Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 49 of 50
Found at i:19506729 original size:31 final size:31
Alignment explanation
Indices: 19506665--19506730 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
19506655 AAAATGACTT
* *
19506665 AAAAAACCTTAAAAATCCATAAAATTTCTTG
1 AAAAAACCTTAAAAATCCATAAAATTCCATG
* *
19506696 AAAACACCTTAAAAATCCATTGAAA-TCCATG
1 AAAAAACCTTAAAAATCCA-TAAAATTCCATG
19506727 AAAA
1 AAAA
19506731 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (31 bp):
AAAAAACCTTAAAAATCCATAAAATTCCATG
Found at i:19506752 original size:41 final size:41
Alignment explanation
Indices: 19506650--19506751 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 41
19506640 TTTAAAAATC
*
19506650 TTTTAAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTT
1 TTTTAAAAATG-CTTAAAAATCCTTAAAAATCCATAAAATTT
* * * *
19506692 CTTGAAAACA-CCTTAAAAATCCATT-GAAATCCATGAAAATTT
1 TTTTAAAA-ATGCTTAAAAATCC-TTAAAAATCCAT-AAAATTT
19506734 TTTTAAAAATGCTTAAAA
1 TTTTAAAAATGCTTAAAA
19506752 TGACCATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
41 19 0.40
42 28 0.58
43 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (41 bp):
TTTTAAAAATGCTTAAAAATCCTTAAAAATCCATAAAATTT
Found at i:19511523 original size:22 final size:22
Alignment explanation
Indices: 19511481--19511528 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
19511471 AATTATCAGT
*
19511481 AGCAAAATACCATGAACATATA
1 AGCAAAATACCATAAACATATA
* * *
19511503 AGCAAAGTACCATAAATATATC
1 AGCAAAATACCATAAACATATA
19511525 AGCA
1 AGCA
19511529 TCCATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (22 bp):
AGCAAAATACCATAAACATATA
Found at i:19520344 original size:22 final size:23
Alignment explanation
Indices: 19520310--19520356 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19520300 ATATGTGCTT
* **
19520310 AAAAGGATCTTAAAAATGCTTAA
1 AAAAAGATCTTAAAAAACCTTAA
19520333 AAAAAGAT-TTAAAAAACCTTAA
1 AAAAAGATCTTAAAAAACCTTAA
19520355 AA
1 AA
19520357 TTTCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAAGATCTTAAAAAACCTTAA
Found at i:19520379 original size:32 final size:32
Alignment explanation
Indices: 19520343--19520430 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
19520333 AAAAAGATTT
* * *
19520343 AAAAAACCTTAAAATTTC-TTAAAATTCCTTGA
1 AAAAAACCTTAAAAATCCTTTAAAATTCATT-A
*
19520375 AAAAAA--TATAAAAATCCTTTGAAATTCATTA
1 AAAAAACCT-TAAAAATCCTTTAAAATTCATTA
* *
19520406 AAAAAACCTTAAAAATGCTTCAAAA
1 AAAAAACCTTAAAAATCCTTTAAAA
19520431 GATTTCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
30 1 0.02
31 14 0.31
32 29 0.64
33 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAAAACCTTAAAAATCCTTTAAAATTCATTA
Found at i:19520400 original size:42 final size:41
Alignment explanation
Indices: 19520317--19520420 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 41
19520307 CTTAAAAGGA
* *
19520317 TCTTAAAAATGCTTAAAAAAAGATTTAAAAAACCTTAAAATT
1 TCTTAAAAATCCTTAAAAAAAGATATAAAAAACCTTAAAA-T
* * * *
19520359 TCTTAAAATTCCTTGAAAAAA-ATATAAAAATCCTTTGAAAT
1 TCTTAAAAATCCTTAAAAAAAGATATAAAAAACC-TTAAAAT
*
19520400 TCATTAAAAAAACCTTAAAAA
1 TC-TT-AAAAATCCTTAAAAA
19520421 TGCTTCAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 13 0.26
42 25 0.50
43 12 0.24
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (41 bp):
TCTTAAAAATCCTTAAAAAAAGATATAAAAAACCTTAAAAT
Found at i:19520450 original size:10 final size:10
Alignment explanation
Indices: 19520414--19520474 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
19520404 TAAAAAAACC
19520414 TTAAAAATGCT
1 TTAAAAAT-CT
*
19520425 TCAAAAGAT-T
1 TTAAAA-ATCT
*
19520435 TCAAAAATCT
1 TTAAAAATCT
19520445 TTAAAAATACT
1 TTAAAAAT-CT
* *
19520456 TTAAAAAACC
1 TTAAAAATCT
19520466 TTAAAAATC
1 TTAAAAATC
19520475 CATAAAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 2 0.05
10 24 0.57
11 14 0.33
12 2 0.05
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (10 bp):
TTAAAAATCT
Found at i:19520461 original size:21 final size:21
Alignment explanation
Indices: 19520383--19520473 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
19520373 GAAAAAAATA
* * * *
19520383 TAAAAATCCTTTGAAATTCAT
1 TAAAAATACTTTAAAAATCTT
* *
19520404 TAAAAAAACCTTAAAAATGCTT
1 TAAAAATACTTTAAAAAT-CTT
* *
19520426 CAAAAGAT--TTCAAAAATCTT
1 TAAAA-ATACTTTAAAAATCTT
* *
19520446 TAAAAATACTTTAAAAAACCT
1 TAAAAATACTTTAAAAATCTT
19520467 TAAAAAT
1 TAAAAAT
19520474 CCATAAAATT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.04
20 7 0.13
21 36 0.69
22 6 0.12
23 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (21 bp):
TAAAAATACTTTAAAAATCTT
Found at i:19520536 original size:10 final size:10
Alignment explanation
Indices: 19520521--19520582 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
19520511 AATGCTATAA
19520521 AAAAAACCTT
1 AAAAAACCTT
*
19520531 AAAAAAACTT
1 AAAAAACCTT
19520541 AAAATAACCTT
1 AAAA-AACCTT
* *
19520552 AAACATACTTT
1 AAA-AAACCTT
19520563 AAAAAAGCC-T
1 AAAAAA-CCTT
*
19520573 AAAAATCCTT
1 AAAAAACCTT
19520583 CACAAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 2 0.05
10 22 0.54
11 16 0.39
12 1 0.02
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAAACCTT
Found at i:19520536 original size:11 final size:11
Alignment explanation
Indices: 19520520--19520577 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
19520510 GAATGCTATA
19520520 AAAAAAACCTT
1 AAAAAAACCTT
19520531 AAAAAAA-CTT
1 AAAAAAACCTT
*
19520541 AAAATAACCTT
1 AAAAAAACCTT
* * *
19520552 AAACATACTTT
1 AAAAAAACCTT
*
19520563 AAAAAAGCC-T
1 AAAAAAACCTT
19520573 AAAAA
1 AAAAA
19520578 TCCTTCACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 15 0.41
11 22 0.59
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAAAACCTT
Found at i:19520544 original size:21 final size:22
Alignment explanation
Indices: 19520520--19520577 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
19520510 GAATGCTATA
19520520 AAAAAAACCTTAAAAAAAC-TT
1 AAAAAAACCTTAAAAAAACTTT
* * *
19520541 AAAATAACCTTAAACATACTTT
1 AAAAAAACCTTAAAAAAACTTT
*
19520563 AAAAAAGCC-TAAAAA
1 AAAAAAACCTTAAAAA
19520578 TCCTTCACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAAACCTTAAAAAAACTTT
Found at i:19520646 original size:19 final size:20
Alignment explanation
Indices: 19520622--19520659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19520612 TAATAAATAA
*
19520622 TTAAAAA-ATTAAAAATCTC
1 TTAAAAACATCAAAAATCTC
19520641 TTAAAAACATCAAAAATCT
1 TTAAAAACATCAAAAATCT
19520660 TTCAAAGTCC
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:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAAAACATCAAAAATCTC
Found at i:19520692 original size:21 final size:21
Alignment explanation
Indices: 19520632--19520692 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
19520622 TTAAAAAATT
* *
19520632 AAAAATCTC-TTAAAAACATC
1 AAAAATCTCTTTAAAACCTTC
* * *
19520652 AAAAATCT-TTCAAAGTCCTTG
1 AAAAATCTCTTTAAA-ACCTTC
19520673 AAAAATCTCTTTAAAACCTT
1 AAAAATCTCTTTAAAACCTT
19520693 AAATATGCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 12 0.39
21 14 0.45
22 5 0.16
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAATCTCTTTAAAACCTTC
Found at i:19520730 original size:287 final size:286
Alignment explanation
Indices: 19520521--19521039 Score: 632
Period size: 287 Copynumber: 1.8 Consensus size: 286
19520511 AATGCTATAA
* *
19520521 AAAAAACCTT-AAAAAAACTTAAAATAACC-TTAAACATACTTTAAA-AAAGCCTAAAAATCCTT
1 AAAAAACCTTGAAAAAAACTTAAAA-AACCATTAAA-ATACATGAAAGAAAGCCTAAAAATCC-T
* * *
19520583 CACAAAATTTTAAAAATCT-TTAAAATTCGTAATAAATAATTAAAAAATTAAAAATCTCTTAAAA
63 -AAAAAATCTT-AAAATCTCTTAAAATTCGTAATAAATAATTAAAAAATTAAAAATCCCTTAAAA
* *
19520647 ACATCAAAAATCTTTCAAAGTCCTTGAAAAATCTCTTTAAAACCTTAAATATGCTTAAAAGGATC
126 ACATCAAAAATCTTTCAAAGTCCTTGAAAAATCTCTTAAAAACCTAAAATATGCTTAAAAGGATC
* * ** ** * *
19520712 TTTAAAATACTTAAAAATCCATAAAAAAAACCTTAGAAATGCTTCAAAATATTTTAAAAATCTTT
191 TTAAAAATACTTAAAAATCCATAAAAAAAACCTTAAAAAACCTTCAAAATATCATAAAAATCGTG
19520777 AAAAAATGACTTAAAAAACCTTAAAAATCCAT
256 AAAAAA-GACTTAAAAAACCTTAAAAATCCAT
*** * * * * * ***
19520809 AAAATTGCTTGAAAACACCTTAAAAATCCATTGAAATCCATGAAAGAAATTTTAAAAATCCTAAA
1 AAAAAACCTTGAAAAAAACTTAAAAAACCATTAAAATACATGAAAGAAAGCCTAAAAATCCTAAA
* *
19520874 AAATCTTAAAATTTCTTAAAATTCGTAATAAATAATTACAAAATTAAAAATCCCTTAAAAACATC
66 AAATCTTAAAATCTCTTAAAATTCGTAATAAATAATTAAAAAATTAAAAATCCCTTAAAAACATC
* * * * *
19520939 AAGAATCTTTCAAATTCCTTGAAAAATCTGTTAAAAACCTAAAATATGCTTAAATGGATGTTAAA
131 AAAAATCTTTCAAAGTCCTTGAAAAATCTCTTAAAAACCTAAAATATGCTTAAAAGGATCTTAAA
*
19521004 AATACTTAAAAATTCATAAAAAAAAAACCTTAAAAA
196 AATACTTAAAAATCCAT--AAAAAAAACCTTAAAAA
19521040 GGCTCAAAGA
Statistics
Matches: 197, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
286 6 0.03
287 129 0.65
288 18 0.09
289 44 0.22
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.29
Consensus pattern (286 bp):
AAAAAACCTTGAAAAAAACTTAAAAAACCATTAAAATACATGAAAGAAAGCCTAAAAATCCTAAA
AAATCTTAAAATCTCTTAAAATTCGTAATAAATAATTAAAAAATTAAAAATCCCTTAAAAACATC
AAAAATCTTTCAAAGTCCTTGAAAAATCTCTTAAAAACCTAAAATATGCTTAAAAGGATCTTAAA
AATACTTAAAAATCCATAAAAAAAACCTTAAAAAACCTTCAAAATATCATAAAAATCGTGAAAAA
AGACTTAAAAAACCTTAAAAATCCAT
Found at i:19520737 original size:31 final size:30
Alignment explanation
Indices: 19520680--19520737 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
19520670 TTGAAAAATC
* * * *
19520680 TCTTTAAAACCTTAAATATGCTTAAAAGGA
1 TCTTTAAAAACTTAAAAATCCATAAAAGGA
19520710 TCTTTAAAATACTTAAAAATCCATAAAA
1 TCTTTAAAA-ACTTAAAAATCCATAAAA
19520738 AAAACCTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 9 0.39
31 14 0.61
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
TCTTTAAAAACTTAAAAATCCATAAAAGGA
Found at i:19520853 original size:31 final size:31
Alignment explanation
Indices: 19520789--19520874 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
19520779 AAAATGACTT
* *
19520789 AAAAAACCTTAAAAATCCATAAAATTGCTTG
1 AAAAAACCTTAAAAATCCATAAAATTCCATG
* *
19520820 AAAACACCTTAAAAATCCATTGAAA-TCCATG
1 AAAAAACCTTAAAAATCCA-TAAAATTCCATG
**
19520851 AAAGAAATTTTAAAAATCC-TAAAA
1 AAA-AAACCTTAAAAATCCATAAAA
19520875 AATCTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
30 4 0.09
31 25 0.56
32 16 0.36
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (31 bp):
AAAAAACCTTAAAAATCCATAAAATTCCATG
Found at i:19521144 original size:116 final size:112
Alignment explanation
Indices: 19521024--19521386 Score: 359
Period size: 116 Copynumber: 3.1 Consensus size: 112
19521014 AATTCATAAA
* * *
19521024 AAAAAAACCTTAAAAAGGCTCAAAGAGACTTTAAAATTTTTTTAAAAATGTTTTAAAAAACTTCA
1 AAAAAAACCTTAAAACGGCTCAAA-AGACTTTAAAATTTTTTAAAAAATGATTTAAAAAACTT-A
* * *
19521089 AAATTACTTAAAATTCCTTGAAAATATTTTAAAATTTTTTTGAAATCCATG
64 AAAAT-CTTAAAATTCCTTGAAAACATTTTAAAA-TCTTTTGAAATCCATG
* ** * * ** *
19521140 AAAAAAATCTTTAAAACGTTTCAAAAGACTTTTAAAA-TATTAAAAAAAAAACTTTAAAAACCTT
1 AAAAAAA-CCTTAAAACGGCTCAAAAGAC-TTTAAAATTTTTTAAAAAATGA-TTTAAAAAACTT
* *
19521204 AAAAATCCTTTAAATTCCTTGAAAACATCTTTAAAATCTTTTGAAATCCATT
63 AAAAAT-CTTAAAATTCCTTGAAAACAT-TTTAAAATCTTTTGAAATCCATG
* * * **
19521256 AAAAAAACCTTAAAACTGCTACAAAAGACTTCAATATTTTTTAAAAAATGACCTAAAAAACCTTA
1 AAAAAAACCTTAAAACGGCT-CAAAAGACTTTAAAATTTTTTAAAAAATGATTTAAAAAA-CTTA
** * * * *
19521321 AAAATCCAAAAACTTCCTTGAAAACACCTTAAAAATCCTTTGAAATCTATG
64 AAAATCTTAAAA-TTCCTTGAAAACA-TTTTAAAATCTTTTGAAATCCATG
19521372 AAAAAAACCTTAAAA
1 AAAAAAACCTTAAAA
19521387 TTGCTTAAAA
Statistics
Matches: 200, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
115 24 0.12
116 138 0.69
117 38 0.19
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.31
Consensus pattern (112 bp):
AAAAAAACCTTAAAACGGCTCAAAAGACTTTAAAATTTTTTAAAAAATGATTTAAAAAACTTAAA
AATCTTAAAATTCCTTGAAAACATTTTAAAATCTTTTGAAATCCATG
Found at i:19521193 original size:23 final size:23
Alignment explanation
Indices: 19521162--19521208 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19521152 AAAACGTTTC
* * *
19521162 AAAAGACTTTTAAAATATTAAAA
1 AAAAAACTTTAAAAACATTAAAA
*
19521185 AAAAAACTTTAAAAACCTTAAAA
1 AAAAAACTTTAAAAACATTAAAA
19521208 A
1 A
19521209 TCCTTTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAAACTTTAAAAACATTAAAA
Found at i:19521214 original size:20 final size:21
Alignment explanation
Indices: 19521191--19521239 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
19521181 AAAAAAAAAA
19521191 CTTTAAAAACCTT-AAAA-AT
1 CTTTAAAAACCTTGAAAACAT
**
19521210 CCTTTAAATTCCTTGAAAACAT
1 -CTTTAAAAACCTTGAAAACAT
19521232 CTTTAAAA
1 CTTTAAAA
19521240 TCTTTTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.46
21 11 0.46
22 2 0.08
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (21 bp):
CTTTAAAAACCTTGAAAACAT
Found at i:19521269 original size:31 final size:31
Alignment explanation
Indices: 19521195--19521270 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
19521185 AAAAAACTTT
19521195 AAAAACCTTAAAAATCCTTTAAATTCCTTGAA
1 AAAAACCTT-AAAATCCTTTAAATTCCTTGAA
* * * *
19521227 AACATCTTTAAAATCTTTTGAAA-TCCATT-AA
1 AAAAACCTTAAAATCCTTT-AAATTCC-TTGAA
19521258 AAAAACCTTAAAA
1 AAAAACCTTAAAA
19521271 CTGCTACAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
31 24 0.69
32 11 0.31
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAACCTTAAAATCCTTTAAATTCCTTGAA
Found at i:19521396 original size:21 final size:20
Alignment explanation
Indices: 19521372--19521460 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 20
19521362 GAAATCTATG
*
19521372 AAAAAAACCTTAAAATTGCTT
1 AAAAAAACCTTAAAA-TCCTT
**
19521393 AAAATGACCTTAAACATCCTT
1 AAAAAAACCTTAAA-ATCCTT
*
19521414 AAAAAGAACCTAAAAATCCTT
1 AAAAA-AACCTTAAAATCCTT
*
19521435 GAAAAAACCTTAAGAAATCCTT
1 AAAAAAACCTT-A-AAATCCTT
19521457 AAAA
1 AAAA
19521461 TTCGTAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.09
