Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 9 of 16
Found at i:1435803 original size:61 final size:61
Alignment explanation
Indices: 1435678--1436261 Score: 375
Period size: 61 Copynumber: 9.1 Consensus size: 61
1435668 CTCTTTTTCC
* * * * * *
1435678 CTTTT-AAGTCCACAACTCTGTGGCACCTTGTTCCTT-T-TAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACCTT-TTTCTTCTCAAAGCCCACAACTCCGTGGCA-T
* *
1435738 CTTTTAAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCACTTT
1 CTTTTAAAGCCCACAACTCCGTGGC-ACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA----
1435803 TT
61 -T
*
1435805 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
1 C-TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTCTCAAAGCCCACAACTCCGTGGCA-
1435870 TCTTTTT
61 ------T
* * * *
1435877 CCCTTTTAAAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACC
1 --CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-T
* * ** * ** *
1435938 CTTTT-AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTTTGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-T
* * ** * *
1435999 CTTTT-AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-T
*
1436060 CTTTT-AAGCCCACAACTCCGTGGCACCTTTCTCCTTCT--AAGCCCACAACTCCGTGGCACCTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTT-TTCTTCTCAAAGCCCACAACTCCGTGGCA----
1436122 TTT
61 --T
* * *
1436125 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT-TTTTTAAAGCCCACAACTTCGTGGCACTCT
1 C-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA----
1436189 TTTT
61 ---T
** * *
1436193 CCCTTTTCAAAGCCCACAACTTTGTGGCACCTTTTTCTT-TTAAAGCCCACAACTCCATGGCACT
1 --CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCA-T
1436257 CTTTT
1 CTTTT
1436262 TCCCTTTTAA
Statistics
Matches: 447, Mismatches: 43, Indels: 66
0.80 0.08 0.12
Matches are distributed among these distances:
58 19 0.04
59 5 0.01
60 24 0.05
61 133 0.30
62 16 0.04
63 18 0.04
64 1 0.00
65 4 0.01
66 5 0.01
67 74 0.17
68 35 0.08
69 6 0.01
70 73 0.16
71 2 0.00
72 7 0.02
73 24 0.05
74 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (61 bp):
CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACAACTCCGTGGCAT
Found at i:1435908 original size:27 final size:28
Alignment explanation
Indices: 1435877--1436191 Score: 197
Period size: 34 Copynumber: 10.2 Consensus size: 28
1435867 CACTCTTTTT
* *
1435877 CCCTTTTAAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
1435905 CCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CC--CTTTT-AAAGCCCACAACTCCGTGGCA
1435936 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** * **
1435963 CTTTTTTCATCTTTAAGTCCACAACTTTGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
1435997 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** *
1436024 CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
1436058 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
1436085 CCTTTCTCCTTCT-AAGCCCACAACTCCGTGGCA
1 CC---CT--TT-TAAAGCCCACAACTCCGTGGCA
1436118 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
* *
1436152 CCTTTTTTTTTTAAAGCCCACAACTTCGTGGCA
1 CC-----CTTTTAAAGCCCACAACTCCGTGGCA
*
1436185 CTCTTTT
1 CCCTTTT
1436192 TCCCTTTTCA
Statistics
Matches: 238, Mismatches: 22, Indels: 54
0.76 0.07 0.17
Matches are distributed among these distances:
27 68 0.29
28 6 0.03
29 5 0.02
30 7 0.03
31 21 0.09
32 2 0.01
33 49 0.21
34 75 0.32
35 4 0.02
36 1 0.00
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:1436237 original size:70 final size:68
Alignment explanation
Indices: 1436058--1436294 Score: 327
Period size: 70 Copynumber: 3.5 Consensus size: 68
1436048 CTCCGTGGCA
* *
1436058 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCCTTCT-AAGCCCACAACTCCGTGGCAC-CT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTT-TTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1436121 TTTT
65 TTTT
* * *
1436125 -CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTAAAGCCCACAACTTCGTGGCACTCT
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1436189 TTTT
65 TTTT
** *
1436193 CCCTTTTCAAAGCCCACAACTTTGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCATGGCACTC
1 CCCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
1436258 TTTTT
64 TTTTT
* *
1436263 CCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTT
1436295 CTCCCTTCCC
Statistics
Matches: 150, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
66 9 0.06
67 45 0.30
68 27 0.18
69 5 0.03
70 64 0.43
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.35
Consensus pattern (68 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTT
Found at i:1436379 original size:33 final size:33
Alignment explanation
Indices: 1436303--1436400 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 33
1436293 TTCTCCCTTC
*
1436303 CCAAAGCCCACACAAGTTA-GTGGCAA-CTT-TT
1 CCAAAGCCCACACAAG-TAGGTGGAAACCTTCTT
1436334 CCTAAAGCCCACACAAGTAGGTGGAAACCTTCTT
1 CC-AAAGCCCACACAAGTAGGTGGAAACCTTCTT
* *
1436368 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTAGGTGG-AAACCTTCT
1436401 AAGCCCAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.07
32 20 0.34
33 23 0.39
34 12 0.20
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (33 bp):
CCAAAGCCCACACAAGTAGGTGGAAACCTTCTT
Found at i:1436458 original size:49 final size:49
Alignment explanation
Indices: 1436400--1436676 Score: 388
Period size: 49 Copynumber: 5.7 Consensus size: 49
1436390 GCAACCCTTC
* * * *
1436400 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1436449 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1436498 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1436546 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1436589 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1436641 TAAGTTCAATGTAGCTGGCCTTGAATCAGCCCATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1436677 ACATCCTTTT
Statistics
Matches: 206, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
43 40 0.19
45 1 0.00
48 45 0.22
49 84 0.41
50 1 0.00
52 35 0.17
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1436577 original size:97 final size:92
Alignment explanation
Indices: 1436495--1436685 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 92
1436485 GCACCTTCAT
* * *
