATTAATACTA--TA-TAAT
* * * *
21357902 AATATTTATTAATA-TATTATATTTATATTATATTAT
1 ATTATTTATTAATATTATT-TATTAATACTATATAAT
* * * *
21357938 -TTATTAATAATATATTATTTATTCATA-TATTATCAT
1 ATTATTTATTA-ATATTATTTATTAATACTA-TATAAT
* * * * * * *
21357974 AATGTTTATTAAT-TAAATTAATAATATTTATTATTAT
1 ATTATTTATTAATATTATTTATTAATA-CTA-TATAAT
* * *
21358011 ATTATTAAGAATATAATATTATTTCTTTATA-TATTATAAT
1 ATTATT---TAT-TAATATTATTTATTAATACTA-TATAAT
* *
21358051 GTTATTTCTTAATATTATTTATTAATA-TATATAAT
1 ATTATTTATTAATATTATTTATTAATACTATATAAT
* * *
21358086 ATTATTTATGAATA-T-GTTA-TAATACTTGTATTAAT
1 ATTATTTATTAATATTATTTATTAATAC-TATA-TAAT
* * *
21358121 ATGT-TTTATTAATA-CATTATATTAATAGTATATTAT
1 AT-TATTTATTAATATTATT-TATTAATACTATATAAT
*
21358157 -TTATTCATATAATATTATTTATTAATA
1 ATTATTTAT-TAATATTATTTATTAATA
21358184 GATTGTAATA
Statistics
Matches: 214, Mismatches: 44, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
32 5 0.02
33 3 0.01
34 5 0.02
35 55 0.26
36 71 0.33
37 34 0.16
38 7 0.03
39 7 0.03
40 15 0.07
41 4 0.02
42 8 0.04
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (36 bp):
ATTATTTATTAATATTATTTATTAATACTATATAAT
Found at i:21360940 original size:2 final size:2
Alignment explanation
Indices: 21360935--21360961 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21360925 TATATATATA
21360935 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
21360962 CATAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21361230 original size:34 final size:33
Alignment explanation
Indices: 21361168--21361237 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
21361158 CATAGTGGCA
* * *
21361168 TTTTTATCATAAATGCAGCTAAATTTAAAGGCG
1 TTTTTATCATAAACGCAGCTAAAATTAAAAGCG
**
21361201 TTTTTATCATAAAACGTTGCTAAAATTAAAAGCG
1 TTTTTATCAT-AAACGCAGCTAAAATTAAAAGCG
21361235 TTT
1 TTT
21361238 ATAGTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 10 0.32
34 21 0.68
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (33 bp):
TTTTTATCATAAACGCAGCTAAAATTAAAAGCG
Found at i:21362589 original size:127 final size:123
Alignment explanation
Indices: 21362458--21362760 Score: 308
Period size: 124 Copynumber: 2.4 Consensus size: 123
21362448 ATTTTTGTAA
* *
21362458 AAAAAATGCCTTTAATAATCTTTTCTATTTTTTATGAGGAAATTATTAAAGGCATTTTAGGCAAA
1 AAAAAATGCCTTTAATAATCTTTTC-ATTTTTTATGA-GAGATTATTGAAGGCATTTTAGG--AA
* *
21362523 AAAAATGCCTTCAATAATCTCTTTCAATTTTTTTATA-AGGGATTATTAAAGACATTTT-AAGC
62 AAAAATACATTCAATAATCTCTTTCAA-TTTTTTATAGA-GGATTATTAAAGACATTTTCAAGC
* * * * * ** * *
21362585 AAAAAACGCATTTAATAAT-TTCCTTAAATTTTGATGAAGAGATTATTGAAGGTGTTTTTGGTAA
1 AAAAAATGCCTTTAATAATCTT--TTCATTTTTTATG-AGAGATTATTGAAGGCATTTTAGGAAA
* * * * *
21362649 AAAATACATTTAATAATCTCTTTCAATTTTTTATAGAGGATTATTGAAGGCATTTTCTATC
63 AAAATACATTCAATAATCTCTTTCAATTTTTTATAGAGGATTATTAAAGACATTTTCAAGC
* *
21362710 -AAAAATGCCTTCAATAATCCCTTTCATTTTTTATGAGAGATTATTGAAGGC
1 AAAAAATGCCTTTAATAAT-CTTTTCATTTTTTATGAGAGATTATTGAAGGC
21362761 GTTTCGAGTG
Statistics
Matches: 143, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
123 15 0.10
124 51 0.36
125 28 0.20
126 3 0.02
127 43 0.30
128 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (123 bp):
AAAAAATGCCTTTAATAATCTTTTCATTTTTTATGAGAGATTATTGAAGGCATTTTAGGAAAAAA
ATACATTCAATAATCTCTTTCAATTTTTTATAGAGGATTATTAAAGACATTTTCAAGC
Found at i:21362677 original size:62 final size:61
Alignment explanation
Indices: 21362593--21362764 Score: 161
Period size: 62 Copynumber: 2.8 Consensus size: 61
21362583 GCAAAAAACG
* * * * *
21362593 CATTTAATAATTTCCTTAAATTTTGATGAAGAGATTATTGAAGGTGTTTT-TGGTAAAAAATA
1 CATTTAATAATCTCTTTCAATTTT-ATGAAGAGATTATTGAAGGCGTTTTCT-ATAAAAAATA
* * * *
21362655 CATTTAATAATCTCTTTCAATTTT-TTATAGAGGATTATTGAAGGCATTTTCTATCAAAAATG
1 CATTTAATAATCTCTTTCAATTTTATGA-AGA-GATTATTGAAGGCGTTTTCTATAAAAAATA
* * * *
21362717 CCTTCAATAATCCCTTTCATTTTTTATG-AGAGATTATTGAAGGCGTTT
1 CATTTAATAATCTCTTTCA-ATTTTATGAAGAGATTATTGAAGGCGTTT
21362765 CGAGTGCCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
60 2 0.02
61 19 0.21
62 63 0.70
63 5 0.06
64 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (61 bp):
CATTTAATAATCTCTTTCAATTTTATGAAGAGATTATTGAAGGCGTTTTCTATAAAAAATA
Done.