21 31 0.56
22 19 0.35
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (20 bp):
AAAAAAACCTTAAAATCCTT
Found at i:19521416 original size:116 final size:115
Alignment explanation
Indices: 19521098--19521440 Score: 288
Period size: 116 Copynumber: 3.0 Consensus size: 115
19521088 AAAATTACTT
* ** * ** * * *
19521098 AAAATTCCTTGAAAATATTTTAAAATTTTTTTGAAATCCATGAAAAAAATCTTTAAAAC-GTTTC
1 AAAATTCCTTGAAAACACCTTAAAAATCCTTTGAAATCCATGAAAAAAA-CCTTAAAACTGCTAC
* * * * *
19521162 AAAAGACTTTTAAA-ATAT--TAAAAAAAAAACTTTAAAAACCTTAAAAATCCTT
65 AAAAGAC--TTAAACAT-TCCT-TAAAAAGAACCTAAAAAACCTTAAAAATCCTA
* * * * *
19521214 TAAATTCCTTGAAAACATCTTTAAAATCTTTTGAAATCCATTAAAAAAACCTTAAAACTGCTACA
1 AAAATTCCTTGAAAACACCTTAAAAATCCTTTGAAATCCATGAAAAAAACCTTAAAACTGCTACA
* * **
19521279 AAAGACTTCAATATTTTTTAAAAA-ATGACCTAAAAAACCTTAAAAATCC-A
66 AAAGACTTAAACATTCCTTAAAAAGA--ACCTAAAAAACCTTAAAAATCCTA
* *
19521329 AAAACTTCCTTGAAAACACCTTAAAAATCCTTTGAAATCTATGAAAAAAACCTTAAAATTGCTTA
1 AAAA-TTCCTTGAAAACACCTTAAAAATCCTTTGAAATCCATGAAAAAAACCTTAAAACTGC-TA
* *
19521394 -AAATGACCTTAAACA-TCCTTAAAAAGAACCTAAAAATCCTTGAAAAA
64 CAAAAGA-CTTAAACATTCCTTAAAAAGAACCTAAAAAACCTT-AAAAA
19521441 ACCTTAAGAA
Statistics
Matches: 188, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
114 6 0.03
115 31 0.16
116 142 0.76
117 9 0.05
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (115 bp):
AAAATTCCTTGAAAACACCTTAAAAATCCTTTGAAATCCATGAAAAAAACCTTAAAACTGCTACA
AAAGACTTAAACATTCCTTAAAAAGAACCTAAAAAACCTTAAAAATCCTA
Found at i:19521439 original size:11 final size:10
Alignment explanation
Indices: 19521309--19521460 Score: 64
Period size: 10 Copynumber: 14.5 Consensus size: 10
19521299 AAAAATGACC
*
19521309 TAAAAAACCT
1 TAAAAATCCT
19521319 TAAAAATCC-
1 TAAAAATCCT
19521328 -AAAAACTTCCT
1 TAAAAA--TCCT
19521339 TGAAAACA-CCT
1 T-AAAA-ATCCT
19521350 TAAAAATCCT
1 TAAAAATCCT
**
19521360 TTGAAAT-CT
1 TAAAAATCCT
*
19521369 ATGAAAAAAACCT
1 -T--AAAAATCCT
* *
19521382 TAAAATTGCT
1 TAAAAATCCT
19521392 T-AAAATGACCT
1 TAAAAAT--CCT
*
19521403 TAAACATCCT
1 TAAAAATCCT
*
19521413 TAAAAAGAACC-
1 T-AAAA-ATCCT
19521424 TAAAAATCCT
1 TAAAAATCCT
*
19521434 TGAAAAAACCT
1 T-AAAAATCCT
19521445 TAAGAAATCCT
1 TAA-AAATCCT
19521456 TAAAA
1 TAAAA
19521461 TTCGTAATAA
Statistics
Matches: 106, Mismatches: 17, Indels: 38
0.66 0.11 0.24
Matches are distributed among these distances:
8 5 0.05
9 10 0.09
10 44 0.42
11 29 0.27
12 11 0.10
13 6 0.06
14 1 0.01
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (10 bp):
TAAAAATCCT
Found at i:19521511 original size:22 final size:22
Alignment explanation
Indices: 19521484--19521541 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19521474 ATTAAAAATT
19521484 AAAAATCTCTTAAATACATAAA
1 AAAAATCTCTTAAATACATAAA
* * *
19521506 AAAAATCT-TTCAAATTCCTTAA
1 AAAAATCTCTT-AAATACATAAA
19521528 AAAAATCTCTTAAA
1 AAAAATCTCTTAAA
19521542 AACTGTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATCTCTTAAATACATAAA
Found at i:19521746 original size:21 final size:22
Alignment explanation
Indices: 19521679--19521774 Score: 85
Period size: 21 Copynumber: 4.5 Consensus size: 22
19521669 AAATCCTTTG
*
19521679 AAATCCAT-AAAAAACCTT-AA
1 AAATCCTTAAAAAAACCTTAAA
* ** *
19521699 AAATGCTTAAAATGACC-TCAA
1 AAATCCTTAAAAAAACCTTAAA
*
19521720 ACATCCTTAAAAAAAGCC-T-AA
1 AAATCCTTAAAAAAA-CCTTAAA
19521741 AAATCCTTAAAAAAACCTTAAA
1 AAATCCTTAAAAAAACCTTAAA
*
19521763 AAATCCATAAAA
1 AAATCCTTAAAA
19521775 TTTCACAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.15
21 36 0.59
22 16 0.26
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (22 bp):
AAATCCTTAAAAAAACCTTAAA
Found at i:19521751 original size:10 final size:10
Alignment explanation
Indices: 19521663--19521774 Score: 57
Period size: 10 Copynumber: 10.8 Consensus size: 10
19521653 CATGAAAACA
*
19521663 CCTTTAAAAT
1 CCTTAAAAAT
**
19521673 CCTTTGAAAT
1 CCTTAAAAAT
* *
19521683 CCATAAAAAA
1 CCTTAAAAAT
19521693 CCTTAAAAAT
1 CCTTAAAAAT
*
19521703 GCTT-AAAAT
1 CCTTAAAAAT
* *
19521712 GACCTCAAACAT
1 --CCTTAAAAAT
*
19521724 CCTTAAAAAAAG
1 CCTT--AAAAAT
19521736 CC-TAAAAAT
1 CCTTAAAAAT
*
19521745 CCTTAAAAAAA
1 CCTT-AAAAAT
19521756 CCTTAAAAAAT
1 CCTT-AAAAAT
*
19521767 CCATAAAA
1 CCTTAAAA
19521775 TTTCACAAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 14
0.71 0.17 0.13
Matches are distributed among these distances:
9 12 0.16
10 34 0.44
11 21 0.27
12 10 0.13
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.24
Consensus pattern (10 bp):
CCTTAAAAAT
Found at i:19521753 original size:11 final size:11
Alignment explanation
Indices: 19521679--19521774 Score: 60
Period size: 11 Copynumber: 9.1 Consensus size: 11
19521669 AAATCCTTTG
*
19521679 AAATCCATAAA
1 AAATCCTTAAA
19521690 AAA-CCTT-AA
1 AAATCCTTAAA
*
19521699 AAATGCTTAAA
1 AAATCCTTAAA
* *
19521710 ATGA-CC-TCAA
1 A-AATCCTTAAA
*
19521720 ACATCCTTAAAA
1 AAATCCTT-AAA
*
19521732 AAAGCC-T-AA
1 AAATCCTTAAA
19521741 AAATCCTTAAA
1 AAATCCTTAAA
*
19521752 AAAACCTTAAA
1 AAATCCTTAAA
*
19521763 AAATCCATAAA
1 AAATCCTTAAA
19521774 A
1 A
19521775 TTTCACAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
9 13 0.20
10 13 0.20
11 31 0.48
12 7 0.11
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (11 bp):
AAATCCTTAAA
Found at i:19521901 original size:21 final size:21
Alignment explanation
Indices: 19521816--19521901 Score: 54
Period size: 21 Copynumber: 4.1 Consensus size: 21
19521806 ATACATAAAC
*
19521816 AAAAACC-TAAAAAATGCTTAA
1 AAAAACCTTAAAAAAT-CTTTA
*
19521837 AAAAACCTT-AAACATCTTTTA
1 AAAAACCTTAAAAAATC-TTTA
* * ***
19521858 AAAGA--GTATAAAAATCCAGA
1 AAAAACCTTA-AAAAATCTTTA
19521878 AAAAACCTTAAAAAATCTTTA
1 AAAAACCTTAAAAAATCTTTA
19521899 AAA
1 AAA
19521902 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
19 1 0.02
20 6 0.13
21 36 0.78
22 3 0.07
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAACCTTAAAAAATCTTTA
Found at i:19522180 original size:21 final size:20
Alignment explanation
Indices: 19522156--19522235 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
19522146 AAAAAAAACT
*
19522156 TTAAAAATGCTTAAAATGACC
1 TTAAAAATCCTTAAAA-GACC
* * *
19522177 TTAAACATTCTTAAAAAGAGC
1 TTAAAAATCCTT-AAAAGACC
*
19522198 TTAAAAATCCTTGAAAAAACC
1 TTAAAAATCCTT-AAAAGACC
*
19522219 TTAAAAAACTCTTAAAA
1 TTAAAAATC-CTTAAAA
19522236 TTCGCAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 41 0.85
22 7 0.15
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (20 bp):
TTAAAAATCCTTAAAAGACC
Found at i:19522226 original size:10 final size:10
Alignment explanation
Indices: 19522148--19522235 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 10
19522138 AATCAATAAA
*
19522148 AAAAAACTTT
1 AAAAAACCTT
**
19522158 AAAAATGCTT
1 AAAAAACCTT
*
19522168 AAAATGACCTT
1 AAAA-AACCTT
* **
19522179 AAACATTCTT
1 AAAAAACCTT
*
19522189 AAAAAGAGCTT
1 AAAAA-ACCTT
*
19522200 AAAAATCCTT
1 AAAAAACCTT
19522210 GAAAAAACCTT
1 -AAAAAACCTT
19522221 AAAAAACTCTT
1 AAAAAAC-CTT
19522232 AAAA
1 AAAA
19522236 TTCGCAATAA
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
10 28 0.48
11 30 0.52
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (10 bp):
AAAAAACCTT
Found at i:19522452 original size:21 final size:20
Alignment explanation
Indices: 19522424--19522462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19522414 CTTTAAAAAA
19522424 CTTTAAAA-ATTCTTAAAATT
1 CTTTAAAACA-TCTTAAAATT
19522444 CTTTGAAAACATCTTAAAA
1 CTTT-AAAACATCTTAAAA
19522463 ATGCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (20 bp):
CTTTAAAACATCTTAAAATT
Found at i:19522505 original size:115 final size:114
Alignment explanation
Indices: 19522341--19523028 Score: 348
Period size: 116 Copynumber: 6.1 Consensus size: 114
19522331 TAAAAGGATA
* * * *
19522341 TTAAAAATACTTAAAAATTTATTAAAAAAAACCTTAAAATGGTTCAAAAGTCTT-AAGAAATTTT
1 TTAAAAATACTTAAAAA-TCA-TGAAAAAAACCTTAAAATGCTTCAAAAGACTTCAA-AAATTTT
* * * * * *
19522405 TAGAAAAT-ACTTTAAAAAACTTTAAAAATTCTTAAAATTCT-TTGAAAACATC
63 TAAAAAATGAC-TTAAAAAACCTTAAAAATCCATAAAATT-TGATAAAAACATC
* *
19522457 TTAAAAATGCTTAAAAATGCATGAAAAAAACCTTAAAATGCTTCAAAAGACTTCAAAAGTTTTTA
1 TTAAAAATACTTAAAAAT-CATGAAAAAAACCTTAAAATGCTTCAAAAGACTTCAAAAATTTTTA
19522522 AAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATC
65 AAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATC
* * ** * * * * * *
19522572 TTTAAAATCCTTTGAAATCTATGAAAAAAATTCTTAAAAATGCTTTAAATGACCTCAAACATCTT
1 TTAAAAATACTTAAAAATC-ATGAAAAAAA-CCTT-AAAATGCTTCAAAAGACTTCAAAAATTTT
* * * * * * * * *
19522637 TAAAAAAAG-CCTAAAAATCCTTGAAAAAACCTTAATAAATT-CT-TAAA-ATT
63 TAAAAAATGACTTAAAAAACCTT-AAAAATCCATAA-AATTTGATAAAAACATC
* ** * *** * * *
19522687 TGTAATAAATAATTAAAAAAAATCAAAATTCCCTT-AAATGCATCAAAAGTCTTTC--AAATTCC
1 T-TAA-AAATACTTAAAAATCATGAAAAAAACCTTAAAATGCTTCAAAAGAC-TTCAAAAATT-T
* * * ** **
19522749 TTGAAAAAT--CTCTAAAACA-CTT-TAAAT--AT----GCT--TAAAAGGATC
62 TTAAAAAATGACT-TAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATC
* * * * *
19522791 TTATAAATGCTTAAAAATCTATGAAAAAAACCTTAAAAACGCTTTAAAAGACTTCAAAAAGTTTT
1 TTAAAAATACTTAAAAATC-ATGAAAAAAACCTT-AAAATGCTTCAAAAGACTTCAAAAATTTTT
* * * *
19522856 AAGAAATG-CTTTACAAAACCTTAAAAATCCATAAAATTCT-TTGAAAACATC
64 AAAAAATGAC-TTAAAAAACCTTAAAAATCCATAAAATT-TGATAAAAACATC
* ** * * * * * * *
19522907 TTAAAAATCCTTTGAAATCCTTAAAAAAAACTTTAAAAATGCTACAAAACACCTCAAAAATCTTT
1 TTAAAAATACTTAAAAAT-CATGAAAAAAACCTT-AAAATGCTTCAAAAGACTTCAAAAATTTTT
* * * * *
19522972 AAAAAATAACTT--AAAACCATAAAAATCCATAAAATTTCATGAAAACACC
64 AAAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATC
19523021 TTAAAAAT
1 TTAAAAAT
19523029 CCTTTGAAAT
Statistics
Matches: 427, Mismatches: 109, Indels: 74
0.70 0.18 0.12
Matches are distributed among these distances:
102 12 0.03
103 15 0.04
104 6 0.01
105 19 0.04
106 10 0.02
107 4 0.01
108 5 0.01
110 5 0.01
112 7 0.02
113 25 0.06
114 44 0.10
115 108 0.25
116 110 0.26
117 53 0.12
118 4 0.01
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (114 bp):
TTAAAAATACTTAAAAATCATGAAAAAAACCTTAAAATGCTTCAAAAGACTTCAAAAATTTTTAA
AAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATC
Found at i:19522820 original size:449 final size:447
Alignment explanation
Indices: 19522004--19523844 Score: 2136
Period size: 450 Copynumber: 4.1 Consensus size: 447
19521994 CTTAAAAGGT
* * *
19522004 TCTTAAAAATGCTTAAAAATCTATGAAAAAAGCTTTAAAATTGCTTCAAAAGACTTCGAAAATCT
1 TCTTAAAAATCCTTAAAAATC-ATGAAAAAAACTTTAAAA-TGCTTCAAAAGACTTCAAAAATCT
* * * ** * * * *
19522069 TTAAACAAT-GCTTTAAAAAACCTTAAAAAATTTATAAAATTTCGTGAAAACATCTTAATAATCT
64 TTAAAAAATAAC-TTAAAAAACCAT-AAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCC
* * * *
19522133 TTTGAAATCAAT-AAAAAAAAACTTTAAAAATGCTTAAAATGACCTTAAACAT-TCTTAAAAAGA
127 TTTGAAATCCATGAAAAAAAATC-TTAAAAATGCTTAAAATGACCTCAAACATCT-TTAAAAAAA
* * * *
19522196 GCTTAAAAATCCTTGAAAAAACCTTAAAAAACTCTTAAAATTCGCAATAAATAATTAAAATAATT
190 GCCTAAAAATCCTTGAAAAAACCTTAAAAAATTCTTAAAATTCGTAATAAATAATTAAAAAAATT
** * * * *
19522261 AAAAATCTAGTAAAAACATCAAAAGTCTTCCAAATTCCTTGAAAAATTTCTTAAAAACCTTGAAT
255 AAAAATCTCTTAAAAACATCAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAAT
* * ** * *
19522326 ATGCTTAAAAGGATATTAAAAATACTTAAAAATTTATTAAAAAAAACCTT-AAAATGGTTCAAAA
320 ATGCTTAAAAGGATCTTAAAAATGCTTAAAAATCCA-TGAAAAAAACCTTAAAAATGCTTCAAAA
* * * *
19522390 GTCTT-AAGAAATTTTTAGAAAATACTTTAAAAAACTTTAAAAATTCTTAAAATTCTTTGAAAAC
384 GACTTCAA-AAATTTTTA-AAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAAC
19522454 A
447 A
* * * *
19522455 TCTTAAAAATGCTTAAAAATGCATGAAAAAAACCTTAAAATGCTTCAAAAGACTTCAAAAGTTTT
1 TCTTAAAAATCCTTAAAAAT-CATGAAAAAAACTTTAAAATGCTTCAAAAGACTTCAAAAATCTT
* * * * * *
19522520 TAAAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATCTTTAAAATCCTTT
65 TAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTTT
* * *
19522585 GAAATCTATGAAAAAAATTCTTAAAAATGCTTTAAATGACCTCAAACATCTTTAAAAAAAGCCTA
130 GAAATCCATGAAAAAAAATCTTAAAAATGCTTAAAATGACCTCAAACATCTTTAAAAAAAGCCTA
* * *
19522650 AAAATCCTTGAAAAAACCTTAATAAATTCTTAAAATTTGTAATAAATAATTAAAAAAAATCAAAA
195 AAAATCCTTGAAAAAACCTTAAAAAATTCTTAAAATTCGTAATAAATAATT-AAAAAAATTAAAA
* * ** * *
19522715 TTCCCTTAAATGCATCAAAAGTCTTTCAAATTCCTTGAAAAATCTC-TAAAACACTTTAAATATG
259 ATCTCTTAAAAACATCAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAA-ACCTTAAATATG
* * * *
19522779 CTTAAAAGGATCTTATAAATGCTTAAAAATCTATGAAAAAAACCTTAAAAACGCTTTAAAAGACT
323 CTTAAAAGGATCTTAAAAATGCTTAAAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAAGACT
* * *
19522844 TCAAAAAGTTTTAAGAAATGCTTTACAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
388 TCAAAAATTTTTAA-AAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
** * * * * *
19522905 TCTTAAAAATCCTTTGAAATCCTTAAAAAAAACTTTAAAAATGCTACAAAACACCTCAAAAATCT
1 TCTTAAAAATCCTTAAAAAT-CATGAAAAAAACTTT-AAAATGCTTCAAAAGACTTCAAAAATCT
19522970 TTAAAAAATAACTT--AAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTT
64 TTAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTT
* *
19523033 TGAAATCCATGCCAAAAAAAATCTTAAAAATACTTAAAATGACCTCAAACATC-CTAAAAAAGAG
129 TGAAATCCATG--AAAAAAAATCTTAAAAATGCTTAAAATGACCTCAAACATCTTTAAAAAA-AG
* * * *
19523097 CCTACAAATCATTGAAAAAACTTTAAAAAATTTTTAAAATTCGTAATAAATAATTAAAAAAA-TA
191 CCTAAAAATCCTTGAAAAAACCTTAAAAAATTCTTAAAATTCGTAATAAATAATTAAAAAAATTA
* *
19523161 AAAATCTCTTAAAAACATAAAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCCTAAAT
256 AAAATCTCTTAAAAACAT-CAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAAT
* * * *
19523226 ATGCTTCAAAGGA-CATTAAAAATCCTTAAAAATCCATGAAAAAAAAC-TAAAGAATGTTTCAAA
320 ATGCTTAAAAGGATC-TTAAAAATGCTTAAAAATCCATGAAAAAAACCTTAAA-AATGCTTCAAA
* * * * *
19523289 CA-ACTTTAAAAATTCTTTTAAAAATACTTTAAAAAACTTTAAAAATTCTTAAAATTCCTTGAAA