1436495 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1436559 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1436586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAAT
* *
1436651 GTAGCTGGCCTTGAATCAGCCCATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
1436682 CTTT
1 CTTT
1436686 TTCTCATCTT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
91 42 0.47
94 1 0.01
95 41 0.46
96 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1436604 original size:43 final size:43
Alignment explanation
Indices: 1436495--1436632 Score: 213
Period size: 43 Copynumber: 3.1 Consensus size: 43
1436485 GCACCTTCAT
1436495 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
1436543 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1436586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1436629 CTTT
1 CTTT
1436633 TCCATCTTTA
Statistics
Matches: 88, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
43 48 0.55
48 40 0.45
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1436664 original size:52 final size:53
Alignment explanation
Indices: 1436586--1436739 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
1436576 ACATTGGCAC
1436586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * ** *
1436638 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCCCATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
1436693 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1436740 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 37 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1436797 original size:67 final size:68
Alignment explanation
Indices: 1436689--1436815 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1436679 ATCCTTTTTC
* * *
1436689 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1436753 TCT
66 TCT
* * * *
1436756 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
1436816 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1441627 original size:27 final size:27
Alignment explanation
Indices: 1441597--1441737 Score: 74
Period size: 27 Copynumber: 5.1 Consensus size: 27
1441587 TTGGTGGCAT
1441597 TTTCCAGTCCTCAAAGAGTAGGATGCC
1 TTTCCAGTCCTCAAAGAGTAGGATGCC
* * * * * *
1441624 TTTCGAAGCCCACATA-AGTTGG-TGGCAT
1 TTTC-CAGTCCTCAAAGAGTAGGAT-GC-C
*
1441652 TTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTCCAGTCCTCAAAGAGTAGGATGCC
* * * * * *
1441679 TTTCGAAGCCCACACA-AGTTGG-TGGCAT
1 TTTC-CAGTCCTCAAAGAGTAGGAT-GC-C
*
1441707 TTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTCCAGTCCTCAAAGAGTAGGATGCC
1441734 TTTC
1 TTTC
1441738 AAAGCCCACA
Statistics
Matches: 77, Mismatches: 27, Indels: 20
0.62 0.22 0.16
Matches are distributed among these distances:
26 2 0.03
27 39 0.51
28 34 0.44
29 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGTAGGATGCC
Found at i:1441645 original size:55 final size:54
Alignment explanation
Indices: 1441357--1442239 Score: 912
Period size: 55 Copynumber: 15.4 Consensus size: 54
1441347 CTCCTTCCGC
*
1441357 TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
* *
1441417 CTTTCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1441477 TTTTTCAGTCC-CATAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** *
1441536 CCTTCAGTCCTCAAAGAGCAGGACGCCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCA-G--G--AT-GCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1441596 TTTTCCAGTCCTCAAAGAGTAGGATGCCTTTCGAAGCCCACATAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1441651 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1441706 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTAGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1441761 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGATTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAG-TTGGTGGCA
* * * ** *
1441823 CCTTTT-AGTCCCCAATGAGTAGGACACCTTTCAAAGCCCAAACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
1441878 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGACA
1 TTTTC-AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1441933 CCTTTCAATCCTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* **
1441994 CTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1442049 TTTTCCAGTCTTCAAAGAGCAGGA--CACTTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGC-CTT-TCAAAGCCCACACAAGTTGGTGGCA
*
1442104 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1442159 CTGTTTCAGTCCTCAAAGAGAAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -T-TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1442215 CTTTTTAGTCCTCAAAGAGCAGGAT
1 -TTTTCAGTCCTCAAAGAGCAGGAT
1442240 ACACTTTATT
Statistics
Matches: 714, Mismatches: 63, Indels: 97
0.82 0.07 0.11
Matches are distributed among these distances:
53 5 0.01
54 8 0.01
55 361 0.51
56 84 0.12
57 2 0.00
58 9 0.01
59 30 0.04
60 88 0.12
61 85 0.12
62 25 0.04
64 10 0.01
65 7 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1443062 original size:19 final size:18
Alignment explanation
Indices: 1443037--1443133 Score: 88
Period size: 19 Copynumber: 5.8 Consensus size: 18
1443027 ATTTCAGCGA
1443037 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1443055 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1443071 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1443087 TTTTGTATCGATAC--AA-
1 -TTTGTATCGATACATAAG
*
1443103 --TGTATCGATATATAAG
1 TTTGTATCGATACATAAG
1443119 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1443134 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1443075 original size:32 final size:32
Alignment explanation
Indices: 1443039--1443141 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
1443029 TTCAGCGATT
*
1443039 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
1443071 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
1443103 TGTATCGATATATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
1443135 TGTATCG
1 TGTATCG
1443142 CTAGGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:1443076 original size:13 final size:13
Alignment explanation
Indices: 1443058--1443112 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
1443048 ACATAAGTGT
1443058 TGTATCGATACAA
1 TGTATCGATACAA
1443071 TGTATCGATACATAA