383 -AGACTTCAAAAA-T-TTTTAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAA
*
19523353 ATA
445 ACA
* ** * *
19523356 TCTTAAAAATCCTGT-AAAATCTATTAAAATAGCCTTAAAAATGCTTCAAAATACTTCAAAAATC
1 TCTTAAAAATCCT-TAAAAATC-ATGAAAA-AAACTTTAAAATGCTTCAAAAGACTTCAAAAATC
* * * *
19523420 TTTAAAAAATAACTTCAAAAACCATAAAATTCCATAAAATTCCTTGAAAACACCTTAAAAATCCT
63 TTTAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCT
* * * * * * *
19523485 TTGAAATCCATG-AAAAAAACCTTAAAATTGCTTAAAATGACCTTAAATATCCTTAAAAAGAG-T
128 TTGAAATCCATGAAAAAAAATCTTAAAAATGCTTAAAATGACCTCAAACATCTTTAAAAAAAGCC
* * * *
19523548 TTAAAATCTTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTGATAAATAATTCAAAAAAATTAA
193 TAAAAATCCTTGAAAAAACCTTAAAAAATTCTTAAAATTCGTAATAAATAATT-AAAAAAATTAA
* * *
19523613 AAATCTCTTAAAAACAT-AAAAAACTTTTAAATTCCTTGAAAAATCTCTTAAAACCCTTAAATAT
257 AAATCTCTTAAAAACATCAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAATAT
* * * *
19523677 ACTTAAAAGTG-TCTTAAAAATGCTTACAAATCCAAGAAAAAAAACCTTAAAAATGCATCAAAAG
322 GCTTAAAAG-GATCTTAAAAATGCTTAAAAATCCATG-AAAAAAACCTTAAAAATGCTTCAAAAG
* * *
19523741 ACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTAAAAATCCATAAAATT-TCGTGAAAACA
385 ACTTCAAAAAT-TTTTAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCT-TTGAAAACA
* * * *
19523805 CCTTAAAAATCCTTGAAAATTAATTAAAAAAACTTTAAAA
1 TCTTAAAAATCCTT-AAAAATCATGAAAAAAACTTTAAAA
19523845 ATACGTAACA
Statistics
Matches: 1192, Mismatches: 162, Indels: 75
0.83 0.11 0.05
Matches are distributed among these distances:
448 9 0.01
449 401 0.34
450 414 0.35
451 299 0.25
452 12 0.01
453 57 0.05
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (447 bp):
TCTTAAAAATCCTTAAAAATCATGAAAAAAACTTTAAAATGCTTCAAAAGACTTCAAAAATCTTT
AAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTTTG
AAATCCATGAAAAAAAATCTTAAAAATGCTTAAAATGACCTCAAACATCTTTAAAAAAAGCCTAA
AAATCCTTGAAAAAACCTTAAAAAATTCTTAAAATTCGTAATAAATAATTAAAAAAATTAAAAAT
CTCTTAAAAACATCAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAATATGCTT
AAAAGGATCTTAAAAATGCTTAAAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAAGACTTCA
AAAATTTTTAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
Found at i:19523189 original size:19 final size:19
Alignment explanation
Indices: 19523150--19523189 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19523140 TAATAAATAA
**
19523150 TTAAAAAAATAAAAATCTC
1 TTAAAAAAATAAAAAAATC
*
19523169 TTAAAAACATAAAAAAATC
1 TTAAAAAAATAAAAAAATC
19523188 TT
1 TT
19523190 TCAAATTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
TTAAAAAAATAAAAAAATC
Found at i:19523310 original size:12 final size:11
Alignment explanation
Indices: 19523291--19523427 Score: 76
Period size: 10 Copynumber: 12.9 Consensus size: 11
19523281 GTTTCAAACA
19523291 ACTTTAAAAAT
1 ACTTTAAAAAT
*
19523302 TCTTTTAAAAAT
1 AC-TTTAAAAAT
19523314 ACTTTAAAAA-
1 ACTTTAAAAAT
19523324 ACTTTAAAAAT
1 ACTTTAAAAAT
*
19523335 TC-TT-AAAAT
1 ACTTTAAAAAT
* * *
19523344 TCCTTGAAAAT
1 ACTTTAAAAAT
19523355 A-TCTTAAAAAT
1 ACT-TTAAAAAT
* *
19523366 CCTGT-AAAAT
1 ACTTTAAAAAT
19523376 -CTATT-AAAAT
1 ACT-TTAAAAAT
*
19523386 AGCCTTAAAAAT
1 A-CTTTAAAAAT
* *
19523398 GC-TTCAAAAT
1 ACTTTAAAAAT
*
19523408 ACTTCAAAAAT
1 ACTTTAAAAAT
19523419 -CTTTAAAAA
1 ACTTTAAAAA
19523428 ATAACTTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
9 9 0.09
10 41 0.41
11 32 0.32
12 17 0.17
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (11 bp):
ACTTTAAAAAT
Found at i:19523331 original size:21 final size:21
Alignment explanation
Indices: 19523291--19523428 Score: 61
Period size: 21 Copynumber: 6.5 Consensus size: 21
19523281 GTTTCAAACA
*
19523291 ACTTTAAAAATTCTTTTAAAAAT
1 ACTTTAAAAA-AC-TTTAAAAAT
19523314 ACTTTAAAAAACTTTAAAAAT
1 ACTTTAAAAAACTTTAAAAAT
* ** * *
19523335 TC-TTAAAATTCCTTGAAAAT
1 ACTTTAAAAAACTTTAAAAAT
* *
19523355 A-TCTTAAAAATCCTGT-AAAAT
1 ACT-TTAAAAA-ACTTTAAAAAT
* *
19523376 -CTATTAAAATAGCCTTAAAAAT
1 ACT-TTAAAA-AACTTTAAAAAT
* * * *
19523398 GCTTCAAAATACTTCAAAAAT
1 ACTTTAAAAAACTTTAAAAAT
19523419 -CTTTAAAAAA
1 ACTTTAAAAAA
19523429 TAACTTCAAA
Statistics
Matches: 86, Mismatches: 22, Indels: 17
0.69 0.18 0.14
Matches are distributed among these distances:
20 22 0.26
21 38 0.44
22 14 0.16
23 12 0.14
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (21 bp):
ACTTTAAAAAACTTTAAAAAT
Found at i:19523447 original size:22 final size:22
Alignment explanation
Indices: 19523403--19523448 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19523393 AAAATGCTTC
**
19523403 AAAATACTTCAAAAATCTTTAA
1 AAAATACTTCAAAAATCCATAA
19523425 AAAATAACTTCAAAAA-CCATAA
1 AAAAT-ACTTCAAAAATCCATAA
19523447 AA
1 AA
19523449 TTCCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATACTTCAAAAATCCATAA
Found at i:19523464 original size:116 final size:117
Alignment explanation
Indices: 19522804--19523522 Score: 321
Period size: 116 Copynumber: 6.3 Consensus size: 117
19522794 TAAATGCTTA
* * * * * * *
19522804 AAAATCTATGAAAAAAACCTTAAAAACGCTTTAAAAGACTTCAAAAAGT-TTTAAGAAATGCTTT
1 AAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAATACTTCAAAAATTCTTTAAAAAATACTTT
* * * * * *
19522868 ACAAAACCTTAAAAATCCATAAAATTCTTTGAAAACATCTTAAAAATCCTTT
66 AAAAAACCATAAAAATTCATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
* * * * * * *
19522920 GAAATCCTTAAAAAAAACTTTAAAAATGCTACAAAACACCTCAAAAA-TCTTTAAAAAATAAC-T
1 AAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAATACTTCAAAAATTCTTTAAAAAAT-ACTT
* * * *
19522983 T--AAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTTT
65 TAAAAAACCATAAAAATTCATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
* * * * * * *
19523034 GAAATCCATGCCAAAAAAAATCTTAAAAATACTT-AAAATGACCTCAAACA-TC-CTAAAAAAGA
1 AAAATCCATG---AAAAAAACCTTAAAAATGCTTCAAAAT-ACTTCAAAAATTCTTTAAAAAATA
* * * * * * ** * **
19523096 GC-CT-ACAAATCATTGAAAAAACTTTAAAAAATT--TTTAAAA-TTCGTAATAAATAAT-T
62 -CTTTAAAAAACCA-T--AAAAA-TTCATAAAATTCCTTGAAAACACCTTAA-AAATCCTGT
** * * * * * *
19523152 AAAA-AAAT--AAAAATCTCTTAAAAA--CATAAAAAAATCTTTC--AAATTCCTTGAAAAAT-C
1 AAAATCCATGAAAAAAAC-CTTAAAAATGCTTCAAAATA-C-TTCAAAAATTCTTTAAAAAATAC
* * * ** *
19523209 TCTT-AAAAACCCTAAATATGC------TT-C---AAAGGACATTAAAAATCCT-T
63 T-TTAAAAAACCATAAAAATTCATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
* * * *
19523253 AAAAATCCATGAAAAAAAAC-TAAAGAATGTTTCAAACA-ACTTTAAAAATTCTTTTAAAAATAC
1 -AAAATCCATGAAAAAAACCTTAAA-AATGCTTCAAA-ATACTTCAAAAATTCTTTAAAAAATAC
** * * *
19523316 TTTAAAAAACTTTAAAAATTCTTAAAATTCCTTGAAAATATCTTAAAAATCCTGT
63 TTTAAAAAACCATAAAAATTCATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
* * * *
19523371 AAAATCTATTAAAATAGCCTTAAAAATGCTTCAAAATACTTCAAAAA-TCTTTAAAAAATAAC-T
1 AAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAATACTTCAAAAATTCTTTAAAAAAT-ACTT
* *
19523434 TCAAAAACCAT-AAAATTCCATAAAATTCCTTGAAAACACCTTAAAAATCCTTT
65 TAAAAAACCATAAAAATT-CATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
* *
19523487 GAAATCCATGAAAAAAACCTTAAAATTGCTT-AAAAT
1 AAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAAT
19523523 GACCTTAAAT
Statistics
Matches: 448, Mismatches: 105, Indels: 101
0.69 0.16 0.15
Matches are distributed among these distances:
101 9 0.02
102 7 0.02
103 8 0.02
104 5 0.01
105 6 0.01
106 21 0.05
107 16 0.04
109 1 0.00
110 4 0.01
111 6 0.01
112 13 0.03
113 24 0.05
114 54 0.12
115 13 0.03
116 138 0.31
117 86 0.19
118 14 0.03
119 10 0.02
120 5 0.01
121 8 0.02
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.28
Consensus pattern (117 bp):
AAAATCCATGAAAAAAACCTTAAAAATGCTTCAAAATACTTCAAAAATTCTTTAAAAAATACTTT
AAAAAACCATAAAAATTCATAAAATTCCTTGAAAACACCTTAAAAATCCTGT
Found at i:19523583 original size:31 final size:30
Alignment explanation
Indices: 19523436--19523585 Score: 104
Period size: 31 Copynumber: 4.8 Consensus size: 30
19523426 AAATAACTTC
* * *
19523436 AAAAACCATAAAATTCCATAAAATTCCTTGA
1 AAAAACCTTAAAAATCCTTAAAA-TCCTTGA
* * *
19523467 AAACACCTTAAAAATCCTTTGAAATCCATGAA
1 AAAAACCTTAAAAATCC-TTAAAATCCTTG-A
* *
19523499 AAAAACCTTAAAATTGCTTAAAATGACCTT-A
1 AAAAACCTTAAAAATCCTTAAAAT--CCTTGA
* * *** *
19523530 AATATCCTTAAAAAGAGTTTAAAATCTTTGA
1 AAAAACCTTAAAAA-TCCTTAAAATCCTTGA
19523561 AAAAACCTTAAAAAATCCTTAAAAT
1 AAAAACCTT-AAAAATCCTTAAAAT
19523586 TCGTGATAAA
Statistics
Matches: 90, Mismatches: 22, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
30 3 0.03
31 52 0.58
32 32 0.36
33 3 0.03
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAAACCTTAAAAATCCTTAAAATCCTTGA
Found at i:19523584 original size:21 final size:20
Alignment explanation
Indices: 19523306--19523584 Score: 78
Period size: 21 Copynumber: 13.3 Consensus size: 20
19523296 AAAAATTCTT
* * *
19523306 TTAAAAATACTTTAAAAAACT
1 TTAAAAA-ACCTTAAAAATCC
** *
19523327 TTAAAAATTCTTAAAATTCC
1 TTAAAAAACCTTAAAAATCC
* *
19523347 TTGAAAATATCTTAAAAATCC
1 TT-AAAAAACCTTAAAAATCC
* * *
19523368 TGT-AAAATCTATTAAAATAGCC
1 T-TAAAAAAC-CTTAAAA-ATCC
** * *
19523390 TTAAAAATGCTTCAAAATAC
1 TTAAAAAACCTTAAAAATCC
* * *
19523410 TTCAAAAATCTTTAAAAAATAAC
1 TT-AAAAAACCTT-AAAAAT-CC
* * *
19523433 TTCAAAAACCATAAAATTCC
1 TTAAAAAACCTTAAAAATCC
* **
19523453 ATAAAATTCCTTGAAAACA-CC
1 TTAAAAAACCTT-AAAA-ATCC
* **
19523474 TTAAAAATCCTTTGAAATCC
1 TTAAAAAACCTTAAAAATCC
* * *
19523494 ATGAAAAAAACCTTAAAATTGC
1 -T-TAAAAAACCTTAAAAATCC
* *
19523516 TTAAAATGACCTTAAATATCC
1 TTAAAA-AACCTTAAAAATCC
* * *
19523537 TTAAAAAGA-GTTTAAAATCT
1 TTAAAAA-ACCTTAAAAATCC
19523557 TTGAAAAAACCTTAAAAAATCC
1 TT-AAAAAACCTT-AAAAATCC
19523579 TTAAAA
1 TTAAAA
19523585 TTCGTGATAA
Statistics
Matches: 183, Mismatches: 57, Indels: 36
0.66 0.21 0.13
Matches are distributed among these distances:
19 1 0.01
20 42 0.23
21 94 0.51
22 42 0.23
23 4 0.02
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (20 bp):
TTAAAAAACCTTAAAAATCC
Found at i:19523823 original size:11 final size:10
Alignment explanation
Indices: 19523306--19523824 Score: 104
Period size: 10 Copynumber: 49.8 Consensus size: 10
19523296 AAAAATTCTT
*
19523306 TTAAAAATACT
1 TTAAAAAT-CC
* *
19523317 TTAAAAAACT
1 TTAAAAATCC
*
19523327 TTAAAAATTC
1 TTAAAAATCC
*
19523337 TTAAAATTCC
1 TTAAAAATCC
19523347 TTGAAAATAT-C
1 TT-AAAA-ATCC
19523358 TTAAAAATCC
1 TTAAAAATCC
*
19523368 TGT-AAAATCTA
1 T-TAAAAATC-C
*
19523379 TTAAAATAGCC
1 TTAAAA-ATCC
*
19523390 TTAAAAATGC
1 TTAAAAATCC
* *
19523400 TTCAAAATAC
1 TTAAAAATCC
*
19523410 TTCAAAAATCT
1 TT-AAAAATCC
*
19523421 TTAAAAAATAAC
1 TT-AAAAAT-CC
19523433 TTCAAAAA-CC
1 TT-AAAAATCC
* *
19523443 ATAAAATTCC
1 TTAAAAATCC
* *
19523453 ATAAAATTCC
1 TTAAAAATCC
19523463 TTGAAAACA-CC
1 TT-AAAA-ATCC
19523474 TTAAAAATCC
1 TTAAAAATCC
**
19523484 TTTGAAATCC
1 TTAAAAATCC
* *
19523494 ATGAAAAAAACC
1 -T-TAAAAATCC
* *
19523506 TTAAAATTGC
1 TTAAAAATCC
19523516 TT-AAAATGACC
1 TTAAAAAT--CC
*
19523527 TTAAATATCC
1 TTAAAAATCC
***
19523537 TTAAAAAGAG
1 TTAAAAATCC
* *
19523547 TTTAAAATCT
1 TTAAAAATCC
*
19523557 TTGAAAAAACC
1 TT-AAAAATCC
19523568 TTAAAAAATCC
1 TT-AAAAATCC
* *
19523579 TTAAAATTCG
1 TTAAAAATCC
* * **
19523589 TGATAAATAA
1 TTAAAAATCC
**
19523599 TTCAAAAA-AA
1 TT-AAAAATCC
19523609 TTAAAAATCTC
1 TTAAAAATC-C
19523620 TTAAAAA--C
1 TTAAAAATCC
* * *
19523628 ATAAAAAACT
1 TTAAAAATCC
* *
19523638 TTTAAATTCC
1 TTAAAAATCC
19523648 TTGAAAAATCTC
1 TT-AAAAATC-C
*
19523660 TT-AAAACCC
1 TTAAAAATCC
* *
19523669 TTAAATATAC
1 TTAAAAATCC
* *
19523679 TTAAAAGTGTC
1 TTAAAAAT-CC
*
19523690 TTAAAAATGC
1 TTAAAAATCC
*
19523700 TTACAAATCC
1 TTAAAAATCC
** *
19523710 AAGAAAAAAAACC
1 ---TTAAAAATCC
*
19523723 TTAAAAATGC
1 TTAAAAATCC
* * **
19523733 ATCAAAAGAC
1 TTAAAAATCC
*
19523743 TTCAAAAATCT
1 TT-AAAAATCC
*
19523754 TTAAAAAATGCT
1 TT-AAAAAT-CC
*
19523766 TTAAAAAACC
1 TTAAAAATCC
19523776 TTAAAAATCC
1 TTAAAAATCC
* * *
19523786 ATAAAATTTCG
1 TTAAAA-ATCC
*
19523797 TGAAAACA-CC
1 TTAAAA-ATCC
19523807 TTAAAAATCC
1 TTAAAAATCC
*
19523817 TTGAAAAT
1 TTAAAAAT
19523825 TAATTAAAAA
Statistics
Matches: 359, Mismatches: 114, Indels: 71
0.66 0.21 0.13
Matches are distributed among these distances:
8 7 0.02
9 20 0.06
10 186 0.52
11 114 0.32
12 26 0.07
13 6 0.02
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.29
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:19523845 original size:449 final size:450
Alignment explanation
Indices: 19522004--19523846 Score: 2141
Period size: 449 Copynumber: 4.1 Consensus size: 450
19521994 CTTAAAAGGT
* * * * * *
19522004 TCTTAAAAATGCTTAAAAATCTATGAAAAAAGCTTTAAAATTGCTTCAAAAGACTTCGAAAATCT
1 TCTTAAAAATCCTTGAAAAT-TATTAAAAAAACTTTAAAAATGCTTCAAAAGACTTCAAAAATCT
* * * ** * * * *
19522069 TTAAACAAT-GCTTTAAAAAACCTTAAAAAATTTATAAAATTTCGTGAAAACATCTTAATAATCT
65 TTAAAAAATAAC-TTAAAAAACCAT-AAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCC
* * * * *
19522133 TTTGAAATCAATAAAAAAAAACTTTAAAAATGCTTAAAATGACCTTAAACATTCTTAAAAAGAGC
128 TTTGAAATCCAT-GAAAAAAACCTTAAAAATGCTTAAAATGACCTCAAACATCCTTAAAAAGAGC
* * *
19522198 TTAAAAATCCTTGAAAAAACCTTAAAAAA-CTCTTAAAATTCGCAATAAATAATTAAAATAATTA
192 CTAAAAATCCTTGAAAAAACCTTAAAAAATC-CTTAAAATTCGTAATAAATAATTAAAAAAATTA
** ** * * * *
19522262 AAAATCTAGTAAAAACATCAAAAGTCTTCCAAATTCCTTGAAAAATTTCTTAAAAACCTTGAATA
256 AAAATCTCTTAAAAACATCAAAAAACTTTCAAATTCCTTGAAAAATCTCTTAAAACCCTTAAATA
* * ** * *
19522327 TGCTTAAAAGGATATTAAAAATACTTAAAAATTTATTAAAAAAAACCTT-AAAATGGTTCAAAAG
321 TGCTTAAAAGGATCTTAAAAATGCTTAAAAATCCATGAAAAAAAACCTTAAAAATGCTTCAAAAG
* * * * * *
19522391 TCTT-AAGAAA-TTTTTAGAAAATACTTTAAAAAACTTTAAAAATTCTTAAAATTCTTTGAAAAC
386 ACTTCAA-AAAGTCTTTAAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAAC
19522454 A
450 A
* * * * * * *
19522455 TCTTAAAAATGCTTAAAAATGCATGAAAAAAACCTT-AAAATGCTTCAAAAGACTTCAAAAGTTT
1 TCTTAAAAATCCTTGAAAAT-TATTAAAAAAACTTTAAAAATGCTTCAAAAGACTTCAAAAATCT
* * * * * *
19522519 TTAAAAAATGACTTAAAAAACCTTAAAAATCCATAAAATTTGATAAAAACATCTTTAAAATCCTT
65 TTAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTT
* * * * *
19522584 TGAAATCTATGAAAAAAATTCTTAAAAATGCTTTAAATGACCTCAAACATCTTTAAAAAAAGCCT
130 TGAAATCCATGAAAAAAA-CCTTAAAAATGCTTAAAATGACCTCAAACATCCTTAAAAAGAGCCT
* * * *
19522649 AAAAATCCTTGAAAAAACCTTAATAAATTCTTAAAATTTGTAATAAATAATTAAAAAAAATCAAA
194 AAAAATCCTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTAATAAATAATT-AAAAAAATTAAA
* * ** ** *
19522714 ATTCCCTTAAATGCATCAAAAGTCTTTCAAATTCCTTGAAAAATCTC-TAAAACACTTTAAATAT
258 AATCTCTTAAAAACATCAAAAAACTTTCAAATTCCTTGAAAAATCTCTTAAAAC-CCTTAAATAT
* * * *
19522778 GCTTAAAAGGATCTTATAAATGCTTAAAAATCTATG-AAAAAAACCTTAAAAACGCTTTAAAAGA
322 GCTTAAAAGGATCTTAAAAATGCTTAAAAATCCATGAAAAAAAACCTTAAAAATGCTTCAAAAGA
* * *
19522842 CTTCAAAAAGT-TTTAAGAAATGCTTTACAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
387 CTTCAAAAAGTCTTTAAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
** * * *
19522905 TCTTAAAAATCCTTTG-AAATCCTTAAAAAAAACTTTAAAAATGCTACAAAACACCTCAAAAATC
1 TCTTAAAAATCC-TTGAAAATTATT-AAAAAAACTTTAAAAATGCTTCAAAAGACTTCAAAAATC
19522969 TTTAAAAAATAACTT--AAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCT
64 TTTAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCT
* * *
19523032 TTGAAATCCATGCCAAAAAAAATCTTAAAAATACTTAAAATGACCTCAAACATCCTAAAAAAGAG
129 TTGAAATCCATG---AAAAAAACCTTAAAAATGCTTAAAATGACCTCAAACATCCTTAAAAAGAG
* * * **
19523097 CCTACAAATCATTGAAAAAACTTTAAAAAATTTTTAAAATTCGTAATAAATAATTAAAAAAA-TA
191 CCTAAAAATCCTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTAATAAATAATTAAAAAAATTA
*
19523161 AAAATCTCTTAAAAACATAAAAAAATCTTTCAAATTCCTTGAAAAATCTCTTAAAAACCC-TAAA
256 AAAATCTCTTAAAAACATCAAAAAA-CTTTCAAATTCCTTGAAAAATCTCTT-AAAACCCTTAAA
* * *
19523225 TATGCTTCAAAGGA-CATTAAAAATCCTTAAAAATCCATGAAAAAAAA-C-TAAAGAATGTTTCA
319 TATGCTTAAAAGGATC-TTAAAAATGCTTAAAAATCCATGAAAAAAAACCTTAAA-AATGCTTCA
* * * * * * *
19523287 AACA-ACTTTAAAAATTCTTTTAAAAATACTTTAAAAAACTTTAAAAATTCTTAAAATTCCTTGA
382 AA-AGACTTCAAAAAGTCTTTAAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGA
*
19523351 AAATA
446 AAACA
* * * *
19523356 TCTTAAAAATCC-TGTAAAATCTATTAAAATAGCCTTAAAAATGCTTCAAAATACTTCAAAAATC
1 TCTTAAAAATCCTTG-AAAAT-TATTAAAAAAACTTTAAAAATGCTTCAAAAGACTTCAAAAATC
* * * *
19523420 TTTAAAAAATAACTTCAAAAACCATAAAATTCCATAAAATTCCTTGAAAACACCTTAAAAATCCT
64 TTTAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCT
* * * *
19523485 TTGAAATCCATGAAAAAAACCTTAAAATTGCTTAAAATGACCTTAAATATCCTTAAAAAGAG-TT
129 TTGAAATCCATGAAAAAAACCTTAAAAATGCTTAAAATGACCTCAAACATCCTTAAAAAGAGCCT
* * *
19523549 TAAAATCTTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTGATAAATAATTCAAAAAAATTAAA
194 AAAAATCCTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTAATAAATAATT-AAAAAAATTAAA
* *
19523614 AATCTCTTAAAAACAT-AAAAAACTTTTAAATTCCTTGAAAAATCTCTTAAAACCCTTAAATATA
258 AATCTCTTAAAAACATCAAAAAACTTTCAAATTCCTTGAAAAATCTCTTAAAACCCTTAAATATG
* * *
19523678 CTTAAAAGTG-TCTTAAAAATGCTTACAAATCCAAGAAAAAAAACCTTAAAAATGCATCAAAAGA
323 CTTAAAAG-GATCTTAAAAATGCTTAAAAATCCATGAAAAAAAACCTTAAAAATGCTTCAAAAGA
* *
19523742 CTTCAAAAA-TCTTTAAAAAATGCTTTAAAAAACCTTAAAAATCCATAAAATT-TCGTGAAAACA
387 CTTCAAAAAGTCTTTAAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCT-TTGAAAACA
*
19523805 CCTTAAAAATCCTTGAAAATTAATTAAAAAAACTTTAAAAAT
1 TCTTAAAAATCCTTGAAAATT-ATTAAAAAAACTTTAAAAAT
19523847 ACGTAACATG
Statistics
Matches: 1192, Mismatches: 162, Indels: 78
0.83 0.11 0.05
Matches are distributed among these distances:
448 15 0.01
449 417 0.35
450 387 0.32
451 302 0.25
452 14 0.01
453 57 0.05
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (450 bp):
TCTTAAAAATCCTTGAAAATTATTAAAAAAACTTTAAAAATGCTTCAAAAGACTTCAAAAATCTT
TAAAAAATAACTTAAAAAACCATAAAAATCCATAAAATTTCATGAAAACACCTTAAAAATCCTTT
GAAATCCATGAAAAAAACCTTAAAAATGCTTAAAATGACCTCAAACATCCTTAAAAAGAGCCTAA
AAATCCTTGAAAAAACCTTAAAAAATCCTTAAAATTCGTAATAAATAATTAAAAAAATTAAAAAT
CTCTTAAAAACATCAAAAAACTTTCAAATTCCTTGAAAAATCTCTTAAAACCCTTAAATATGCTT
AAAAGGATCTTAAAAATGCTTAAAAATCCATGAAAAAAAACCTTAAAAATGCTTCAAAAGACTTC
AAAAAGTCTTTAAAAAATACTTTAAAAAACCTTAAAAATCCATAAAATTCTTTGAAAACA
Found at i:19523897 original size:21 final size:19
Alignment explanation
Indices: 19523859--19523918 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
19523849 GTAACATGAC
* *
19523859 CTTAAACATCCTTAAAAAGA
1 CTTAAAAATCTTTAAAAA-A
19523879 GCTTAAAAATCTTTGAAAAAA
1 -CTTAAAAATCTTT-AAAAAA
19523900 CATTAAAAAATCTTTAAAA
1 C-TT-AAAAATCTTTAAAA
19523919 TTCATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 18 0.53
22 15 0.44
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.28
Consensus pattern (19 bp):
CTTAAAAATCTTTAAAAAA
Found at i:19523946 original size:333 final size:333
Alignment explanation
Indices: 19523388--19524182 Score: 1014
Period size: 333 Copynumber: 2.4 Consensus size: 333
19523378 ATTAAAATAG
* * * *
19523388 CCTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATAAC-TTCAAAAACCATAAAATTC
1 CCTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAAT-GCTTTAAAAAACCTTAAAAATC
* * *
19523452 CATAAAATTCCTTGAAAACACCTTAAAAATCCTTTG-AAATCCATGAAAAAAACCTTAAAATTGC
65 CATAAAATTCCTTGAAAACACCTTAAAAATCC-TTGAAAATCCATTAAAAAAACCTTAAAAATAC
* * * *
19523516 TTAAAATGACCTTAAATATCCTTAAAAAGAGTTTAAAATCTTTGAAAAAACCTTAAAAAATCCTT
129 GTAAAATGACCTTAAACATCCTTAAAAAGAGTTAAAAATCTTTGAAAAAACATTAAAAAATCCTT
* * * * *
19523581 AAAATTCGTGATAAATAATTCAAAAAAATTAAAAATCTCTTAAAAACAT-AAAAAACTTTTAAAT
194 AAAATTCATAATAAATAATTCAAAAAAATTAAAAATCCCGTAAAAACATCAAAAAACTTTCAAAT
* * *
19523645 TCCTTGAAAAATCTCTTA-AAACCCTTAAATATACTT-AAAAGTGTCTTAAAAATGCTTACAAAT
259 TCCTTGAAAAATCTCTTACAAA-CCTTAAATATACTTAAAAAG-ATATTAAAAATGCTTAAAAAT
19523708 CCA-AGAAAAAAAA
322 CCATAG--AAAAAA
* *
19523721 CCTTAAAAATGCATCAAAAGACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTAAAAATCC
1 CCTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTAAAAATCC
* * ** *
19523786 ATAAAATTTCGTGAAAACACCTTAAAAATCCTTGAAAATTAATTAAAAAAACTTTAAAAATACGT
66 ATAAAATTCCTTGAAAACACCTTAAAAATCCTTGAAAATCCATTAAAAAAACCTTAAAAATACGT
* *
19523851 AACATGACCTTAAACATCCTTAAAAAGAGCTTAAAAATCTTTGAAAAAACATTAAAAAATCTTTA
131 AAAATGACCTTAAACATCCTTAAAAAGAG-TTAAAAATCTTTGAAAAAACATTAAAAAATCCTTA
* * * * **
19523916 AAATTCATAATAACTAATT-ATAACAATTAAAAATCCCGTAAAAACATCGAAAGTCTTTCAAATT
195 AAATTCATAATAAATAATTCAAAAAAATTAAAAATCCCGTAAAAACATCAAAAAACTTTCAAATT
* * * *
19523980 CTTTGAAAAATCTCTTACAAACCTTGAATATGCTTAAAAAGATATTAAAAATGCTTAAAAATCTA
260 CCTTGAAAAATCTCTTACAAACCTTAAATATACTTAAAAAGATATTAAAAATGCTTAAAAATCCA
*
19524045 TTGAAAAAA
325 TAGAAAAAA
* *
19524054 CCTTAAAAATGCTTCAAAATATTTCAAAAATCTTTAAAAAAATGTTTTAAAAAAACCTTAAAAAT
1 CCTTAAAAATGCTTCAAAATACTTCAAAAATCTTT-AAAAAATGCTTT-AAAAAACCTTAAAAAT
* * * * * *
19524119 TCTTAAAATTCCTTGAAAACATCTTTAAAATGCTT-AAAAGTGCA-TAAAAAAACCTTAAAAATA
64 CCATAAAATTCCTTGAAAACACCTTAAAAATCCTTGAAAA-TCCATTAAAAAAACCTTAAAAATA
19524182 C
128 C
19524183 TTCAAAAGAC
Statistics
Matches: 399, Mismatches: 53, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
332 4 0.01
333 198 0.50
334 142 0.36
335 55 0.14
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.29
Consensus pattern (333 bp):
CCTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTAAAAATCC
ATAAAATTCCTTGAAAACACCTTAAAAATCCTTGAAAATCCATTAAAAAAACCTTAAAAATACGT
AAAATGACCTTAAACATCCTTAAAAAGAGTTAAAAATCTTTGAAAAAACATTAAAAAATCCTTAA
AATTCATAATAAATAATTCAAAAAAATTAAAAATCCCGTAAAAACATCAAAAAACTTTCAAATTC
CTTGAAAAATCTCTTACAAACCTTAAATATACTTAAAAAGATATTAAAAATGCTTAAAAATCCAT
AGAAAAAA
Found at i:19524046 original size:21 final size:22
Alignment explanation
Indices: 19524009--19524063 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
19523999 AACCTTGAAT
*
19524009 ATGCTTAAAAAGATATT-AAAA
1 ATGCTTAAAAATATATTGAAAA
*
19524030 ATGCTTAAAAATCTATTGAAAA
1 ATGCTTAAAAATATATTGAAAA
**
19524052 AACCTTAAAAAT
1 ATGCTTAAAAAT
19524064 GCTTCAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (22 bp):
ATGCTTAAAAATATATTGAAAA
Found at i:19524066 original size:53 final size:54
Alignment explanation
Indices: 19523998--19524126 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 54
19523988 AATCTCTTAC
* * *
19523998 AAACCTTGAATATGCTTAAAAAGATATT-AAAAATGC-TT-AAAAATCTATTGAAA
1 AAACCTTAAAAATGCTTAAAAAGAT-TTCAAAAAT-CTTTAAAAAATCTATTAAAA
* * * *
19524051 AAACCTTAAAAATGCTTCAAAATATTTCAAAAATCTTTAAAAAAATGTTTTAAAA
1 AAACCTTAAAAATGCTTAAAAAGATTTCAAAAATCTTT-AAAAAATCTATTAAAA
*
19524106 AAACCTTAAAAATTCTTAAAA
1 AAACCTTAAAAATGCTTAAAA
19524127 TTCCTTGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
52 3 0.05
53 29 0.46
55 31 0.49
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (54 bp):
AAACCTTAAAAATGCTTAAAAAGATTTCAAAAATCTTTAAAAAATCTATTAAAA
Found at i:19524094 original size:32 final size:32
Alignment explanation
Indices: 19524024--19524093 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
19524014 TAAAAAGATA
* *
19524024 TTAAAAATGCTTAAAAATCTATTGAAAAAACC
1 TTAAAAATGCTTAAAAATATATTCAAAAAACC
* * *
19524056 TTAAAAATGCTTCAAAATAT-TTCAAAAATCT
1 TTAAAAATGCTTAAAAATATATTCAAAAAACC
19524087 TTAAAAA
1 TTAAAAA
19524094 AATGTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (32 bp):
TTAAAAATGCTTAAAAATATATTCAAAAAACC
Found at i:19524180 original size:31 final size:31
Alignment explanation
Indices: 19524101--19524190 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
19524091 AAAAATGTTT
* * *
19524101 TAAAAAAACCTTAAAAATTCTTAAAATTCCT
1 TAAAAAAACCTTAAAAATACTTAAAAGTCCA
* * * * * *
19524132 TGAAAACATCTTTAAAATGCTTAAAAGTGCA
1 TAAAAAAACCTTAAAAATACTTAAAAGTCCA
19524163 TAAAAAAACCTTAAAAATACTTCAAAAG
1 TAAAAAAACCTTAAAAATACTT-AAAAG
19524191 ACTTCAAAAT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
31 40 0.89
32 5 0.11
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (31 bp):
TAAAAAAACCTTAAAAATACTTAAAAGTCCA
Found at i:19524208 original size:62 final size:64
Alignment explanation
Indices: 19524101--19524221 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 64
19524091 AAAAATGTTT
* ** *
19524101 TAAAAAAACCTTAAAAATTCTTAAAATTCCTTGAAAACATCTTT-AAAATG-CTTAAAAGTGCA
1 TAAAAAAACCTTAAAAATACTTAAAATGACTTCAAAACATCTTTAAAAATGACTTAAAAGTGCA
** *
19524163 TAAAAAAACCTTAAAAATACTTCAAAA-GACTTCAAAATTTTTTTAAAAATGACTTAAAA
1 TAAAAAAACCTTAAAAATACTT-AAAATGACTTCAAAACATCTTTAAAAATGACTTAAAA
19524222 AACCTTAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
62 32 0.65
63 10 0.20
64 7 0.14
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (64 bp):
TAAAAAAACCTTAAAAATACTTAAAATGACTTCAAAACATCTTTAAAAATGACTTAAAAGTGCA
Found at i:19524268 original size:10 final size:10
Alignment explanation
Indices: 19524024--19524292 Score: 54
Period size: 10 Copynumber: 25.5 Consensus size: 10
19524014 TAAAAAGATA
*
19524024 TTAAAAATGC
1 TTAAAAATCC
*
19524034 TTAAAAATCTA
1 TTAAAAATC-C
*
19524045 TTGAAAAAACC
1 TT-AAAAATCC
*
19524056 TTAAAAATGC
1 TTAAAAATCC
* **
19524066 TTCAAAATAT
1 TTAAAAATCC
*
19524076 TTCAAAAATCT
1 TT-AAAAATCC
**
19524087 TTAAAAAAATGTT
1 TT--AAAAAT-CC
*
19524100 TTAAAAAAACC
1 TT-AAAAATCC
*
19524111 TTAAAAATTC
1 TTAAAAATCC
*
19524121 TTAAAATTCC
1 TTAAAAATCC
19524131 TTGAAAACAT-C
1 TT-AAAA-ATCC
* *
19524142 TTTAAAATGC
1 TTAAAAATCC
* *
19524152 TTAAAAGTGCA
1 TTAAAAAT-CC
* *
19524163 TAAAAAAACC
1 TTAAAAATCC
*
19524173 TTAAAAATAC
1 TTAAAAATCC
* **
19524183 TTCAAAAGAC
1 TTAAAAATCC
* **
19524193 TTCAAAATTTTT
1 TT-AAAA-ATCC
*
19524205 TTAAAAATGAC
1 TTAAAAAT-CC
*
19524216 TTAAAAAACC
1 TTAAAAATCC
*
19524226 TTAAAAATCA
1 TTAAAAATCC
** *
19524236 ACAAAATTCC
1 TTAAAAATCC
* *
19524246 ATAAAAACGCC
1 TTAAAAA-TCC
19524257 TTAAAAATCC
1 TTAAAAATCC
**
19524267 TTTGAAATCC
1 TTAAAAATCC
* *
19524277 ATGAAAAAACC
1 -TTAAAAATCC
19524288 TTAAA
1 TTAAA
19524293 TATGCTAAAA
Statistics
Matches: 182, Mismatches: 63, Indels: 28
0.67 0.23 0.10
Matches are distributed among these distances:
9 2 0.01
10 102 0.56
11 54 0.30
12 21 0.12
13 3 0.02
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:19524312 original size:115 final size:118
Alignment explanation
Indices: 19524024--19524324 Score: 296
Period size: 115 Copynumber: 2.6 Consensus size: 118
19524014 TAAAAAGATA
* * *
19524024 TTAAAAATGCTTAAAAATCTATTGAAAAAACCTTAAAAATGCTTCAAAAT-A-TTTCAAAAATCT
1 TTAAAAATCCTTAAAAGTCCA-TGAAAAAACCTTAAAAATGCTTCAAAATGACTTTC-AAAATCT
** ** * * *
19524087 TTAAAAAAATGTTTTAAAAAAACCTTAAAAATTCTTAAAATTCCTTGAAAACATC
64 TTAAAAAAATGACTTAAAAAAACCTTAAAAATTCACAAAATTCCATAAAAACACC
* * * * * *
19524142 TTTAAAATGCTTAAAAGTGCATAAAAAAACCTTAAAAATACTTCAAAA-GAC-TTCAAAATTTTT
1 TTAAAAATCCTTAAAAGTCCATGAAAAAACCTTAAAAATGCTTCAAAATGACTTTCAAAATCTTT
** *
19524205 TTAAAAATGACTT-AAAAAACCTTAAAAA-TCAACAAAATTCCATAAAAACGCC
66 AAAAAAATGACTTAAAAAAACCTTAAAAATTC-ACAAAATTCCATAAAAACACC
* * * *
19524257 TTAAAAATCCTTTGAAA-TCCATGAAAAAACCTTAAATATGC-T-AAAATGACTTTCAACATCAT
1 TTAAAAATCC-TTAAAAGTCCATGAAAAAACCTTAAAAATGCTTCAAAATGACTTTCAAAATCTT
19524319 TAAAAA
65 TAAAAA
19524325 GAGCTTAAAA
Statistics
Matches: 148, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
113 4 0.03
114 6 0.04
115 70 0.47
116 22 0.15
117 29 0.20
118 17 0.11
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.30
Consensus pattern (118 bp):
TTAAAAATCCTTAAAAGTCCATGAAAAAACCTTAAAAATGCTTCAAAATGACTTTCAAAATCTTT
AAAAAAATGACTTAAAAAAACCTTAAAAATTCACAAAATTCCATAAAAACACC
Found at i:19524366 original size:21 final size:22
Alignment explanation
Indices: 19524318--19524366 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
19524308 TTCAACATCA
*
19524318 TTAAAAAGAGCTTAAAAATCCT
1 TTAAAAAGACCTTAAAAATCCT
*
19524340 TGAAAAA-ACCTTAATAAAT-CT
1 TTAAAAAGACCTTAA-AAATCCT
19524361 TTAAAA
1 TTAAAA
19524367 TTCGTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (22 bp):
TTAAAAAGACCTTAAAAATCCT