1 TGTATCGATAC--AA
1443086 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
1443103 TGTATCGATA
1 TGTATCGATA
1443113 TATAAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1446392 original size:14 final size:13
Alignment explanation
Indices: 1446369--1446410 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
1446359 ATGATGTATC
1446369 GATACATGAATAGT
1 GATACATGAA-AGT
*
1446383 GATACGTGAACAGT
1 GATACATGAA-AGT
1446397 GATACATGAAAGT
1 GATACATGAAAGT
1446410 G
1 G
1446411 TTGTATCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (13 bp):
GATACATGAAAGT
Found at i:1446442 original size:10 final size:10
Alignment explanation
Indices: 1446423--1446453 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1446413 GTATCGATAC
1446423 ATGAACAGTG
1 ATGAACAGTG
*
1446433 ATGAATAGTG
1 ATGAACAGTG
1446443 ATGAACAGTG
1 ATGAACAGTG
1446453 A
1 A
1446454 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1446541 original size:53 final size:53
Alignment explanation
Indices: 1446477--1446613 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1446467 CTACTACTAA
*
1446477 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCCACTGCCAATGACC
* *
1446530 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCCACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCCACTGCCAATGACC
*
1446583 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1446614 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCCACTGCCAATGACC
Found at i:1446646 original size:20 final size:20
Alignment explanation
Indices: 1446601--1446654 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1446591 TACATATTTG
*
1446601 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
1446621 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
1446641 TGTGTATCGATACT
1 TGTGTATCGATACT
1446655 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:1446719 original size:21 final size:21
Alignment explanation
Indices: 1446693--1446733 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1446683 GTCAACCTTG
1446693 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1446714 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1446734 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1450923 original size:79 final size:79
Alignment explanation
Indices: 1450785--1450931 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 79
1450775 AAATAAAAAT
** * *
1450785 TGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAAACCAGAGTTGGAGTAT
1450850 CCCTATGAAAATAA
66 CCCTATGAAAATAA
* * *
1450864 TGGGGTTGGAGTATCCCCGATTGT-GAGAAATTGATGCTTTGGAAATAAAATCAGAGTTGGAGTA
1 TGGGGTTGGAGTATCCCCGATTGTGGA-AAATCGATGCTTTAGAAATAAAACCAGAGTTGGAGTA
1450928 TCCC
65 TCCC
1450932 CGATTGTGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.03
79 58 0.97
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (79 bp):
TGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAAACCAGAGTTGGAGTAT
CCCTATGAAAATAA
Found at i:1450960 original size:51 final size:50
Alignment explanation
Indices: 1450868--1450982 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 50
1450858 AAATAATGGG
* * *
1450868 GTTGGAGTATCCCCGATTGTGAGAAATTGATGCTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATAGAT-CTTTAGAAATAAAATCAGA
* *
1450919 GTTGGAGTATCCCCGATTGTGAAAAACTAGTAT-TTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAA-TAG-ATCTTTAGAAATAAAATCAGA
*
1450970 GTTGAAGTATCCC
1 GTTGGAGTATCCC
1450983 TTCAAAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 52 0.93
52 2 0.04
53 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATAGATCTTTAGAAATAAAATCAGA
Found at i:1453571 original size:20 final size:20
Alignment explanation
Indices: 1453546--1453618 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
1453536 ATGTCTGAAA
1453546 GTATCGATACATTGTAAAAT
1 GTATCGATACATTGTAAAAT
*
1453566 GTATCGATACA--ATAAGCAAT
1 GTATCGATACATTGTAA--AAT
* *
1453586 GTATCGATACAATGCAAAAT
1 GTATCGATACATTGTAAAAT
1453606 GTATCGATACATT
1 GTATCGATACATT
1453619 TGGGTAAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.07
20 40 0.89
22 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCGATACATTGTAAAAT
Found at i:1453669 original size:20 final size:20
Alignment explanation
Indices: 1453643--1453699 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
1453633 ATGTATCGAT
1453643 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1453663 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
1453683 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
1453700 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1453680 original size:13 final size:13
Alignment explanation
Indices: 1453632--1453661 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1453622 GTAAACCTCG
1453632 AATGTATCGATAC
1 AATGTATCGATAC
1453645 AATGTATCGATAC
1 AATGTATCGATAC
1453658 AATG
1 AATG
1453662 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1453696 original size:40 final size:40
Alignment explanation
Indices: 1453546--1453699 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 40
1453536 ATGTCTGAAA
* * *
1453546 GTATCGATACATTGTAAAATGTATCGATACAATAAGCAAT
1 GTATCGATACAATGCAAAATGTATCGATACAATGAGCAAT
* * *
1453586 GTATCGATACAATGCAAAATGTATCGATACATTTGGGTAAACCT
1 GTATCGATACAATGCAAAATGTATCGATACA-ATGAG-CAA--T
* * *
1453630 CGAAT-G-TATCGAT--ACAATGTATCGATACAATGAGCAAT
1 -GTATCGATA-CAATGCAAAATGTATCGATACAATGAGCAAT
1453668 GTATCGATACAATG-AACAATGTATCGATACAA
1 GTATCGATACAATGCAA-AATGTATCGATACAA
1453700 ATTGTGAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
37 3 0.03
38 5 0.06
39 3 0.03
40 46 0.52
41 5 0.06
42 17 0.19
43 2 0.02
44 5 0.06
45 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (40 bp):
GTATCGATACAATGCAAAATGTATCGATACAATGAGCAAT
Found at i:1456147 original size:78 final size:79
Alignment explanation
Indices: 1455987--1456541 Score: 498
Period size: 79 Copynumber: 7.1 Consensus size: 79
1455977 TCATTGATGT
* * * * * * *
1455987 TTTTA-TTTCTAAAACACTGATTTTCCATAATCAGGG-TACTTCAATCCCGTTA-TTTCTAAGGG
1 TTTTATTTTC-AAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
*
1456049 ATACTCCAACCCTGG
65 ATACTCCAACCCTAG
* * * *
1456064 TTTTATTTTCAAAACATTGATTTTTCACAATCAGAGACACTCC-ACCCCGTTATTTTCGAGGGGA
1 TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
1456128 TACTCCAACCCTAG
66 TACTCCAACCCTAG
* * * * * *
1456142 TTTTATTTTCAAAACATTCATTTTCCACCATTGGGGATACTCTAACCCTGTT-TTTTCGAGGGTA
1 TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
**
1456206 TACTCCAACCCCGG
66 TACTCCAACCCTAG
* * * * * *
1456220 TTTTTATTTTTAAAACACTGATTTTCCACAATCGAGGATACTCC-ACCTCGTTATTTTTGAAGGG
1 -TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
1456284 ATACTCCAA-CCTCAG
65 ATACTCCAACCCT-AG
* * * * * * * * *
1456299 TTTTATTTTCCAAACACTGATTTTTCACCATTGCGGATACTCCAACCTCGTTATTTTTGAGGGTA
1 TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*** *
1456364 TACAATAACCCCAG
66 TACTCCAACCCTAG
* * * ** *
1456378 CTTTA-TTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTTGAGGGG
1 TTTTATTTTC-AAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
*
1456442 ATACTCCAA-CCTCAT
65 ATACTCCAACCCT-AG
** * * *** *
1456457 TTTTATTTTTGAAACATCGATTTTCCACCATCGGGGATACTCCAACCTTATTATTTTCAAGGGGA
1 TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
1456522 TACTCTAACCCTAT
66 TACTCCAACCCTAG
1456536 TTTTAT
1 TTTTAT
1456542 CTCCAAAATA
Statistics
Matches: 390, Mismatches: 75, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
77 35 0.09
78 139 0.36
79 208 0.53
80 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTTCAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCTAG
Found at i:1456244 original size:157 final size:155
Alignment explanation
Indices: 1456045--1456532 Score: 561
Period size: 157 Copynumber: 3.1 Consensus size: 155
1456035 GTTATTTCTA
* * *
1456045 AGGG-ATACTCCAACCCTGGTTTTATTTTCAAAACATTGATTTTTCACAATCAGAGACACTCCAC
1 AGGGTATACTCCAACCCCGGTTTTATTTTTAAAACATTGATTTTTCACAATC-GAGATACTCCAC
*
1456109 CCCGTTATTTTCGAGGGGATACTCCAACC-CTAGTTTTATTTTCAAAACATTCATTTTCCACCAT
65 CCCGTTATTTTTGAGGGGATACTCCAACCTC-AGTTTTATTTTCAAAACA-TCATTTTCCACCAT
*
1456173 TGGGGATACTCTAACCCTGTT-TTTTCG
128 TGGGGATACTCCAACCCTGTTATTTTCG
* *
1456200 AGGGTATACTCCAACCCCGGTTTTTATTTTTAAAACACTGATTTTCCACAATCGAGGATACTCCA
1 AGGGTATACTCCAACCCCGG-TTTTATTTTTAAAACATTGATTTTTCACAATCGA-GATACTCCA
* * * * *
1456265 CCTCGTTATTTTTGAAGGGATACTCCAACCTCAGTTTTATTTTCCAAACACTGATTTTTCACCAT
64 CCCCGTTATTTTTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACA-TCATTTTCCACCAT
* *
1456330 TGCGGATACTCCAA-CCTCGTTATTTTTG
128 TGGGGATACTCCAACCCT-GTTATTTTCG
*** * * * * *
1456358 AGGGTATACAATAACCCCAGCTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAA
1 AGGGTATACTCCAACCCCGGTTTTATTTTTAAAACATTGATTTTTCACAATC-GAGATACTCC-A
** * **
1456423 CCCTATTATTTTTGAGGGGATACTCCAACCTCATTTTTATTTTTGAAACATCGATTTTCCACCAT
64 CCCCGTTATTTTTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACATC-ATTTTCCACCAT
* * * *
1456488 CGGGGATACTCCAACCTTATTATTTTCA
128 TGGGGATACTCCAACCCTGTTATTTTCG
* *
1456516 AGGGGATACTCTAACCC
1 AGGGTATACTCCAACCC
1456533 TATTTTTATC
Statistics
Matches: 280, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
155 4 0.01
156 19 0.07
157 144 0.51
158 111 0.40
159 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (155 bp):
AGGGTATACTCCAACCCCGGTTTTATTTTTAAAACATTGATTTTTCACAATCGAGATACTCCACC
CCGTTATTTTTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACATCATTTTCCACCATTGG
GGATACTCCAACCCTGTTATTTTCG
Found at i:1456890 original size:13 final size:13
Alignment explanation
Indices: 1456869--1456899 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1456859 ATACATTATT
*
1456869 CATTTTATCGATA
1 CATTGTATCGATA
1456882 CATTGTATCGATA
1 CATTGTATCGATA
1456895 CATTG
1 CATTG
1456900 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1456891 original size:33 final size:33
Alignment explanation
Indices: 1456849--1456951 Score: 129
Period size: 33 Copynumber: 3.1 Consensus size: 33
1456839 ATACATTGTT
* *
1456849 CATTGTATCGATACATTATTCATTTTATCGATA
1 CATTGTATCGATACATTACTCATTATATCGATA
* *
1456882 CATTGTATCGATACATTGCTCATTGTATC-AGTA
1 CATTGTATCGATACATTACTCATTATATCGA-TA
*
1456915 CATTGTATTGATACA-TAGCTCATTATATCGATA
1 CATTGTATCGATACATTA-CTCATTATATCGATA
1456948 CATT
1 CATT
1456952 TTACAATGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 2 0.03
33 58 0.95
34 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (33 bp):
CATTGTATCGATACATTACTCATTATATCGATA
Found at i:1456907 original size:20 final size:20
Alignment explanation
Indices: 1456831--1456887 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1456821 TTTTCACAAT
1456831 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
1456851 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTGTTCA
*
1456871 TTTTATCGATACATTGT
1 TTGTATCGATACATTGT
1456888 ATCGATACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1456908 original size:20 final size:20
Alignment explanation
Indices: 1456882--1456971 Score: 54
Period size: 20 Copynumber: 4.8 Consensus size: 20
1456872 TTTATCGATA
*
1456882 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGTT
1456902 CATTGTATC-AGTACATTG-T
1 CATTGTATCGA-TACATTGTT
* *
1456921 -A---T-T-GATACATAGCT
1 CATTGTATCGATACATTGTT
*
1456935 CATTATATCGATACATT-TT
1 CATTGTATCGATACATTGTT
*
1456954 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
1456972 TAGGCATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
13 6 0.11
14 3 0.05
15 2 0.04
18 2 0.04
19 4 0.07
20 38 0.69
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
CATTGTATCGATACATTGTT
Found at i:1463662 original size:60 final size:59
Alignment explanation
Indices: 1463426--1465073 Score: 1902
Period size: 55 Copynumber: 28.3 Consensus size: 59
1463416 TTAGCCCTTC
* * *
1463426 CAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-T
* * *
1463481 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1463541 CTAGTCCTCAAAGAGCAGGATGC-----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 C-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-T
* * * *
1463597 CAGTCCTTAAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGCCATTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1463656 CTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTT
1 C-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1463716 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTT
* *
1463776 CCAGTCCTCAAAGAGCAGGACAC---TTC--TTAAAGCCCACATAAGTTGGTGGCACCTTT