Found at i:19524508 original size:32 final size:32
Alignment explanation
Indices: 19524471--19524532 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
19524461 TTAAAAGGAT
19524471 CTTAAAAATGCTTAAAAAGCTATCAAAAAACC
1 CTTAAAAATGCTTAAAAAGCTATCAAAAAACC
* * *
19524503 CTTAAAAATGCTTCAAAAGGTTTCAAAAAA
1 CTTAAAAATGCTTAAAAAGCTATCAAAAAA
19524533 TTTCAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (32 bp):
CTTAAAAATGCTTAAAAAGCTATCAAAAAACC
Found at i:19524627 original size:448 final size:450
Alignment explanation
Indices: 19523714--19524628 Score: 1152
Period size: 448 Copynumber: 2.0 Consensus size: 450
19523704 AAATCCAAGA
*
19523714 AAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTA
1 AAAAAAACCTTAAAAATACATCAAAAGACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTA
* * * * * * *
19523779 AAAATCCATAAAATTTCGTGAAAACACCTTAAAAATCCTTGAAAATTAATTAAAAAAACTTTAAA
66 AAAATCAACAAAATTCCATAAAAACACCTTAAAAATCCTTGAAAATCAATTAAAAAAACCTTAAA
* * *
19523844 AATACGTAACATGACCTTAAACATCCTTAAAAAGAGCTTAAAAATCTTTGAAAAAACATTAAAAA
131 AATACGTAAAATGACCTTAAACATCATTAAAAAGAGCTTAAAAATCCTTGAAAAAACATTAAAAA
* * * * *
19523909 ATCTTTAAAATTCATAATAACTAATTATAACAATTAAAAATCCCGTAAAAACATCGAAAGTCTTT
196 ATCTTTAAAATTCATAATAAATAATAAAAAAAATTAAAAATCCCGTAAAAACATCAAAAGTCTTT
*
19523974 CAAATTCTTTGAAAAATCTCTTACAAACCTTGAATATGCTTAAAAAGATATTAAAAATGCTTAAA
261 CAAATTCTTTGAAAAATCTCTTACAAACCTTAAATATGCTTAAAAAGATATTAAAAATGCTTAAA
* * * * *
19524039 AATCTATTGAAAAAACCTTAAAAATGCTTCAAAATATTTCAAAAATCTTTAAAAAAATGTTTTAA
326 AAGCTATTCAAAAAACCTTAAAAATGCTTCAAAAGATTTCAAAAATATTTAAAAAAATGCTTTAA
* * ** *
19524104 AAAAACCTTAAAAATTCTTAAAATTCCTTGAAAACATCTTTAAAATGCTTAAAAGTGCAT
391 AAAAACCTGAAAAATTCTTAAAAATCCTTGAAAACATCTTTAAAAAACTTAAAAATGCAT
* * * *
19524164 AAAAAAACCTTAAAAATACTTCAAAAGACTTCAAAATTTTTTTAAAAATGAC-TTAAAAAACCTT
1 AAAAAAACCTTAAAAATACATCAAAAGACTTCAAAAATCTTTAAAAAATG-CTTTAAAAAACCTT
* * *
19524228 AAAAATCAACAAAATTCCATAAAAACGCCTTAAAAATCCTTTG-AAATCCA-TGAAAAAACCTTA
65 AAAAATCAACAAAATTCCATAAAAACACCTTAAAAATCC-TTGAAAATCAATTAAAAAAACCTTA
* * * * * *
19524291 AATATGC-TAAAATGACTTTCAACATCATTAAAAAGAGCTTAAAAATCCTTGAAAAAACCTTAAT
129 AAAATACGTAAAATGACCTTAAACATCATTAAAAAGAGCTTAAAAATCCTTGAAAAAACATTAAA
* * * * *
19524355 AAATCTTTAAAATTCGTAATAAATAATAAAAAAAATTAAAATTCCCTTAAAAGCATCAAAAGTTT
194 AAATCTTTAAAATTCATAATAAATAATAAAAAAAATTAAAAATCCCGTAAAAACATCAAAAGTCT
* * *
19524420 TTCCAATTGC-TTGAAAAATCTCTTA-ACAACCTTAAATATGCTTAAAAGGATCTTAAAAATGCT
259 TTCAAATT-CTTTGAAAAATCTCTTACA-AACCTTAAATATGCTTAAAAAGATATTAAAAATGCT
* *
19524483 TAAAAAGCTA-TCAAAAAACCCTTAAAAATGCTTCAAAAGGTTTCAAAAA-ATTTCAAAAAATGC
322 TAAAAAGCTATTCAAAAAA-CCTTAAAAATGCTTCAAAAGATTTCAAAAATATTTAAAAAAATGC
*** *
19524546 TTTAAAATTCCCTGAAAACA-TCTTAAAAATCCTTTGAAATC-T-TTTAAAAAAACTTAAAAAAT
386 TTTAAAAAAACCTGAAAA-ATTCTTAAAAATCC-TTGAAAACATCTTT-AAAAAACTT-AAAAAT
19524608 GC-T
447 GCAT
* *
19524611 ACAAAAGACTTTAAAAAT
1 A-AAAAAACCTTAAAAAT
19524629 CTTTTACAAA
Statistics
Matches: 399, Mismatches: 56, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
446 3 0.01
447 54 0.14
448 226 0.57
449 17 0.04
450 95 0.24
451 4 0.01
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (450 bp):
AAAAAAACCTTAAAAATACATCAAAAGACTTCAAAAATCTTTAAAAAATGCTTTAAAAAACCTTA
AAAATCAACAAAATTCCATAAAAACACCTTAAAAATCCTTGAAAATCAATTAAAAAAACCTTAAA
AATACGTAAAATGACCTTAAACATCATTAAAAAGAGCTTAAAAATCCTTGAAAAAACATTAAAAA
ATCTTTAAAATTCATAATAAATAATAAAAAAAATTAAAAATCCCGTAAAAACATCAAAAGTCTTT
CAAATTCTTTGAAAAATCTCTTACAAACCTTAAATATGCTTAAAAAGATATTAAAAATGCTTAAA
AAGCTATTCAAAAAACCTTAAAAATGCTTCAAAAGATTTCAAAAATATTTAAAAAAATGCTTTAA
AAAAACCTGAAAAATTCTTAAAAATCCTTGAAAACATCTTTAAAAAACTTAAAAATGCAT
Found at i:19526413 original size:20 final size:20
Alignment explanation
Indices: 19526380--19526418 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19526370 GGAAGAAAAA
*
19526380 AAGAAAATCCAAAGAGAAAC
1 AAGAAAATCAAAAGAGAAAC
* *
19526400 AAGAAAATTAAAAGGGAAA
1 AAGAAAATCAAAAGAGAAA
19526419 TTCGCGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.08, G:0.18, T:0.08
Consensus pattern (20 bp):
AAGAAAATCAAAAGAGAAAC
Found at i:19534050 original size:63 final size:64
Alignment explanation
Indices: 19533912--19534061 Score: 152
Period size: 63 Copynumber: 2.4 Consensus size: 64
19533902 AAATTTTCAG
* * *
19533912 CATTAAAAAAAAACTTTAAAAAT-CTAAAAAGTTCCTTGAAAACACTTTAAAAATCCTTTAAAAT
1 CATTAAAAAAAAACTTT-AAAATGCTAAAAAGTACCTT-AAAACACTTTAAAAAGCCTTAAAAAT
19533976 C
64 C
*
19533977 CA-T-AAAAAAAACTTTAAAATGCTTAAAA-TGACCTT-AAACATCTTTAAAAAAGCC-TAAAAA
1 CATTAAAAAAAAACTTTAAAATGCTAAAAAGT-ACCTTAAAACA-CTTT-AAAAAGCCTTAAAAA
19534037 T-
63 TC
*
19534038 CATTAAAAAAAAACCTTAAGAATG
1 CATTAAAAAAAAACTTTAA-AATG
19534062 TTGGTCCCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
61 7 0.10
62 17 0.23
63 42 0.58
64 5 0.07
65 2 0.03
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (64 bp):
CATTAAAAAAAAACTTTAAAATGCTAAAAAGTACCTTAAAACACTTTAAAAAGCCTTAAAAATC
Found at i:19535555 original size:21 final size:21
Alignment explanation
Indices: 19535509--19535557 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19535499 TAAAATGACC
* *
19535509 TTAAACATCCTTGAAAAGAGT
1 TTAAAAATCCTTGAAAAAAGT
* *
19535530 CTAAAAATCCTTGAAAAAATT
1 TTAAAAATCCTTGAAAAAAGT
19535551 TTAAAAA
1 TTAAAAA
19535558 ATTCATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (21 bp):
TTAAAAATCCTTGAAAAAAGT
Found at i:19535628 original size:21 final size:20
Alignment explanation
Indices: 19535604--19535683 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 20
19535594 TTGAAATATA
19535604 TAAAAGAACCTTAAAAATGCT
1 TAAAAGAACCTTAAAAAT-CT
*
19535625 TAAAATG-ACCTTAAACATCCT
1 TAAAA-GAACCTTAAAAAT-CT
* * *
19535646 TAAAAAAAACTTTAAAATCTT
1 TAAAAGAACCTTAAAAATC-T
19535667 TGAAAA-AACCTTAAAAA
1 T-AAAAGAACCTTAAAAA
19535684 ATCTGTAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 41 0.87
22 5 0.11
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAAGAACCTTAAAAATCT
Found at i:19535670 original size:126 final size:128
Alignment explanation
Indices: 19535415--19535685 Score: 354
Period size: 126 Copynumber: 2.1 Consensus size: 128
19535405 GCCAATAAAA
* * * *
19535415 AAAAAACCTCAAAAAA-TCTATAAAATTTCATGAAAATACCTTTAACATCCTTTGAAATCCATTA
1 AAAAAACCTTAAAAAATTCTATAAAATTTCATAAAAACACCTTTAAAATCCTTTGAAAT-CATTA
* * * *
19535479 AAAAAAACTTTAAAAATGCTTAAAATGACCTTAAACATCCTTGAAAAGAGTCTAAAAATCCTTG
65 AAAAAAACCTTAAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAAACTCTAAAAATCCTTG
** *
19535543 AAAAAATTTTAAAAAATTC-ATAAAATTTCATAAAAACGCCTTTAAAATCCTTTGAAAT-A-TAT
1 AAAAAACCTTAAAAAATTCTATAAAATTTCATAAAAACACCTTTAAAATCCTTTGAAATCATTA-
* * *
19535605 AAAAGAACCTTAAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAAAACT-TTAAAATCTTTG
65 AAAAAAACCTTAAAAATGCTTAAAATGACCTTAAACATCCTT-AAAAAAACTCTAAAAATCCTTG
19535669 AAAAAACCTTAAAAAAT
1 AAAAAACCTTAAAAAAT
19535686 CTGTAAATTC
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
125 2 0.02
126 66 0.53
127 6 0.05
128 48 0.39
129 2 0.02
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (128 bp):
AAAAAACCTTAAAAAATTCTATAAAATTTCATAAAAACACCTTTAAAATCCTTTGAAATCATTAA
AAAAAACCTTAAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAAACTCTAAAAATCCTTG
Found at i:19535926 original size:334 final size:330
Alignment explanation
Indices: 19535553--19536443 Score: 1060
Period size: 334 Copynumber: 2.7 Consensus size: 330
19535543 AAAAAATTTT
* * * * *
19535553 AAAAAATTCATAAAATTTCATAAAAACGCCTTTAAAATCCTTTGAAATATATAAAAGAACCTTAA
1 AAAAAA-TCATAAAATTTCATGAAAACACCTTAAAAATCCTTTGAAATATATAAAAAAATCTTAA
* * *
19535618 AAATGCTTAAAATGACCTTAAACATCCTTAAAAAAAACTTTAAAATCTTTGAAAAAACCTTAAAA
65 AAATGCTTAAAATGACCTTAAACATCCTTAAAAAGAACCTAAAAATC-TTGAAAAAACCTTAAAA
* * * *
19535683 AATCTGT-AAATTCTTAATAAATAATTTAAAAAATTTAAAAATCTCTTAAAAACATCAAAAGCTT
129 AATCTTTAAAATTCATAATAAATAATTTAAAAAAATTAAAAATC-CTTAAAAACATCAAAAACTT
* * *
19535747 TCAAATTTCTTGAAAAATCTCTTAAAAACCTTAAATATGCTTAAAAGGATCTTCAAAATGCTTAA
193 TCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAATATGCTTAAAAGGATCTTAAAAATACTTAA
* ** * *
19535812 AAATTCATGAAAAAAAACCTTAAAAGTG-TTTCAAAAGACTTTAAAAATACAAAAAAAAAT-GCT
258 AAATTCATGAAAAAAAACCTTAAAAATGCTAACAAAA-ACTTCAAAAAT-CAAAAAAAAATAAC-
19535875 TTAAAAAAGCCC
320 TTAAAAAA-CCC
*
19535887 AAAAAATGCATAAAATTTCATGAAAACACCTTAAAAATCCTTTGAAATCA-ATAAAAACAATGTT
1 AAAAAAT-CATAAAATTTCATGAAAACACCTTAAAAATCCTTTGAAAT-ATATAAAAA-AATCTT
* * * *
19535951 AAAAATTCTTAAAATGACCTTAAACATCTTTAAAAAGAGCCTAAAAATCCTTGAAACAACCTTAA
63 AAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAGAACCTAAAAAT-CTTGAAAAAACCTTAA
* * * * * *
19536016 AAAATCTTTAAAATTCATAATTAATAA-TTAAAAAAGTTCAAAATCCCTTCAAAATATAAAAAAT
127 AAAATCTTTAAAATTCATAATAAATAATTTAAAAAAATTAAAAAT-CCTTAAAAACATCAAAAA-
19536080 CTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAATATGCTTAAAAGGATCTTAAAAATACT
190 CTTTCAAATTCCTTGAAAAATCTCTTAAAAACCTTAAATATGCTTAAAAGGATCTTAAAAATACT
***
19536145 TAAAAATTCATGAAAAAAAACCTTAAAAATGCTAACAAAAACTTCAAAAATCTTTAAAAAATAAC
255 TAAAAATTCATGAAAAAAAACCTTAAAAATGCTAACAAAAACTTCAAAAATCAAAAAAAAATAAC
*
19536210 TTAAAAAACCT
320 TTAAAAAACCC
* * * * * *
19536221 TAAAAATCTATAAAATTCCTTGCAAACACCTTAATAATCCTTTGAAAT-TCATGAAATAAATCTT
1 AAAAAATC-ATAAAATTTCATGAAAACACCTTAAAAATCCTTTGAAATAT-AT-AAAAAAATCTT
** * * * * *
19536285 AAAAATGCTTAAAATGATATGAAACATTCTTAAAAAGAACCTAAAAATACTTGAAAAAGCATTTA
63 AAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAGAACCTAAAAAT-CTTGAAAAAACCTTAA
* * *
19536350 AAAATCTTTAAAATT-AGTAATGAATAATTAAAAAAAATTAAAAATCCTTTAAAAACAACAAAAA
127 AAAATCTTTAAAATTCA-TAATAAATAATTTAAAAAAATTAAAAATCC-TTAAAAACATC-AAAA
* * *
19536414 ACTTTCAAA-ACCATGAAAAATCCCTTAAAA
189 ACTTTCAAATTCCTTGAAAAATCTCTTAAAA
19536444 TGATTAAAAT
Statistics
Matches: 476, Mismatches: 64, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
333 3 0.01
334 196 0.41
335 146 0.31
336 125 0.26
337 6 0.01
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (330 bp):
AAAAAATCATAAAATTTCATGAAAACACCTTAAAAATCCTTTGAAATATATAAAAAAATCTTAAA
AATGCTTAAAATGACCTTAAACATCCTTAAAAAGAACCTAAAAATCTTGAAAAAACCTTAAAAAA
TCTTTAAAATTCATAATAAATAATTTAAAAAAATTAAAAATCCTTAAAAACATCAAAAACTTTCA
AATTCCTTGAAAAATCTCTTAAAAACCTTAAATATGCTTAAAAGGATCTTAAAAATACTTAAAAA
TTCATGAAAAAAAACCTTAAAAATGCTAACAAAAACTTCAAAAATCAAAAAAAAATAACTTAAAA
AACCC
Found at i:19535973 original size:21 final size:22
Alignment explanation
Indices: 19535949--19536029 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 22
19535939 AAAAACAATG
19535949 TTAAAAATTC-TTAAAATGACC
1 TTAAAAATTCTTTAAAATGACC
* *
19535970 TTAAACA-TCTTTAAAAAGAGCC
1 TTAAAAATTCTTTAAAATGA-CC
* *
19535992 -TAAAAATCCTTGAAACA--ACC
1 TTAAAAATTCTTTAAA-ATGACC
*
19536012 TTAAAAAATCTTTAAAAT
1 TTAAAAATTCTTTAAAAT
19536030 TCATAATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
20 5 0.11
21 32 0.70
22 8 0.17
23 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (22 bp):
TTAAAAATTCTTTAAAATGACC
Found at i:19536216 original size:23 final size:21
Alignment explanation
Indices: 19536122--19536226 Score: 72
Period size: 22 Copynumber: 4.9 Consensus size: 21
19536112 CTTAAATATG
* *
19536122 CTTAAAAGGATCTT-AAAAATA
1 CTTAAAA-AATCTTAAAAAAAA
* *
19536143 CTTAAAAATTCATGAAAAAAAA
1 CTTAAAAAATC-TTAAAAAAAA
*
19536165 CCTT-AAAAATGC-TAACAAAAA
1 -CTTAAAAAAT-CTTAAAAAAAA
*
19536186 CTTCAAAAATCTTTAAAAAATAA
1 CTTAAAAAATC-TTAAAAAA-AA
*
19536209 CTTAAAAAACCTTAAAAA
1 CTTAAAAAATCTTAAAAA
19536227 TCTATAAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
20 6 0.09
21 21 0.32
22 24 0.36
23 15 0.23
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (21 bp):
CTTAAAAAATCTTAAAAAAAA
Found at i:19536225 original size:21 final size:21
Alignment explanation
Indices: 19536106--19536227 Score: 54
Period size: 21 Copynumber: 5.7 Consensus size: 21
19536096 AAAATCTCTT
* *
19536106 AAAAACCTTAAATAT-GCTTA
1 AAAAACCTTAAAAATAACTTA
* *
19536126 AAAGGATCTTAAAAAT-ACTTA
1 AAA-AACCTTAAAAATAACTTA
* * * *
19536147 AAAATTCATGAAAAAAAACCTTA
1 AAAA-ACCTTAAAAATAA-CTTA
**
19536170 AAAATGC-TAACAAA-AACTTCA
1 AAAAACCTTAA-AAATAACTT-A
* *
19536191 AAAATCTTTAAAAAATAACTTA
1 AAAAACCTT-AAAAATAACTTA
19536213 AAAAACCTTAAAAAT
1 AAAAACCTTAAAAAT
19536228 CTATAAAATT
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
20 6 0.08
21 38 0.50
22 17 0.22
23 15 0.20
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAACCTTAAAAATAACTTA
Found at i:19536482 original size:154 final size:151
Alignment explanation
Indices: 19536286--19536574 Score: 359
Period size: 154 Copynumber: 1.9 Consensus size: 151
19536276 ATAAATCTTA
* * * * ** *
19536286 AAAATGCTTAAAATGATATGAAACATTCTTAAAAAGAACCTAAAAAT-ACTTGAAAAAGCATTTA
1 AAAATGATTAAAATGACATGAAACATCCTGAAAAAGAACCTAAAAATCA-TCAAAAAAAC-TTTA
* *
19536350 AAAATCTTTAAAATTAGTAATGAATAATTAAAAAAAATTAAAAATC-CTTTAAAAACA-ACAAAA
64 AAAAGCTTTAAAATTAGTAATAAATAATT-AAAAAAATT-AAAATCTC-TTAAAAACATA-AAAA
19536413 AACTTTCAAAACCATGAAAAATCCCTT
125 AACTTTCAAAACCATGAAAAATCCCTT
* * * *
19536440 AAAATGATTAAAATGACCTTAAACATCCTGAGAAAGAGCCTAAAAATCATCAAAAAAATCTTTAA
1 AAAATGATTAAAATGACATGAAACATCCTGAAAAAGAACCTAAAAATCATCAAAAAAA-CTTTAA
* *
19536505 AAAGCTTTAAAATTCGTAATAAATAATTAAAAAAATTAAAATCTCTTAAAAACATAAAAAATCTT
65 AAAGCTTTAAAATTAGTAATAAATAATTAAAAAAATTAAAATCTCTTAAAAACATAAAAAAACTT
19536570 TCAAA
130 TCAAA
19536575 TTCCTTGCAA
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
152 28 0.24
153 11 0.09
154 75 0.65
155 2 0.02
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (151 bp):
AAAATGATTAAAATGACATGAAACATCCTGAAAAAGAACCTAAAAATCATCAAAAAAACTTTAAA
AAGCTTTAAAATTAGTAATAAATAATTAAAAAAATTAAAATCTCTTAAAAACATAAAAAAACTTT
CAAAACCATGAAAAATCCCTT
Found at i:19536740 original size:21 final size:21
Alignment explanation