1 -CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTT
* * * * *
1463832 CAGTCCCCAAAGAGTAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
*
1463886 CCAGTCCTCAAAGAGCAGGACAC-----CTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 -CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1463941 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 -CAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464002 CTAGTCCTCAAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 C-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * * * *
1464062 CAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464121 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTT
* * * *
1464181 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1464241 CTAGTCCTCAAAGAGCGGGACGTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 C-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * * *
1464301 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * * *
1464360 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464419 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTT
* * * *
1464479 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464539 CTAGTCCTCAAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 C-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * * *
1464599 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464658 CAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTT
*
1464719 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTT
* * ** *
1464780 CAGTCCCCAAAGAGCAGGAC-C----CCTTTCGAAGCCCACACAAGTTGGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1464834 CCAGTCCTCAAAGAGCAGGACAC-----CTCTTAAAGCCCACACAAGTTGATGGCACCTTT
1 -CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTT
* * * * *
1464890 TAGTCCCCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1464944 CCAGTCCTCAAAAAGCAGGACAC-----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 -CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTT
* * **
1465000 CAGTCCTCAAAGAGCAAGACGC-----CTTTCAAAGCCCACATGAGTTGGTGGCACTTTT
1 CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT
*
1465055 TAGTCCTCAAAGAGCAGGA
1 CAGTCCTCAAAGAGCAGGA
1465074 TACACTTTAT
Statistics
Matches: 1431, Mismatches: 121, Indels: 82
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.00
54 10 0.01
55 424 0.30
56 20 0.01
58 3 0.00
59 342 0.24
60 375 0.26
61 256 0.18
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
Found at i:1464213 original size:239 final size:237
Alignment explanation
Indices: 1463426--1465073 Score: 2020
Period size: 239 Copynumber: 7.1 Consensus size: 237
1463416 TTAGCCCTTC
*
1463426 CAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGT
* *
1463485 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
64 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
* *
1463550 AAAGAGCAGGATGC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTTAAAGA
129 AAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGA
* * *
1463610 GCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGCCATTTT
192 GCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
*
1463656 CTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCAGTC
1 C-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
* * * * *
1463721 CTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTC
65 CTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
* * *
1463785 AAAGAGCAGGACAC--TTC--TTAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
129 AAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAG
** * *
1463846 TAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
193 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1463886 CCAGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
1 -CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
1463946 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
64 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
*
1464011 AAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
129 AAAGAGCAGGACGC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
* * *
1464076 CGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
193 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464121 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTC
*
1464186 CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCCTCA
65 CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCA
* *
1464251 AAGAGCGGGACGTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
130 AAGAGCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
* *
1464316 GGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
194 GGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464360 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCC
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * * **
1464425 TCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCA
66 TCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCA
* * **
1464488 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCCTCAAAGA
130 AAGAGCAGGACG-CTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGA
* *
1464553 GCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
192 GCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* *
1464599 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCC
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * * * *
1464664 TCAAAGAGTAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTC
66 TCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTC
* *
1464727 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAG
129 AAAGAGCAGGACGC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAG
* ** *
1464792 AGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTT
191 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * *
1464834 CCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGATGGCACCTTTTAGT
1 -CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * *
1464894 CCCCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
64 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
* * *
1464953 AAAAAGCAGGACAC----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
129 AAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAG
** **
1465014 CAAGACGCC-TTTC----AAAGCCCACATGAGTTGGTGGCACTTTT
193 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT
*
1465055 TAGTCCTCAAAGAGCAGGA
1 CAGTCCTCAAAGAGCAGGA
1465074 TACACTTTAT
Statistics
Matches: 1271, Mismatches: 99, Indels: 106
0.86 0.07 0.07
Matches are distributed among these distances:
220 84 0.07
221 9 0.01
224 1 0.00
225 34 0.03
226 107 0.08
227 9 0.01
229 4 0.00
230 66 0.05
231 78 0.06
232 23 0.02
233 5 0.00
234 32 0.03
235 157 0.12
236 44 0.03
237 36 0.03
238 102 0.08
239 387 0.30
240 90 0.07
241 3 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (237 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAA
AGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
Found at i:1465852 original size:19 final size:18
Alignment explanation
Indices: 1465826--1465926 Score: 78
Period size: 19 Copynumber: 6.0 Consensus size: 18
1465816 AATTTAAGCG
1465826 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
1465844 ATGTTGTATCGAT--AT-A
1 AT-TTGTATCGATACATAA
*
1465860 A--TGTATCGATACTTAA
1 ATTTGTATCGATACATAA
*
1465876 GTATTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
1465892 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
1465908 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
1465927 TTAGCTACTG
Statistics
Matches: 66, Mismatches: 4, Indels: 25
0.69 0.04 0.26
Matches are distributed among these distances:
13 20 0.30
15 1 0.02
16 5 0.08
17 2 0.03
18 2 0.03
19 36 0.55
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:1465865 original size:32 final size:32
Alignment explanation
Indices: 1465829--1465923 Score: 154
Period size: 32 Copynumber: 3.0 Consensus size: 32
1465819 TTAAGCGATT
* * *
1465829 TGTATCGATACATAAATGTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1465861 TGTATCGATACTTAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1465893 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1465924 TAATTAGCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1465903 original size:13 final size:13
Alignment explanation
Indices: 1465848--1465904 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1465838 ACATAAATGT
*
1465848 TGTATCGATATAA
1 TGTATCGATACAA
1465861 TGTATCGATACTTAAGTA
1 TGTATCGATAC---A--A
1465879 TTGTATCGATACAA
1 -TGTATCGATACAA
1465893 TGTATCGATACA
1 TGTATCGATACA
1465905 TAAGTATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1465955 original size:34 final size:34
Alignment explanation
Indices: 1465912--1465992 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
1465902 ACATAAGTAT
1465912 TGTATCGATACATAATTAGCTACTGCCAAGGGAA
1 TGTATCGATACATAATTAGCTACTGCCAAGGGAA
1465946 TGTATCGATACATAATTAGCTACTGCCAAGGGAA
1 TGTATCGATACATAATTAGCTACTGCCAAGGGAA
1465980 TGTATCGATACAT
1 TGTATCGATACAT
1465993 TTTTCTGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (34 bp):
TGTATCGATACATAATTAGCTACTGCCAAGGGAA
Found at i:1466018 original size:13 final size:13
Alignment explanation
Indices: 1466000--1466025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1465990 CATTTTTCTG
1466000 TGTATCGATACAT
1 TGTATCGATACAT
1466013 TGTATCGATACAT
1 TGTATCGATACAT
1466026 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1466043 original size:34 final size:33
Alignment explanation
Indices: 1465980--1466046 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1465970 GCCAAGGGAA
*
1465980 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1466013 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1466047 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1468433 original size:51 final size:53
Alignment explanation
Indices: 1468364--1468494 Score: 178
Period size: 51 Copynumber: 2.5 Consensus size: 53
1468354 AGTTTCTCAA
* * * *
1468364 TTCTCCACAATCCGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAAT
*
1468415 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACCAAT
1468469 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
1468495 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.03
51 34 0.49
53 9 0.13
54 21 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAAT
Found at i:1468633 original size:53 final size:52
Alignment explanation
Indices: 1468548--1468734 Score: 197
Period size: 53 Copynumber: 3.6 Consensus size: 52
1468538 AAAATATTGA
* * *
1468548 TTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
1 TTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATT-CTAAAACACCAATT
*
1468601 TTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATT
1 TTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTCT-AAAACACCAATT
** *
1468654 TTCCTTT---AATCGGGGATACTCCAA-CTCTAATTTTATTTCCAAAAACACCAA--
1 TT--TTTCACAATCGGGGATACTCCAACCTC-GGTTTTA-TT-CTAAAACACCAATT
*
1468705 TTTTTCACAATCGAGGATACTCCAACCTCG
1 TTTTTCACAATCGGGGATACTCCAACCTCG
1468735 TTATTTCATC
Statistics
Matches: 114, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
49 3 0.03
51 5 0.04
52 39 0.34
53 64 0.56
55 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
TTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTCTAAAACACCAATT
Found at i:1468688 original size:52 final size:52
Alignment explanation
Indices: 1468509--1468733 Score: 179
Period size: 53 Copynumber: 4.3 Consensus size: 52
1468499 TTATTTCCGA
* * * * *** * *
1468509 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCTCAATTTTATTTCCAAAAACACCAATTTTCCACAATC
* ** * * * *
1468560 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTCACAATC
1 GGGGATACTCCAACCTCAATTTTATTTCCAAAAACACCAA--TTTTCCACAATC
** * **
1468613 GGGGATACTCCAACCTCGGTTTTATTTTC-AAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCAATTTTATTTCCAAAAACACCAATTTTCC-ACAATC
*
1468665 GGGGATACTCCAA-CTCTAATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCTC-AATTTTATTTCCAAAAACACCAATTTTCCACAATC
*
1468717 GAGGATACTCCAACCTC
1 GGGGATACTCCAACCTC
1468734 GTTATTTCAT
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
50 3 0.02
51 37 0.25
52 42 0.29
53 61 0.42
54 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCTCAATTTTATTTCCAAAAACACCAATTTTCCACAATC
Found at i:1468924 original size:78 final size:79
Alignment explanation
Indices: 1468749--1468947 Score: 206