Indices: 19536708--19536764 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
19536698 AAAAAACCCT
*
19536708 AAAAAATA-CTTAAAATTCTTG
1 AAAAAA-ACCTTAAAATCCTTG
* *
19536729 GAAAACACCTTAAAAATCCTTG
1 AAAAAAACCTT-AAAATCCTTG
19536751 AAAAAAACCTTAAA
1 AAAAAAACCTTAAA
19536765 GTATCCTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 18 0.62
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAAAACCTTAAAATCCTTG
Found at i:19536776 original size:22 final size:22
Alignment explanation
Indices: 19536719--19536764 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
19536709 AAAAATACTT
* * *
19536719 AAAATTCTTGGAAAACACCTTA
1 AAAATCCTTGAAAAAAACCTTA
19536741 AAAATCCTTGAAAAAAACCTTA
1 AAAATCCTTGAAAAAAACCTTA
19536763 AA
1 AA
19536765 GTATCCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAATCCTTGAAAAAAACCTTA
Found at i:19536909 original size:21 final size:19
Alignment explanation
Indices: 19536851--19536908 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
19536841 TCAAAAATCT
* *
19536851 CTTAAAAACCTTAAATATG
1 CTTAAAAATCTTAAAAATG
19536870 CTTAAAAGGATCTTAAAAATG
1 CTTAAAA--ATCTTAAAAATG
19536891 CTTAAAAATCTGTAAAAA
1 CTTAAAAATCT-TAAAAA
19536909 AAACCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 11 0.32
20 6 0.18
21 17 0.50
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (19 bp):
CTTAAAAATCTTAAAAATG
Found at i:19536950 original size:10 final size:10
Alignment explanation
Indices: 19536820--19537016 Score: 75
Period size: 10 Copynumber: 18.9 Consensus size: 10
19536810 CGTACAAACA
*
19536820 TTAAAAGTCT
1 TTAAAAATCT
* *
19536830 TTCAAATTCT
1 TTAAAAATCT
19536840 TTCAAAAATCT
1 TT-AAAAATCT
*
19536851 CTTAAAAA-CC
1 -TTAAAAATCT
*
19536861 TTAAATATGC-
1 TTAAAAAT-CT
19536871 TTAAAAGGATC-
1 TTAAAA--ATCT
19536882 TTAAAAATGC-
1 TTAAAAAT-CT
19536892 TTAAAAATCT
1 TTAAAAATCT
* * *
19536902 GTAAAAAAAACC
1 -T-TAAAAATCT
19536914 TTAAAAATGCT
1 TTAAAAAT-CT
*
19536925 TCAAAAGAT-T
1 TTAAAA-ATCT
*
19536935 TCAAAAATCT
1 TTAAAAATCT
*
19536945 TTAAAAAAAGCT
1 TT--AAAAATCT
*
19536957 TTACGAAA-CT
1 TTA-AAAATCT
*
19536967 TTAAAAATTT
1 TTAAAAATCT
*
19536977 TTAAAATTCT
1 TTAAAAATCT
19536987 TTAGAAACAT-T
1 TTA-AAA-ATCT
19536998 TTAAAAATCT
1 TTAAAAATCT
*
19537008 TTTAAAATC
1 TTAAAAATC
19537017 CATGAAAAAA
Statistics
Matches: 144, Mismatches: 23, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
9 16 0.11
10 69 0.48
11 37 0.26
12 22 0.15
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.35
Consensus pattern (10 bp):
TTAAAAATCT
Found at i:19537015 original size:116 final size:116
Alignment explanation
Indices: 19536882--19537090 Score: 287
Period size: 116 Copynumber: 1.8 Consensus size: 116
19536872 TAAAAGGATC
** * * **
19536882 TTAAAAATGCTTAAAAATCTGTAAAAAAAACCTTAAAAATGCTTCAAAAGATTTCAAAAATCTTT
1 TTAAAAATGCTTAAAAATCCATAAAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTT
* *
19536947 AAAAAAAG-CTTTACGAAACTTTAAAAATTTTTAAAATTCTTTAGAAACATT
66 AAAAAAAGACTTTA-AAAACCTTAAAAATTTTTAAAATTCTTTAGAAACATT
* *
19536998 TTAAAAAT-CTTTTAAAATCCATGAAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATT
1 TTAAAAATGC-TTAAAAATCCATAAAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATT
*
19537062 TAAAAAATGACTTTAAAAACCTTAAAAAT
65 TAAAAAAAGACTTTAAAAACCTTAAAAAT
19537091 CTATAAATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 1 0.01
116 74 0.93
117 5 0.06
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (116 bp):
TTAAAAATGCTTAAAAATCCATAAAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTT
AAAAAAAGACTTTAAAAACCTTAAAAATTTTTAAAATTCTTTAGAAACATT
Found at i:19537118 original size:116 final size:116
Alignment explanation
Indices: 19536905--19537153 Score: 306
Period size: 116 Copynumber: 2.2 Consensus size: 116
19536895 AAAATCTGTA
* * ** * *
19536905 AAAAAAACCTTAAAAATGCTTCAAAAGATTTCAAAAATCTTTAAAAAAAGCTTTACGAAACTTTA
1 AAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTTAAAAAAAGCTTTACAAAACCTTA
* * * * ** * *
19536970 AAAATTTTTAAAATTCTTTAGAAACATTTTAAAAATCTTTTAAAATCCATG
66 AAAATCTATAAAATTCATGAGAAACACCTTAAAAATCCTTTAAAATCCACG
*
19537021 AAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTTAAAAAATGACTTTA-AAAACCTT
1 AAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTTAAAAAAAG-CTTTACAAAACCTT
* *
19537085 AAAAATCTATAAATTTCCATGAG-AACACCTTAAAAATCCTTTGAAATCCACG
65 AAAAATCTATAAAATT-CATGAGAAACACCTTAAAAATCCTTTAAAATCCACG
19537137 -AAAAAACCTTAAAAATG
1 AAAAAAACCTTAAAAATG
19537154 GTTAAAATGC
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
115 17 0.15
116 88 0.77
117 9 0.08
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (116 bp):
AAAAAAACCTTAAAAATGCATCAAAAGACTTCAAAAAGATTTAAAAAAAGCTTTACAAAACCTTA
AAAATCTATAAAATTCATGAGAAACACCTTAAAAATCCTTTAAAATCCACG
Found at i:19537146 original size:31 final size:30
Alignment explanation
Indices: 19537076--19537152 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
19537066 AAATGACTTT
*
19537076 AAAAACCTTAAAAATCTATAAATTTCCATGA
1 AAAAACCTTAAAAATCTATAAA-TTCCACGA
* * *
19537107 GAACACCTTAAAAATCCTTTGAAA-TCCACGA
1 AAAAACCTTAAAAAT-CTAT-AAATTCCACGA
19537138 AAAAACCTTAAAAAT
1 AAAAACCTTAAAAAT
19537153 GGTTAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
31 32 0.84
32 3 0.08
33 3 0.08
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (30 bp):
AAAAACCTTAAAAATCTATAAATTCCACGA
Found at i:19537345 original size:10 final size:10
Alignment explanation
Indices: 19537308--19537346 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19537298 CGTAAAAACT
*
19537308 TTAAATATGC
1 TTAAAAATGC
*
19537318 TTAAAAGTGTC
1 TTAAAAATG-C
19537329 TTAAAAATGC
1 TTAAAAATGC
19537339 TTAAAAAT
1 TTAAAAAT
19537347 ACATGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (10 bp):
TTAAAAATGC
Found at i:19537365 original size:32 final size:32
Alignment explanation
Indices: 19537328--19537410 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
19537318 TTAAAAGTGT
* *
19537328 CTTAAAAATGCTTAAAAATACATGAGAAAAAC
1 CTTAAAAATGCTTAAAAATACATCAAAAAAAC
* * * *
19537360 CTTAAAGATGCTTCAAAATACTTCAAAAAAAT
1 CTTAAAAATGCTTAAAAATACATCAAAAAAAC
*
19537392 TTTAAAAATGCTTTAAAAA
1 CTTAAAAATGC-TTAAAAA
19537411 ACCCTAAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 35 0.85
33 6 0.15
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (32 bp):
CTTAAAAATGCTTAAAAATACATCAAAAAAAC
Found at i:19537545 original size:21 final size:21
Alignment explanation
Indices: 19537474--19537546 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
19537464 CCATAAAAAA
*
19537474 ATCCTTAAAAATGCTTCAAA-T
1 ATCCTTAAAAATCCTT-AAAGT
* * *
19537495 AACCTTAAACATCCTCAAAAAG-
1 ATCCTTAAAAATCCT--TAAAGT
*
19537517 AGCC-TAAAAATCCTTAAAGT
1 ATCCTTAAAAATCCTTAAAGT
19537537 ATCCTTAAAA
1 ATCCTTAAAA
19537547 CTCGTAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
19 4 0.10
20 3 0.08
21 26 0.67
22 6 0.15
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.26
Consensus pattern (21 bp):
ATCCTTAAAAATCCTTAAAGT
Found at i:19537895 original size:117 final size:116
Alignment explanation
Indices: 19537658--19537954 Score: 343
Period size: 117 Copynumber: 2.6 Consensus size: 116
19537648 ATCAATGAAC
* * *
19537658 AAAACCTTAAGAATGCTTCAAAAGACTTCAAAAATCTTTAAAAAGTAATTTACAAAACCTTAAAA
1 AAAACCTTAAAAATGCTTCAAAAGACTTCAAAAATCTTTAAAAAGTAACTTAAAAAACCTTAAAA
*** * *
19537723 ATTTTTAAAATTTCTTGAAAACATCTTAAAAATCCTTTAAAATCCACGAAA
66 ATCCATAAAATTTCTTGAAAACACCTTAAAAATCCTTTAAAATCCACAAAA
* * *
19537774 AAAACCTTAAAAATGCTTCAAAAGACTTCAAAATATTTTTTTAAAA-TGACTTAAAAAACCTTAA
1 AAAACCTTAAAAATGCTTCAAAAGACTTCAAAA-A-TCTTTAAAAAGTAACTTAAAAAACCTTAA
* * *
19537838 AAATCCAT-AAATTTCTATGAAAACACCTTAAAAATCTTTTGAAATCCATAAAA
64 AAATCCATAAAATTTCT-TGAAAACACCTTAAAAATCCTTTAAAATCCACAAAA
* * * * * *
19537891 AAAACCTTAAAAATGCTT-AAAATGCCTT-AAACATCTTCAAAAAG-AGCTTAAAAATCTTTAAA
1 AAAACCTTAAAAATGCTTCAAAA-GACTTCAAAAATCTTTAAAAAGTAACTTAAAAAACCTTAAA
19537953 AA
65 AA
19537955 AACCTTAAGA
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
114 23 0.15
115 1 0.01
116 47 0.31
117 74 0.48
118 8 0.05
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (116 bp):
AAAACCTTAAAAATGCTTCAAAAGACTTCAAAAATCTTTAAAAAGTAACTTAAAAAACCTTAAAA
ATCCATAAAATTTCTTGAAAACACCTTAAAAATCCTTTAAAATCCACAAAA
Found at i:19537911 original size:22 final size:21
Alignment explanation
Indices: 19537888--19537975 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
19537878 GAAATCCATA
19537888 AAAAAAACCTTAAAAATGC-TT
1 AAAAAAACCTTAAAAAT-CTTT
** * *
19537909 -AAAATGCCTTAAACATCTTC
1 AAAAAAACCTTAAAAATCTTT
* *
19537929 AAAAAGAGCTTAAAAATCTTT
1 AAAAAAACCTTAAAAATCTTT
19537950 AAAAAAACCTTAAGAAATCTTT
1 AAAAAAACCTTAA-AAATCTTT
19537972 AAAA
1 AAAA
19537976 TTCGTAATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 14 0.26
21 26 0.49
22 12 0.23
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (21 bp):
AAAAAAACCTTAAAAATCTTT
Found at i:19538216 original size:10 final size:10
Alignment explanation
Indices: 19538160--19538219 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
19538150 AAAAATAACT
19538160 TTAAAAA-CC
1 TTAAAAATCC
19538169 TTAAAAATCC
1 TTAAAAATCC
* *
19538179 ATAAAATTCC
1 TTAAAAATCC
*
19538189 TTGCAAACA-CC
1 TT--AAAAATCC
19538200 TTAAAAATCC
1 TTAAAAATCC
*
19538210 TTCAAAATCC
1 TTAAAAATCC
19538220 ATGAAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 11 0.28
10 22 0.55
11 4 0.10
12 3 0.08
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.27
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:19538483 original size:10 final size:10
Alignment explanation
Indices: 19538376--19538516 Score: 60
Period size: 10 Copynumber: 13.4 Consensus size: 10
19538366 AAATTCCTTG
19538376 AAAAATCTCTT
1 AAAAATCT-TT
19538387 AAAAAT-TTT
1 AAAAATCTTT
*
19538396 AAATATGC-TT
1 AAAAAT-CTTT
19538406 AAAAGGATC-TT
1 AAAA--ATCTTT
19538417 AAAAATGCTTT
1 AAAAAT-CTTT
*
19538428 -AAAATCTATG
1 AAAAATCT-TT
* *
19538438 AAAGAAACCTT
1 AAA-AATCTTT
*
19538449 AAAAATGCTTC
1 AAAAAT-CTTT
*
19538460 AAAAGA-CTTC
1 AAAA-ATCTTT
19538470 AAAAATCTTT
1 AAAAATCTTT
19538480 AAAAAATTCTTT
1 -AAAAA-TCTTT
*
19538492 AAAAAATC-AT
1 -AAAAATCTTT
19538502 ATAAAATCTTT
1 A-AAAATCTTT
19538513 AAAA
1 AAAA
19538517 TTCCTTGAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 33
0.69 0.08 0.22
Matches are distributed among these distances:
9 13 0.13
10 36 0.35
11 36 0.35
12 17 0.17
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (10 bp):
AAAAATCTTT
Found at i:19538490 original size:12 final size:12
Alignment explanation
Indices: 19538470--19538498 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19538460 AAAAGACTTC
19538470 AAAAA-TCTTTA
1 AAAAATTCTTTA
19538481 AAAAATTCTTTA
1 AAAAATTCTTTA
19538493 AAAAAT
1 AAAAAT
19538499 CATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAAATTCTTTA
Found at i:19538506 original size:12 final size:11
Alignment explanation
Indices: 19538470--19538516 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
19538460 AAAAGACTTC
19538470 AAAAATCTTTA
1 AAAAATCTTTA
19538481 AAAAATTCTTTA
1 AAAAA-TCTTTA
*
19538493 AAAAATC-ATA
1 AAAAATCTTTA
*
19538503 TAAAATCTTTA
1 AAAAATCTTTA
19538514 AAA
1 AAA
19538517 TTCCTTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.27
11 11 0.37
12 11 0.37
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATCTTTA
Found at i:19538543 original size:10 final size:10
Alignment explanation
Indices: 19538370--19538543 Score: 52
Period size: 10 Copynumber: 16.5 Consensus size: 10
19538360 AATTTCAAAT
19538370 TCCTTGAAAAA
1 TCCTT-AAAAA
19538381 TCTCTTAAAAA
1 TC-CTTAAAAA
* *
19538392 T-TTTAAATA
1 TCCTTAAAAA
*
19538401 TGCTTAAAAGGA
1 TCCTTAAAA--A
19538413 T-CTTAAAAA
1 TCCTTAAAAA
* *
19538422 TGCTTTAAAA
1 TCCTTAAAAA
19538432 T-CTATGAAAGAA
1 TCCT-T-AAA-AA
*
19538444 ACCTTAAAAA
1 TCCTTAAAAA
* *
19538454 TGCTTCAAAA
1 TCCTTAAAAA
**
19538464 GACTTCAAAAA
1 TCCTT-AAAAA
*
19538475 TCTTTAAAAAA
1 TCCTT-AAAAA
*
19538486 TTCTTTAAAAAA
1 -TCCTT-AAAAA
*
19538498 T-CATATAAAA
1 TCCTTA-AAAA
* *
19538508 TCTTTAAAAT
1 TCCTTAAAAA
19538518 TCCTTGAAAACA
1 TCCTT-AAAA-A
19538530 -CCTTAAAAA
1 TCCTTAAAAA
19538539 TCCTT
1 TCCTT
19538544 TGAACTCCAT
Statistics
Matches: 123, Mismatches: 24, Indels: 33
0.68 0.13 0.18
Matches are distributed among these distances:
9 13 0.11
10 47 0.38
11 42 0.34
12 19 0.15
13 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (10 bp):
TCCTTAAAAA
Found at i:19538939 original size:21 final size:20
Alignment explanation
Indices: 19538874--19538968 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
19538864 AAAAAAACTG
* *
19538874 AAAAATACTTCAAATGACCTT
1 AAAAATCCTT-AAAAGACCTT
* *
19538895 AAACATACCTAAAAAGAACC-T
1 AAAAAT-CCTTAAAAG-ACCTT
19538916 AAAAATCCTTGAAAAGACCTT
1 AAAAATCCTT-AAAAGACCTT
* * *
19538937 AAATATGCTTAAAAGGATCTT
1 AAAAATCCTTAAAA-GACCTT
*
19538958 AAAAATGCTTA
1 AAAAATCCTTA
19538969 CAAATCCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
20 10 0.17
21 44 0.75
22 5 0.08
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAAATCCTTAAAAGACCTT
Found at i:19539137 original size:23 final size:22
Alignment explanation
Indices: 19539106--19539148 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19539096 TAAAATGCTT
*
19539106 CAAAAGACTTCAAAAATCTTTTA
1 CAAAAGACTT-AAAAAACTTTTA
*
19539129 CAAATGACTTAAAAAACTTT
1 CAAAAGACTTAAAAAACTTT
19539149 AAAAATCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (22 bp):
CAAAAGACTTAAAAAACTTTTA
Found at i:19539153 original size:32 final size:31
Alignment explanation
Indices: 19539085--19539155 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
19539075 ATTGATAAAA
* * *
19539085 CAAAAAACCTTTAAAATGCTTCAAAAGACTT
1 CAAAAATCTTTTAAAATGCTTCAAAAAACTT
19539116 CAAAAATCTTTTACAAATGACTT-AAAAAACTT
1 CAAAAATCTTTTA-AAATG-CTTCAAAAAACTT
*
19539148 TAAAAATC
1 CAAAAATC
19539156 GATAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.32
32 20 0.59
33 3 0.09
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (31 bp):
CAAAAATCTTTTAAAATGCTTCAAAAAACTT
Found at i:19539221 original size:21 final size:20
Alignment explanation
Indices: 19539195--19539402 Score: 85
Period size: 22 Copynumber: 9.9 Consensus size: 20
19539185 TCCGTTAAAA
19539195 TTAAAAAAGCCTTAAAAATAC
1 TTAAAAAAGCCTTAAAAAT-C
* *
19539216 TT-AAAATGACCTTAAACATC
1 TTAAAAAAG-CCTTAAAAATC
19539236 TTTAAAAAGAGCC-TAAAAATCC
1 -TTAAAAA-AGCCTTAAAAAT-C
19539258 TTGAAAAAA-CCTTAAAAAATTC
1 TT-AAAAAAGCCTT-AAAAA-TC
* **
19539280 TTAAAATATGCAATAAATAA--
1 TTAAAA-AAGCCTTAAA-AATC
*
19539300 TTAAAAAA--ATTAAAAATCCC
1 TTAAAAAAGCCTTAAAAAT--C
* *
19539320 TT-AAAAA-CATCAAAAATC
1 TTAAAAAAGCCTTAAAAATC
*
19539338 TTAAAAAATGTGCTTAAAAGGATC
1 TTAAAAAA-G-CCTTAAAA--ATC
19539362 TTAAAAAATG-CTTAAAAATC
1 TTAAAAAA-GCCTTAAAAATC
*
19539382 TATGAAAAAAACCTTAAAAAT
1 T-T-AAAAAAGCCTTAAAAAT
19539403 GCTTCCAAAG
Statistics
Matches: 147, Mismatches: 14, Indels: 51
0.69 0.07 0.24
Matches are distributed among these distances:
16 2 0.01
17 5 0.03
18 3 0.02
19 11 0.07
20 28 0.19
21 28 0.19
22 51 0.35
23 6 0.04
24 13 0.09
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (20 bp):
TTAAAAAAGCCTTAAAAATC
Found at i:19539276 original size:10 final size:10
Alignment explanation
Indices: 19539195--19539276 Score: 51
Period size: 11 Copynumber: 7.8 Consensus size: 10
19539185 TCCGTTAAAA
19539195 TTAAAAAAGCC
1 TTAAAAAA-CC
19539206 TTAAAAATA-C
1 TTAAAAA-ACC
*
19539216 TTAAAATGACC
1 TTAAAA-AACC
* * *
19539227 TTAAACATCT
1 TTAAAAAACC
19539237 TTAAAAAGAGCC
1 TTAAAAA-A-CC
*
19539249 -TAAAAATCC
1 TTAAAAAACC
19539258 TTGAAAAAACC
1 TT-AAAAAACC
19539269 TTAAAAAA
1 TTAAAAAA
19539277 TTCTTAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
9 2 0.04
10 22 0.41
11 28 0.52
12 2 0.04
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (10 bp):
TTAAAAAACC
Found at i:19539323 original size:20 final size:18
Alignment explanation
Indices: 19539300--19539345 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
19539290 CAATAAATAA
*
19539300 TTAAAAAAATTAAAAATCCC
1 TTAAAAAAATCAAAAAT--C
*
19539320 TTAAAAACATCAAAAATC
1 TTAAAAAAATCAAAAATC
19539338 TTAAAAAA
1 TTAAAAAA
19539346 TGTGCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (18 bp):
TTAAAAAAATCAAAAATC
Found at i:19539363 original size:24 final size:22
Alignment explanation
Indices: 19539335--19539378 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
19539325 AACATCAAAA
19539335 ATCTTAAAAAATGTGCTTAAAAGG
1 ATCTTAAAAAA--TGCTTAAAAGG
19539359 ATCTTAAAAAATGCTTAAAA
1 ATCTTAAAAAATGCTTAAAA
19539379 ATCTATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCTTAAAAAATGCTTAAAAGG
Found at i:19539548 original size:10 final size:10
Alignment explanation
Indices: 19539507--19539698 Score: 95
Period size: 11 Copynumber: 18.6 Consensus size: 10
19539497 CTTTTGAATT
19539507 ATTTTTAAGG
1 ATTTTTAAGG
* *
19539517 TTTTTTTCATGG
1 -ATTTTT-AAGG
**
19539529 ATTTCAAAGG
1 ATTTTTAAGG
19539539 ATTTTTAAGG
1 ATTTTTAAGG
* *
19539549 AGTTTTGAAAG
1 A-TTTTTAAGG
*
19539560 AATTTTAAGG
1 ATTTTTAAGG
19539570 ATTTTTAA--
1 ATTTTTAAGG
* *
19539578 TTTTTTAAGC
1 ATTTTTAAGG
*
19539588 ATTTTTTAAAG
1 A-TTTTTAAGG
*
19539599 ATTTTTGAAGT
1 ATTTTT-AAGG
* *
19539610 ATTTTGAAGC
1 ATTTTTAAGG
*
19539620 ATTTTTAAAGT
1 ATTTTT-AAGG
* *
19539631 TTTTTTCATGG
1 ATTTTT-AAGG
*
19539642 ATTTTTAAGC
1 ATTTTTAAGG
19539652 ATTTTTAA-G
1 ATTTTTAAGG
*
19539661 ATCCTTTTAAGC
1 AT--TTTTAAGG
*
19539673 ATATTTAAGG
1 ATTTTTAAGG
19539683 -TTTTTAAGAG
1 ATTTTTAAG-G
19539693 ATTTTT
1 ATTTTT
19539699 CATGAAATTT
Statistics
Matches: 133, Mismatches: 36, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
8 7 0.05
9 9 0.07
10 55 0.41
11 57 0.43
12 5 0.04
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:19539614 original size:21 final size:20
Alignment explanation
Indices: 19539538--19539690 Score: 73
Period size: 21 Copynumber: 7.5 Consensus size: 20
19539528 GATTTCAAAG
* *
19539538 GATTTTTAAGGAGTTTTGAAA
1 GATTTTTAAGTA-TTTTTAAA
* *
19539559 GAATTTTAAGGATTTTT-AA
1 GATTTTTAAGTATTTTTAAA
* *
19539578 -TTTTTTAAGCATTTTTTAAA
1 GATTTTTAAGTA-TTTTTAAA
*
19539598 GATTTTTGAAGTA-TTTTGAA
1 GATTTTT-AAGTATTTTTAAA
* **
19539618 GCATTTTTAAAGTTTTTTTCATG
1 G-ATTTTT-AAGTATTTTT-AAA
*
19539641 GATTTTTAAGCATTTTT-AA
1 GATTTTTAAGTATTTTTAAA
* *
19539660 GATCCTTTTAAGCATATTT-AA
1 GAT--TTTTAAGTATTTTTAAA
*
19539681 GGTTTTTAAG
1 GATTTTTAAG
19539691 AGATTTTTCA
Statistics
Matches: 104, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
18 8 0.08
19 17 0.16
20 13 0.12
21 51 0.49
22 14 0.13
23 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (20 bp):
GATTTTTAAGTATTTTTAAA
Found at i:19539636 original size:32 final size:31
Alignment explanation
Indices: 19539579--19539700 Score: 106
Period size: 32 Copynumber: 3.9 Consensus size: 31
19539569 GATTTTTAAT
* *
19539579 TTTTTAAGCATTTTTTAAAGATTTTTGAAGTA
1 TTTTTAAGCA-TTTTTAAAGATTTTTCAAGGA
* * *
19539611 TTTTGAAGCATTTTTAAAGTTTTTTTCATGGA
1 TTTTTAAGCATTTTTAAAG-ATTTTTCAAGGA
*
19539643 TTTTTAAGCATTTTT-AAGATCCTTTT-AAGCA
1 TTTTTAAGCATTTTTAAAGAT--TTTTCAAGGA
* *
19539674 TATTTAAG-GTTTTTAAGAGATTTTTCA
1 TTTTTAAGCATTTTTAA-AGATTTTTCA
19539701 TGAAATTTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
30 10 0.14
31 24 0.33
32 39 0.53
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.52
Consensus pattern (31 bp):
TTTTTAAGCATTTTTAAAGATTTTTCAAGGA
Found at i:19539878 original size:10 final size:10
Alignment explanation
Indices: 19539809--19540029 Score: 76
Period size: 10 Copynumber: 21.4 Consensus size: 10
19539799 TTTTTTACTC
19539809 TTTTTAAGG-
1 TTTTTAAGGA
19539818 TTGTTTAAGG-
1 TT-TTTAAGGA
*
19539828 TCATTTTAAGCA
1 T--TTTTAAGGA
*
19539840 -TTTTAAGGTT
1 TTTTTAAGG-A
*
19539850 TTTTTATGGA
1 TTTTTAAGGA
**
19539860 TTTCAAAGGA
1 TTTTTAAGGA
19539870 TTTTTAAGGA
1 TTTTTAAGGA
* *
19539880 GTATTTAAGAA
1 -TTTTTAAGGA
*
19539891 ATTTTAAGGA
1 TTTTTAAGGA
* * *
19539901 ATTTTAAAGT
1 TTTTTAAGGA
19539911 TTTTTAA-GA
1 TTTTTAAGGA
**
19539920 TTTTTGAAGTC
1 TTTTT-AAGGA
* **
19539931 TTTTCAAACA
1 TTTTTAAGGA
*
19539941 -TTTTAAGGTTTT
1 TTTTTAAGG---A
19539953 TTTTTCAAGGA
1 TTTTT-AAGGA
**
19539964 TTTCAAAGGA
1 TTTTTAAGGA
19539974 TTTTTAAGGA
1 TTTTTAAGGA
*
19539984 GTTTTCAAGGA
1 -TTTTTAAGGA
* *
19539995 ATTTTAAAGA
1 TTTTTAAGGA
*
19540005 TTTTTAAAG-
1 TTTTTAAGGA
19540014 TTTTCTAAGGCA
1 TTTT-TAAGG-A
19540026 TTTT
1 TTTT
19540030 AAAAAGATTT
Statistics
Matches: 154, Mismatches: 40, Indels: 33
0.68 0.18 0.15
Matches are distributed among these distances:
9 24 0.16
10 80 0.52
11 37 0.24
12 5 0.03
13 4 0.03
14 4 0.03
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:19539924 original size:19 final size:21
Alignment explanation
Indices: 19539892--19539934 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
19539882 ATTTAAGAAA
19539892 TTTTAAGGAATTTTAAAGT-T
1 TTTTAAGGAATTTTAAAGTCT
* *
19539912 TTTTAA-GATTTTTGAAGTCT
1 TTTTAAGGAATTTTAAAGTCT
19539932 TTT
1 TTT
19539935 CAAACATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (21 bp):
TTTTAAGGAATTTTAAAGTCT
Found at i:19539981 original size:104 final size:101
Alignment explanation
Indices: 19539838--19540022 Score: 282
Period size: 104 Copynumber: 1.8 Consensus size: 101
19539828 TCATTTTAAG
* *
19539838 CATTTTAAGGTTTTTTTATGGATTTCAAAGGATTTTTAAGGAGTATTT-AAGAAATTTTAAGGAA
1 CATTTTAAGGTTTTTTTAAGGATTTCAAAGGATTTTTAAGGAGT-TTTCAAGAAATTTTAAAGAA
*
19539902 TTTTAAAGTTTTTTAAGATTTTTGAAGTCTTTTCAAA
65 TTTTAAAGTTTTCTAAGATTTTTGAAGTCTTTTCAAA
*
19539939 CATTTTAAGGTTTTTTTTTCAAGGATTTCAAAGGATTTTTAAGGAGTTTTCAAGGAATTTTAAAG
1 CATTTTAAGG--TTTTTTT-AAGGATTTCAAAGGATTTTTAAGGAGTTTTCAAGAAATTTTAAAG
*
19540004 ATTTTTAAAGTTTTCTAAG
63 AATTTTAAAGTTTTCTAAG
19540023 GCATTTTAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 10 0.13
103 10 0.13
104 55 0.73
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (101 bp):
CATTTTAAGGTTTTTTTAAGGATTTCAAAGGATTTTTAAGGAGTTTTCAAGAAATTTTAAAGAAT
TTTAAAGTTTTCTAAGATTTTTGAAGTCTTTTCAAA
Found at i:19539992 original size:31 final size:29
Alignment explanation
Indices: 19539954--19540046 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 29
19539944 TAAGGTTTTT
19539954 TTTTCAAGG-ATTTCAAAGGATTTTTAAGGAG
1 TTTTCAAGGAATTTCAAA-GATTTTTAA--AG
*
19539985 TTTTCAAGGAATTTTAAAGATTTTTAAAG
1 TTTTCAAGGAATTTCAAAGATTTTTAAAG
* * *
19540014 TTTTCTAAGGCATTTTAAAAAGATTTTTGAAG
1 TTTTC-AAGG-AATTT-CAAAGATTTTTAAAG
19540046 T
1 T
19540047 ATTTTGAACC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.13
30 4 0.07
31 22 0.41
32 21 0.39
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (29 bp):
TTTTCAAGGAATTTCAAAGATTTTTAAAG
Found at i:19539993 original size:11 final size:10
Alignment explanation
Indices: 19539954--19540008 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
19539944 TAAGGTTTTT
19539954 TTTTCAAGGA
1 TTTTCAAGGA
19539964 -TTTCAAAGGA
1 TTTTC-AAGGA
*
19539974 TTTTTAAGGA
1 TTTTCAAGGA
19539984 GTTTTCAAGGAA
1 -TTTTCAAGG-A
*
19539996 TTTT-AAAGA
1 TTTTCAAGGA
19540005 TTTT
1 TTTT
19540009 TAAAGTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 9 0.24
10 13 0.34
11 15 0.39
12 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (10 bp):
TTTTCAAGGA
Found at i:19540009 original size:21 final size:22
Alignment explanation
Indices: 19539964--19540013 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
19539954 TTTTCAAGGA
* *
19539964 TTTCAAAGGATTTTTAAGGAGT
1 TTTCAAAGGAATTTTAAAGAGT
19539986 TTTC-AAGGAATTTTAAAGA-T
1 TTTCAAAGGAATTTTAAAGAGT
*
19540006 TTTTAAAG
1 TTTCAAAG
19540014 TTTTCTAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (22 bp):
TTTCAAAGGAATTTTAAAGAGT
Found at i:19540040 original size:32 final size:29
Alignment explanation
Indices: 19539954--19540046 Score: 98
Period size: 32 Copynumber: 3.0 Consensus size: 29
19539944 TAAGGTTTTT
*
19539954 TTTTCAAGG-ATTTCAAAGGATTTTTAAGGAG
1 TTTTCAAGGAATTTTAAA-GATTTTTAA--AG
19539985 TTTTCAAGGAATTTTAAAGATTTTTAAAG
1 TTTTCAAGGAATTTTAAAGATTTTTAAAG
* *
19540014 TTTTCTAAGGCATTTTAAAAAGATTTTTGAAG
1 TTTTC-AAGGAATTTT--AAAGATTTTTAAAG
19540046 T
1 T
19540047 ATTTTGAACC
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
29 7 0.13
30 9 0.16
31 18 0.33
32 21 0.38
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (29 bp):
TTTTCAAGGAATTTTAAAGATTTTTAAAG
Found at i:19540309 original size:21 final size:21
Alignment explanation
Indices: 19540285--19540352 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
19540275 CTTTTAAGAT
*
19540285 TTTTTTATGAATTTCAAAGGA
1 TTTTTTATGAATTTTAAAGGA
* * *
19540306 TTTTTAAGGAGTTTTAAAGGA
1 TTTTTTATGAATTTTAAAGGA
*
19540327 -ATTTTATGAAATTTTAAA-G-
1 TTTTTTATG-AATTTTAAAGGA
19540346 TTTTTTA
1 TTTTTTA
19540353 AAGTAGTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (21 bp):
TTTTTTATGAATTTTAAAGGA
Found at i:19540314 original size:10 final size:10
Alignment explanation
Indices: 19540301--19540479 Score: 72
Period size: 10 Copynumber: 17.2 Consensus size: 10
19540291 ATGAATTTCA
19540301 AAGGATTTTT
1 AAGGATTTTT
*
19540311 AAGGAGTTTTA
1 AAGGA-TTTTT
*
19540322 AAGGAATTTT
1 AAGGATTTTT
* * *
19540332 ATGAAATTTT
1 AAGGATTTTT
* *
19540342 AAAGTTTTTT
1 AAGGATTTTT
*
19540352 AAAGTAGTTTTT
1 -AAGGA-TTTTT
*
19540364 AAAGATTTTT
1 AAGGATTTTT
** *
19540374 GAAGTCTTTTG
1 -AAGGATTTTT
**
19540385 AATTATTTTT
1 AAGGATTTTT
*
19540395 AAGGTTTTTTT
1 AAGG-ATTTTT
* **
19540406 CATGGATTTCA
1 -AAGGATTTTT
19540417 AAGGATTTTT
1 AAGGATTTTT
*
19540427 AAGGAGTTTTG
1 AAGGA-TTTTT
*
19540438 AAAGA-TTTT
1 AAGGATTTTT
19540447 AAGGATTTTT
1 AAGGATTTTT
* *
19540457 AAAGTTTTTT
1 AAGGATTTTT
*
19540467 AAAGCATTTTT
1 -AAGGATTTTT
19540478 AA
1 AA
19540480 AATAATTTTG
Statistics
Matches: 119, Mismatches: 41, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
9 7 0.06
10 61 0.51
11 43 0.36
12 8 0.07
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:19540362 original size:42 final size:42
Alignment explanation
Indices: 19540287--19540367 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 42
19540277 TTTAAGATTT
19540287 TTTTATGAATTTCAAAGGATTTTTAAGGAG-TTTTAAAGGAA
1 TTTTATGAATTTCAAAGGATTTTTAAGGAGTTTTTAAAGGAA
* * *
19540328 TTTTATGAAATTTTAAA-GTTTTTTAAAGTAGTTTTTAAAG
1 TTTTATG-AATTTCAAAGGATTTTT-AAGGAGTTTTTAAAG
19540368 ATTTTTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 13 0.38
42 13 0.38
43 8 0.24
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTTATGAATTTCAAAGGATTTTTAAGGAGTTTTTAAAGGAA
Found at i:19540467 original size:115 final size:115
Alignment explanation
Indices: 19540276--19540525 Score: 321
Period size: 115 Copynumber: 2.2 Consensus size: 115
19540266 TTTTAAGCAC
* * *
19540276 TTTTAAGATTTTTTT-ATGAATTTCAAAGGATTTTTAAGGAGTTTTAAAGGAATTTTATGAAATT
1 TTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGAGTTTTAAAGGAATTTTAAGAAATT
* * **
19540340 TTAAAGTTTTTTAAAGTAGTTTTTAAAGAT-TTTTGAAGTCTTTTGA-ATTAT
66 TTAAAGTTTTTTAAAGCA-TTTTTAAA-ATATTTTGAAGTATTTT-ACAACAT
* *
19540391 TTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGAGTTTTGAAA-G-ATTTTAAGGATT
1 TTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGAGTTTT-AAAGGAATTTTAAGAAAT
19540454 TTTAAAGTTTTTTAAAGCATTTTTAAAATAATTTTGAAGTATTTTACAACAT
65 TTTAAAGTTTTTTAAAGCATTTTTAAAAT-ATTTTGAAGTATTTTACAACAT
* *
19540506 TTTTAAAGCTTTTTTCATGG
1 TTTTAAGGTTTTTTTCATGG
19540526 CTTTTTATGC
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
113 2 0.02
114 9 0.08
115 75 0.63
116 30 0.25
117 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.50
Consensus pattern (115 bp):
TTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGAGTTTTAAAGGAATTTTAAGAAATT
TTAAAGTTTTTTAAAGCATTTTTAAAATATTTTGAAGTATTTTACAACAT
Found at i:19540703 original size:10 final size:10
Alignment explanation
Indices: 19540688--19540917 Score: 104
Period size: 11 Copynumber: 21.6 Consensus size: 10
19540678 TTTTTTACTC
19540688 TTTTTAAGGA
1 TTTTTAAGGA
*
19540698 TGTTTAAGG-
1 TTTTTAAGGA
*
19540707 TCATTTTAAGCA
1 T--TTTTAAGGA
*
19540719 TTTTTAAGGTT
1 TTTTTAAGG-A
19540730 TTTTTAATGGA
1 TTTTTAA-GGA
**
19540741 TTTCGAAGGA
1 TTTTTAAGGA
19540751 TTTTTAAGGA
1 TTTTTAAGGA
19540761 GTTTTTAAGGA
1 -TTTTTAAGGA
*
19540772 ATTTTAAGGGA
1 TTTTTAA-GGA
* *
19540783 -TTTTCAGGTT
1 TTTTTAAGG-A
**
19540793 TTTTTAAAGCTT
1 TTTTT-AAG-GA
*
19540805 TTTTTAAAAGA
1 TTTTT-AAGGA
**
19540816 TTTTTGAAGTC
1 TTTTT-AAGGA
* *
19540827 TTTTGAAGCA
1 TTTTTAAGGA
*
19540837 TTTTTAAGGTT
1 TTTTTAAGG-A
19540848 TTTTTAATGGA
1 TTTTTAA-GGA
** *
19540859 TTTCAAAGCA
1 TTTTTAAGGA
*
19540869 TTTTTTAAAGA
1 -TTTTTAAGGA
*
19540880 TTTTTGAAGTA
1 TTTTT-AAGGA
*
19540891 TTTTTAAGGT
1 TTTTTAAGGA
19540901 TTTTTCAAGGA
1 TTTTT-AAGGA
19540912 TTTTTA
1 TTTTTA
19540918 GGCTTTTTTT
Statistics
Matches: 163, Mismatches: 41, Indels: 32
0.69 0.17 0.14
Matches are distributed among these distances:
9 3 0.02
10 63 0.39
11 81 0.50
12 16 0.10
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.50
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:19540734 original size:21 final size:21
Alignment explanation
Indices: 19540688--19540969 Score: 101
Period size: 21 Copynumber: 13.2 Consensus size: 21
19540678 TTTTTTACTC
* *
19540688 TTTTTAAGGATGTTTAAGGTC
1 TTTTTAAGGATTTTTAAGGTT
* *
19540709 ATTTTAAGCATTTTTAAGGTT
1 TTTTTAAGGATTTTTAAGGTT
** *
19540730 TTTTTAATGGATTTCGAAGG-A
1 TTTTTAA-GGATTTTTAAGGTT
*
19540751 TTTTTAAGGAGTTTTTAAGG-A
1 TTTTTAAGGA-TTTTTAAGGTT
* *
19540772 ATTTTAAGGGA-TTTTCAGGTT
1 TTTTTAA-GGATTTTTAAGGTT
** * *
19540793 TTTTTAAAGCTTTTTTTAAAAGAT
1 TTTTT-AAG-GATTTTT-AAGGTT
* ** * **
19540817 TTTTGAAGTCTTTTGAA-GCA
1 TTTTTAAGGATTTTTAAGGTT
* *
19540837 TTTTTAAGGTTTTTTTAATGG-A
1 TTTTTAAGG-ATTTTTAA-GGTT
** * * *
19540859 TTTCAAAGCATTTTTTAAAGAT
1 TTTTTAAGGA-TTTTTAAGGTT
* *
19540881 TTTTGAAGTATTTTTAAGGTT
1 TTTTTAAGGATTTTTAAGGTT
*
19540902 TTTTCAAGGATTTTT-AGGCTT
1 TTTTTAAGGATTTTTAAGG-TT
* * *
19540923 TTTTTAAAGATTTTAAAGGTC
1 TTTTTAAGGATTTTTAAGGTT
* *
19540944 ATTTTAAGTAATTTTT-AGGTT
1 TTTTTAAG-GATTTTTAAGGTT
19540965 TTTTT
1 TTTTT
19540970 TCATGATTTA
Statistics
Matches: 193, Mismatches: 52, Indels: 32
0.70 0.19 0.12
Matches are distributed among these distances:
20 21 0.11
21 109 0.56
22 48 0.25
23 8 0.04
24 7 0.04
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.51
Consensus pattern (21 bp):
TTTTTAAGGATTTTTAAGGTT
Found at i:19540754 original size:32 final size:32
Alignment explanation
Indices: 19540718--19540799 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
19540708 CATTTTAAGC
19540718 ATTTTTAAGGTTTTTTTAATGG-ATTTCGAA-GG
1 ATTTTTAAGGTTTTTTTAA-GGAATTT-GAAGGG
** *
19540750 ATTTTTAAGGAGTTTTTAAGGAATTTTAAGGG
1 ATTTTTAAGGTTTTTTTAAGGAATTTGAAGGG
*
19540782 A-TTTTCAGGTTTTTTTAA
1 ATTTTTAAGGTTTTTTTAA
19540800 AGCTTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
31 18 0.43
32 24 0.57
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (32 bp):
ATTTTTAAGGTTTTTTTAAGGAATTTGAAGGG
Found at i:19540936 original size:42 final size:44
Alignment explanation
Indices: 19540880--19540970 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
19540870 TTTTTAAAGA
* * * *
19540880 TTTTTGAAGTATTTTTAAGGT-TTTTTCAAG-GATTTTTAGGCTT
1 TTTTTAAAGTATTTTAAAGGTCATTTT-AAGTAATTTTTAGGCTT
*
19540923 TTTTTAAAG-ATTTTAAAGGTCATTTTAAGTAATTTTTAGGTTT
1 TTTTTAAAGTATTTTAAAGGTCATTTTAAGTAATTTTTAGGCTT
19540966 TTTTT
1 TTTTT
19540971 CATGATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 13 0.32
43 28 0.68
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.57
Consensus pattern (44 bp):
TTTTTAAAGTATTTTAAAGGTCATTTTAAGTAATTTTTAGGCTT
Found at i:19540951 original size:53 final size:54
Alignment explanation
Indices: 19540827--19540940 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
19540817 TTTTGAAGTC
* * *
19540827 TTTTGAAGCATTTTTAAGGTTTTTTTAATGGATTTCAAAGCATTTTTTAAAGAT
1 TTTTAAAGTATTTTTAAGGTTTTTTCAATGGATTTCAAAGCATTTTTTAAAGAT
* ** * *
19540881 TTTTGAAGTATTTTTAAGGTTTTTTCAA-GGATTTTTAGGCTTTTTTTAAAGA-
1 TTTTAAAGTATTTTTAAGGTTTTTTCAATGGATTTCAAAGCATTTTTTAAAGAT
19540933 TTTTAAAG
1 TTTTAAAG
19540941 GTCATTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
52 7 0.13
53 20 0.38
54 26 0.49
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (54 bp):
TTTTAAAGTATTTTTAAGGTTTTTTCAATGGATTTCAAAGCATTTTTTAAAGAT
Found at i:19540994 original size:7 final size:7
Alignment explanation
Indices: 19540982--19541063 Score: 69
Period size: 7 Copynumber: 12.0 Consensus size: 7
19540972 ATGATTTAAA
19540982 AGGGTTT
1 AGGGTTT
19540989 AGGGTTT
1 AGGGTTT
19540996 AGGGTTT
1 AGGGTTT
*
19541003 AGGATTT
1 AGGGTTT
*
19541010 AGGATTT
1 AGGGTTT
*
19541017 A-GGTTC
1 AGGGTTT
*
19541023 ATGG-TT
1 AGGGTTT
*
19541029 AGGGTTA
1 AGGGTTT
*
19541036 AGGGTTC
1 AGGGTTT
*
19541043 AGGGTTC
1 AGGGTTT
* *
19541050 AAGGTTG
1 AGGGTTT
19541057 AGGGTTT
1 AGGGTTT
19541064 TTTTTTATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
6 8 0.13
7 54 0.87
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:19546512 original size:34 final size:34
Alignment explanation
Indices: 19546467--19546543 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
19546457 ATACTTGTTG
* * * *
19546467 AGGGTTGAGGGTTCAGGGTTCAAGGTTAGGATTT
1 AGGGTTTAGGGTTCACGGTTCAAGGGTAGGAGTT
* * *
19546501 AGGGTTTAGGGTTTACGGTTTAAGGGTAGGGGTT
1 AGGGTTTAGGGTTCACGGTTCAAGGGTAGGAGTT
19546535 AGGGTTTAG
1 AGGGTTTAG
19546544 ATTTTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.19, C:0.04, G:0.43, T:0.34
Consensus pattern (34 bp):
AGGGTTTAGGGTTCACGGTTCAAGGGTAGGAGTT
Found at i:19546514 original size:7 final size:7
Alignment explanation
Indices: 19546467--19546543 Score: 61
Period size: 7 Copynumber: 11.3 Consensus size: 7
19546457 ATACTTGTTG
*
19546467 AGGGTTG
1 AGGGTTT
*
19546474 AGGGTTC
1 AGGGTTT
*
19546481 AGGGTTC
1 AGGGTTT
*
19546488 AAGG-TT
1 AGGGTTT
*
19546494 AGGATTT
1 AGGGTTT
19546501 AGGGTTT
1 AGGGTTT
19546508 AGGGTTT
1 AGGGTTT
*
19546515 ACGGTTT
1 AGGGTTT
19546522 AAGGG--T
1 -AGGGTTT
*
19546528 AGGGGTT
1 AGGGTTT
19546535 AGGGTTT
1 AGGGTTT
19546542 AG
1 AG
19546544 ATTTTTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
5 4 0.07
6 4 0.07
7 46 0.81
8 3 0.05
ACGTcount: A:0.19, C:0.04, G:0.43, T:0.34
Consensus pattern (7 bp):
AGGGTTT
Found at i:19547694 original size:7 final size:7
Alignment explanation
Indices: 19547675--19547723 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
19547665 TGTTACTCGA
19547675 GTTA-GG
1 GTTAGGG
19547681 GTGTAGGG
1 GT-TAGGG
19547689 GTTAGGG
1 GTTAGGG
19547696 GTTAGGG
1 GTTAGGG
*
19547703 TTTAGGG
1 GTTAGGG
*
19547710 GTCAGGG
1 GTTAGGG
*
19547717 GTCAGGG
1 GTTAGGG
19547724 TTCAGGGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 2 0.05
7 32 0.84
8 4 0.11
ACGTcount: A:0.14, C:0.04, G:0.55, T:0.27
Consensus pattern (7 bp):
GTTAGGG
Found at i:19547728 original size:7 final size:7
Alignment explanation
Indices: 19547694--19547746 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
19547684 TAGGGGTTAG
19547694 GGGTT-A
1 GGGTTCA
*
19547700 GGGTTTA
1 GGGTTCA
*
19547707 GGGGTCA
1 GGGTTCA
*
19547714 GGGGTCA
1 GGGTTCA
19547721 GGGTTCA
1 GGGTTCA
19547728 GGGTTCA
1 GGGTTCA
*
19547735 AGGTTCA
1 GGGTTCA
19547742 GGGTT
1 GGGTT
19547747 TTAGGGTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
6 5 0.12
7 36 0.88
ACGTcount: A:0.15, C:0.09, G:0.47, T:0.28
Consensus pattern (7 bp):
GGGTTCA
Found at i:19547728 original size:14 final size:14
Alignment explanation
Indices: 19547687--19547746 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
19547677 TAGGGTGTAG
*
19547687 GGGTT-AGGGGTTA
1 GGGTTCAGGGGTCA
*
19547700 GGGTTTAGGGGTCA
1 GGGTTCAGGGGTCA
* *
19547714 GGGGTCAGGGTTCA
1 GGGTTCAGGGGTCA
* *
19547728 GGGTTCAAGGTTCA
1 GGGTTCAGGGGTCA
19547742 GGGTT
1 GGGTT
19547747 TTAGGGTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 5 0.12
14 35 0.88
ACGTcount: A:0.15, C:0.08, G:0.48, T:0.28
Consensus pattern (14 bp):
GGGTTCAGGGGTCA
Found at i:19547781 original size:7 final size:7
Alignment explanation
Indices: 19547771--19547958 Score: 107
Period size: 7 Copynumber: 26.9 Consensus size: 7
19547761 TTGAATTTTG
19547771 GGGTTTA
1 GGGTTTA
*
19547778 GGGTTTGG
1 GGGTTT-A
* *
19547786 GGGCTTG
1 GGGTTTA
*
19547793 GGGTTTG
1 GGGTTTA
*
19547800 GGGTTTGG
1 GGGTTT-A
19547808 GGGTTTA
1 GGGTTTA
19547815 GGGTTT-
1 GGGTTTA
* *
19547821 GGGGTTC
1 GGGTTTA
* **
19547828 GATGTTGG
1 G-GGTTTA
*
19547836 GGGTTTG
1 GGGTTTA
**
19547843 GGGTGCA
1 GGGTTTA
*
19547850 GGGTTCA
1 GGGTTTA
*
19547857 GGGTTCA
1 GGGTTTA
*
19547864 -GGTTCA
1 GGGTTTA
19547870 GGGGTTT-
1 -GGGTTTA
* *
19547877 GGGGTTG
1 GGGTTTA
*
19547884 GGGGTTA
1 GGGTTTA
19547891 -GGTTTA
1 GGGTTTA
19547897 GGGTTTA
1 GGGTTTA
*
19547904 GGGGTTAA
1 -GGGTTTA
19547912 GGG-TTA
1 GGGTTTA
*
19547918 GGGTTCA
1 GGGTTTA
19547925 GGGTTTA
1 GGGTTTA
19547932 GGGTTTA
1 GGGTTTA
19547939 GGGTTTA
1 GGGTTTA
19547946 GGGTTTA
1 GGGTTTA
19547953 GGGTTT
1 GGGTTT
19547959 TAATTTTTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
6 26 0.18
7 97 0.66
8 25 0.17
ACGTcount: A:0.10, C:0.04, G:0.50, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:19547796 original size:22 final size:22
Alignment explanation
Indices: 19547768--19547826 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
19547758 GGTTTGAATT
*
19547768 TTGGGGTTTAGGGTTTGGGGGC
1 TTGGGGTTTGGGGTTTGGGGGC
*
19547790 TTGGGGTTTGGGGTTTGGGGGT
1 TTGGGGTTTGGGGTTTGGGGGC
*
19547812 TTAGGGTTTGGGGTT
1 TTGGGGTTTGGGGTT
19547827 CGATGTTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.03, C:0.02, G:0.54, T:0.41
Consensus pattern (22 bp):
TTGGGGTTTGGGGTTTGGGGGC
Found at i:19547918 original size:21 final size:20
Alignment explanation
Indices: 19547675--19547958 Score: 108
Period size: 21 Copynumber: 13.5 Consensus size: 20
19547665 TGTTACTCGA
* *
19547675 GTTAGGGTGTAGGGGTTAGGG
1 GTTAGGGTTTAGGGTTTA-GG
* *
19547696 GTTAGGGTTTAGGGGTCAGGG
1 GTTAGGGTTTAGGGTTTA-GG
* * * *
19547717 GTCAGGGTTCAGGGTTCAAG
1 GTTAGGGTTTAGGGTTTAGG
19547737 GTTCAGGGTTTTAGGGTTT-GAG
1 GTT-AGGG-TTTAGGGTTTAG-G
* ** *
19547759 GTTTGAATTTTGGGGTTTAGG
1 GTTAG-GGTTTAGGGTTTAGG
* * * *
19547780 GTTTGGGGGCTTGGGGTTTGGG
1 G-TT-AGGGTTTAGGGTTTAGG
* *
19547802 GTTTGGGGGTTTAGGGTTTGGG
1 G-TT-AGGGTTTAGGGTTTAGG
* * ** *
19547824 GTTCGATGTTGGGGGTTTGGG
1 GTTAG-GGTTTAGGGTTTAGG
* * *
19547845 GTGCAGGGTTCAGGGTTCA-G
1 GT-TAGGGTTTAGGGTTTAGG
* **
19547865 GTTCAGGGGTTTGGGGTTGGGG
1 GTT-A-GGGTTTAGGGTTTAGG
19547887 GTTA-GGTTTAGGGTTTAGGG
1 GTTAGGGTTTAGGGTTTA-GG
*
19547907 GTTAAGGG-TTAGGGTTCAGG
1 GTT-AGGGTTTAGGGTTTAGG
19547927 GTTTAGGGTTTAGGGTTTAGG
1 G-TTAGGGTTTAGGGTTTAGG
19547948 GTTTAGGGTTT
1 G-TTAGGGTTT
19547959 TAATTTTTTT
Statistics
Matches: 204, Mismatches: 42, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
19 10 0.05
20 20 0.10
21 119 0.58
22 54 0.26
23 1 0.00
ACGTcount: A:0.12, C:0.04, G:0.48, T:0.36
Consensus pattern (20 bp):
GTTAGGGTTTAGGGTTTAGG
Found at i:19555730 original size:27 final size:28
Alignment explanation
Indices: 19555700--19555752 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
19555690 TTTGGTTCGG
* * *
19555700 GGTTTGGGGTTCAGG-TTTCGAGTTTCA
1 GGTTCGGGGTCCAGGATTTAGAGTTTCA
19555727 GGTTCGGGGTCCAGGATTTAGAGTTT
1 GGTTCGGGGTCCAGGATTTAGAGTTT
19555753 TAAGGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.13, C:0.11, G:0.38, T:0.38
Consensus pattern (28 bp):
GGTTCGGGGTCCAGGATTTAGAGTTTCA
Found at i:19555821 original size:29 final size:29
Alignment explanation
Indices: 19555779--19555848 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
19555769 TCAAGGTTCG
19555779 AGGTTCGGGGTTCGA-GGCTCGGGGCTTTA
1 AGGTTCGGGGTTCGAGGGCTCGGGG-TTTA
* * *
19555808 AGGTTTGGGGTTCGAGGGTTCGGGGTTTG
1 AGGTTCGGGGTTCGAGGGCTCGGGGTTTA
*
19555837 AGGTTCAGGGTT
1 AGGTTCGGGGTT
19555849 TGAGTTTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.10, C:0.11, G:0.47, T:0.31
Consensus pattern (29 bp):
AGGTTCGGGGTTCGAGGGCTCGGGGTTTA
Found at i:19555852 original size:14 final size:14
Alignment explanation
Indices: 19555773--19555848 Score: 80
Period size: 14 Copynumber: 5.3 Consensus size: 14
19555763 AAGGGTTCAA
19555773 GGTTCGAGGTTCGG
1 GGTTCGAGGTTCGG
*
19555787 GGTTCGAGGCTCGG
1 GGTTCGAGGTTCGG
** *
19555801 GGCTTTAAGGTTTGG
1 GG-TTCGAGGTTCGG
19555816 GGTTCGAGGGTTCGG
1 GGTTCGA-GGTTCGG
* *
19555831 GGTTTGAGGTTCAG
1 GGTTCGAGGTTCGG
19555845 GGTT
1 GGTT
19555849 TGAGTTTCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
14 28 0.56
15 22 0.44
ACGTcount: A:0.09, C:0.12, G:0.47, T:0.32
Consensus pattern (14 bp):
GGTTCGAGGTTCGG
Found at i:19555927 original size:14 final size:14
Alignment explanation
Indices: 19555905--19556006 Score: 66
Period size: 15 Copynumber: 7.2 Consensus size: 14
19555895 AGGGTTTGAA
**
19555905 GTTCGGGGTTCGGG
1 GTTCGGGGTTTAGG
* *
19555919 GTTTAGGGTTTTA-G
1 G-TTCGGGGTTTAGG
*
19555933 GTTCGGGGTTCGAGG
1 GTTCGGGGTT-TAGG
*
19555948 G-TCGAGGCTTTAGG
1 GTTCG-GGGTTTAGG
19555962 GTTCGGGGTTTAGGG
1 GTTCGGGGTTTA-GG
* *
19555977 GTTCGTGGTTTGGG
1 GTTCGGGGTTTAGG
*
19555991 GTT-AGGGTTTAGG
1 GTTCGGGGTTTAGG
19556004 GTT
1 GTT
19556007 TTTTTTATGT
Statistics
Matches: 67, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
13 17 0.25
14 22 0.33
15 28 0.42
ACGTcount: A:0.08, C:0.08, G:0.48, T:0.36
Consensus pattern (14 bp):
GTTCGGGGTTTAGG
Done.