Period size: 78 Copynumber: 2.5 Consensus size: 79
1468739 TTCATCGGAA
* * *
1468749 ATACTCCAACCCCGTTA-CTTCGGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGAT
1 ATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGATTTATTCCCAAAATATCGAT
* **
1468813 TTCTCATAATTGGGG
65 TTCTCACAACCGGGG
* * * ** *
1468828 ATACTCCAACCCCATTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCATCGAT
1 ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-ATCGAT
1468891 TTCTCACAACCGGGG
65 TTCTCACAACCGGGG
* * * * *
1468906 ATACTCCAGCCCCGTTATTTTCAAGGGAACATTCCAACCCCG
1 ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1468948 TTATTATCTC
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
77 3 0.03
78 58 0.59
79 34 0.35
80 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATATCGATT
TCTCACAACCGGGG
Found at i:1477855 original size:11 final size:10
Alignment explanation
Indices: 1477836--1477885 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
1477826 CCTTTTTTTT
1477836 AAAAAA-AAA
1 AAAAAACAAA
*
1477845 ACAAAACAAA
1 AAAAAACAAA
1477855 AAAACAAC-AA
1 AAAA-AACAAA
*
1477865 AAAAAAGAAA
1 AAAAAACAAA
*
1477875 AAAAAAGAAA
1 AAAAAACAAA
1477885 A
1 A
1477886 GAATCTACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 7 0.20
10 25 0.71
11 3 0.09
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:1477857 original size:13 final size:12
Alignment explanation
Indices: 1477836--1477880 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
1477826 CCTTTTTTTT
1477836 AAAAAAAAAACA
1 AAAAAAAAAACA
1477848 AAACAAAAAAACA
1 AAA-AAAAAAACA
* *
1477861 ACAAAAAAAAGA
1 AAAAAAAAAACA
1477873 AAAAAAAA
1 AAAAAAAA
1477881 GAAAAGAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:1477857 original size:16 final size:15
Alignment explanation
Indices: 1477836--1477877 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
1477826 CCTTTTTTTT
1477836 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
*
1477851 CAAAAAAACAACAAAA
1 -AAAAAAAAAACAAAA
1477867 AAAAGAAAAAA
1 AAAA-AAAAAA
1477878 AAAGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:1478981 original size:61 final size:60
Alignment explanation
Indices: 1478805--1479310 Score: 475
Period size: 61 Copynumber: 8.3 Consensus size: 60
1478795 ACCTTTTATC
* * * * * *
1478805 CTTTCAGTCTTCAAAGAGTAGGACAC--TTTCCTTTCAAAGCTCACACAAGTTGGTGGCG
1 CTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1478863 CCTTCTAGTCCTCAAAAAGCAGGATGCCTTTTCC-TTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1478923 CTTTCCAGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1478984 CCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCTCACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1479045 CCTTTCAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1479106 CCTTTCAATCCTCAAAAAGCAGGATGC--TTTCCTTTCAAAGCCCACATAAGTTGGTCGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
1479165 CCTTCCGGTCCTGAAAGAGTAGGAC-ATTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCTTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
1479226 CCTTCTAGTCCCCAAAGAGCAGGACACTTTCCTTTTTCCTCTAAAAGCCGACACAAGTTGGCGGC
1 CTTTC-AGTCCTCAAAGAGCAGG--AC---GCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1479291 A
60 A
* *
1479292 CCTTTTAGTCCTTAAAGAG
1 -CTTTCAGTCCTCAAAGAG
1479311 AAAGACGTGC
Statistics
Matches: 370, Mismatches: 61, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
58 4 0.01
59 62 0.17
60 55 0.15
61 200 0.54
62 4 0.01
63 2 0.01
66 36 0.10
67 7 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (60 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1479080 original size:122 final size:121
Alignment explanation
Indices: 1478804--1479310 Score: 553
Period size: 122 Copynumber: 4.2 Consensus size: 121
1478794 AACCTTTTAT
* * *
1478804 CCTTTCAGTCTTCAAAGAGTAGGACAC-TTTCCTTTCAAAGCTCACACAAGTTGGTGGCGCCTTC
1 CCTTTCAGTCCTCAAAGAGTAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
** *
1478868 TAGTCCTCAAAAAGCAGGATGCCTTTTCC-TTTAAAGCCCACACAAGTTGGTGGCA
66 TAGTCCTCAAAAAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1478923 -CTTTCCAGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCACCT
1 CCTTT-CAGTCCTCAAAGAGTAGGACAC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
1478987 T-TCAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCTCACAAGTTGGTGGCA
64 TCT-AGTCCTCAAAAAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1479045 CCTTTCAGTCCTCAAAGAGTAAGATGC-CTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCT
1 CCTTTCAGTCCTCAAAGAGTAGGA--CACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* ** * * *
1479109 T-TCAATCCTCAAAAAGCAGGATGC--TTTCCTTTCAAAGCCCACATAAGTTGGTCGCA
64 TCT-AGTCCTCAAAAAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1479165 CCTTCCGGTCCTGAAAGAGTAGGACATTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGTAGGACACTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * *
1479230 CTAGTCCCCAAAGAGCAGGACACTTTCCTTTTTCCTCTAAAAGCCGACACAAGTTGGCGGCA
65 CTAGTCCTCAAAAAGCAGGACA-----CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1479292 CCTTTTAGTCCTTAAAGAG
1 CCTTTCAGTCCTCAAAGAG
1479311 AAAGACGTGC
Statistics
Matches: 325, Mismatches: 45, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
118 5 0.02
119 23 0.07
120 95 0.29
121 57 0.18
122 97 0.30
123 5 0.02
124 1 0.00
125 1 0.00
127 41 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (121 bp):
CCTTTCAGTCCTCAAAGAGTAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
TAGTCCTCAAAAAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1479228 original size:242 final size:242
Alignment explanation
Indices: 1478804--1479316 Score: 671
Period size: 242 Copynumber: 2.1 Consensus size: 242
1478794 AACCTTTTAT
* * *
1478804 CCTTTCAGTCTTCAAAGAGTAGGACACTTTCCTTTCAAAGCTCACACAAGTTGGTGGCGCCTTCT
1 CCTTTCAGTCCTCAAAGAGTAAGACACTTTCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTCT
* * *
1478869 AGTCCTCAAAAAGCAGGATGCCTTTTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCC
66 AATCCTCAAAAAGCAGGATGCCTTTTCCTTTAAAGCCCACACAAGTTGGTCGCACCTTCCAGTCC
* ** * *
1478934 TCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCACCTT-TCAGTCCTCA
131 TCAAAGAGTAGGACGATTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCCCA
* * * *
1478998 AAGAGCAGGACA-CTTTTTCCTTTTAAAGCCCTCACAAGTTGGTGGCA
195 AAGAGCAGGACATCTTTTTCCTCTAAAAGCCCACACAAGTTGGCGGCA
*
1479045 CCTTTCAGTCCTCAAAGAGTAAGATGC-CTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCT
1 CCTTTCAGTCCTCAAAGAGTAAGA--CAC-TTTCCTTTCAAAGCTCACACAAGTTGGTGGCACCT
*
1479109 T-TCAATCCTCAAAAAGCAGGATG-C-TTTCCTTTCAAAGCCCACATAAGTTGGTCGCACCTTCC
63 TCT-AATCCTCAAAAAGCAGGATGCCTTTTCCTTT-AAAGCCCACACAAGTTGGTCGCACCTTCC
* *
1479171 GGTCCTGAAAGAGTAGGAC-ATTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
126 AGTCCTCAAAGAGTAGGACGATTTT-TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
*
1479235 CCCCAAAGAGCAGGACACTTTCCTTTTTCCTCTAAAAGCCGACACAAGTTGGCGGCA
190 CCCCAAAGAGCAGGACA---T-CTTTTTCCTCTAAAAGCCCACACAAGTTGGCGGCA
* * *
1479292 CCTTTTAGTCCTTAAAGAGAAAGAC
1 CCTTTCAGTCCTCAAAGAGTAAGAC
1479317 GTGCTTCATT
Statistics
Matches: 237, Mismatches: 23, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
241 34 0.14
242 96 0.41
243 55 0.23
245 1 0.00
247 51 0.22
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (242 bp):
CCTTTCAGTCCTCAAAGAGTAAGACACTTTCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTCT
AATCCTCAAAAAGCAGGATGCCTTTTCCTTTAAAGCCCACACAAGTTGGTCGCACCTTCCAGTCC
TCAAAGAGTAGGACGATTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAA
AGAGCAGGACATCTTTTTCCTCTAAAAGCCCACACAAGTTGGCGGCA
Found at i:1479444 original size:42 final size:43
Alignment explanation
Indices: 1479332--1479570 Score: 226
Period size: 42 Copynumber: 5.7 Consensus size: 43
1479322 TCATTTCCTT
* * *
1479332 CTTTTTC-CCTTTGTCCTTAAAGAATAAGACACACTTTACTTT-
1 CTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTTA-TTTC
**
1479374 C-TTTTC-CCTTTGTCCTCAAAGAACAGGACACACTTTATTT-
1 CTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTTATTTC
* *
1479414 CTTTTTCTCCTTTGTTCTCAATGAGTAGGACACA-TTTAATTTC
1 CTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTT-ATTTC
* * * * *
1479457 CTTTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTTATTTC
1 CTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTTATTTC
** *
1479500 CTTCTTT-T-CTTTGTCCTCAAAGAGTAGGATGCATTTTATTTC
1 CTT-TTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTTATTTC
* * *
1479542 CTTTTT-TACTTTGTCCTCGAAGAGCAGGA
1 CTTTTTCTCCTTTGTCCTCAAAGAGTAGGA
1479571 TGTACTCATT
Statistics
Matches: 172, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
40 4 0.02
41 45 0.26
42 80 0.47
43 37 0.22
44 6 0.03
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.44
Consensus pattern (43 bp):
CTTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTTATTTC
Found at i:1479496 original size:85 final size:85
Alignment explanation
Indices: 1479324--1479570 Score: 254
Period size: 85 Copynumber: 2.9 Consensus size: 85
1479314 GACGTGCTTC
* * * * *
1479324 ATTTCCTTCTTTTTCCCTTTGTCCTTAAAGAATAAGACACACTTTACTTT-C--TTTTCCCTTTG
1 ATTTCCTTC-TTTT--CTTTGTCCTCAAAGAGTAGGACACA-TTTAATTTCCTTTTTTTCCTTTG
*
1479386 TCCTCAAAGAACAGGACACACTTT
62 TCCTCAAAGAGCAGGACACACTTT
* *
1479410 ATTT-CTT-TTTCTCCTTTGTTCTCAATGAGTAGGACACATTTAATTTCCTTTTTTTCCTTTGTC
1 ATTTCCTTCTTT-T-CTTTGTCCTCAAAGAGTAGGACACATTTAATTTCCTTTTTTTCCTTTGTC
* * *
1479473 CTCAAAGAGCATGACGCATTTT
64 CTCAAAGAGCAGGACACACTTT
** * *
1479495 ATTTCCTTCTTTTCTTTGTCCTCAAAGAGTAGGATGCATTTTATTTCC-TTTTTTACTTTGTCCT
1 ATTTCCTTCTTTTCTTTGTCCTCAAAGAGTAGGACACATTTAATTTCCTTTTTTTCCTTTGTCCT
*
1479559 CGAAGAGCAGGA
66 CAAAGAGCAGGA
1479571 TGTACTCATT
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
82 7 0.05
83 25 0.18
84 26 0.19
85 67 0.49
86 8 0.06
87 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (85 bp):
ATTTCCTTCTTTTCTTTGTCCTCAAAGAGTAGGACACATTTAATTTCCTTTTTTTCCTTTGTCCT
CAAAGAGCAGGACACACTTT
Found at i:1479603 original size:77 final size:74
Alignment explanation
Indices: 1479504--1479680 Score: 232
Period size: 75 Copynumber: 2.4 Consensus size: 74
1479494 TATTTCCTTC
** * *
1479504 TTTT-CTTTGTCCTCAAAGAGTAGGATGCATTTTATTTCCTTTTTTACTTTGTCCTCGAAGAGCA
1 TTTTCCTTTGTCCTCAAAGAGTAGGACCCATTTCA--ACCTTTTTTACTTTGTCCTCGAAGAGCA
1479568 GGATGTACTCA
64 GGATGTACTCA
*
1479579 TTTTTCCTTTGTCCTC-AAGAAGTAGGACCCATTTCAACCTTTTTTTCTTTGTCCTCGAAGAGCA
1 -TTTTCCTTTGTCCTCAAAG-AGTAGGACCCATTTCAACCTTTTTTACTTTGTCCTCGAAGAGCA
* *
1479643 GGATGTGCTTA
64 GGATGTACTCA
*
1479654 TTTTCCTTTGTCCTCAAAGAGCAGGAC
1 TTTTCCTTTGTCCTCAAAGAGTAGGAC
1479681 GCCCTTTCCT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
74 22 0.24
75 38 0.42
76 7 0.08
77 23 0.26
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (74 bp):
TTTTCCTTTGTCCTCAAAGAGTAGGACCCATTTCAACCTTTTTTACTTTGTCCTCGAAGAGCAGG
ATGTACTCA
Found at i:1482917 original size:79 final size:77
Alignment explanation
Indices: 1482698--1482986 Score: 286
Period size: 79 Copynumber: 3.7 Consensus size: 77
1482688 TTTTCTACCT
* **
1482698 TCGGGGATACTCCAACCCCA-TTA-TTTCGAGGGTATACTTCAACCTCAATTTTTATTTCTTAAA
1 TCGGGGATACTCCAA-CCCAGTTATTTTCGAGGGGATAC-TCAACCTC-GGTTTTATTT-TTAAA
*
1482761 CACTC-ATTTTCCATAA
62 CA-TCAATTTTCCACAA
** * *
1482777 TCAAGGATACTCCAACCC--TT-TTTTCGAGGGGATACTCTAA-CTCCGGCTTTATTTCTAAAAC
1 TCGGGGATACTCCAACCCAGTTATTTTCGAGGGGATACTC-AACCT-CGGTTTTATTT-TTAAAC
*
1482838 ATCAATTTTTCACAA
63 ATCAATTTTCCACAA
* *
1482853 TCGGGGATACTCCAATCCAGTTATTTTTGAGGGGATACTCAAACCTCGGTTTTATTTTTGAAACA
1 TCGGGGATACTCCAACCCAGTTATTTTCGAGGGGATACTC-AACCTCGGTTTTATTTTT-AAACA
* *
1482918 TCAGTTTTCCACCA
64 TCAATTTTCCACAA
* * *
1482932 TCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCTCGTTTTTAT
1 TCGGGGATACTCCAACCCAGTTATTTTCGAGGGGATACT-CAACCTCGGTTTTAT
1482987 CTCCAAAATA
Statistics
Matches: 176, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
75 2 0.01
76 42 0.24
77 18 0.10
78 6 0.03
79 105 0.60
80 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (77 bp):
TCGGGGATACTCCAACCCAGTTATTTTCGAGGGGATACTCAACCTCGGTTTTATTTTTAAACATC
AATTTTCCACAA
Found at i:1487582 original size:71 final size:71
Alignment explanation
Indices: 1487465--1487604 Score: 183
Period size: 71 Copynumber: 2.0 Consensus size: 71
1487455 ATTATTTTCA
* * *
1487465 AGGGGATACTCCAACTCCAGCTTTATTTTTAAAACACTGATTTTCCACAATCGAGAATACTCCAA
1 AGGGGATACTCCAACTCCAGCTTTATTTCTAAAACACCGATATTCCACAATCGAGAATACTCCAA
1487530 CCCCTG
66 CCCCTG
* * * * * *
1487536 AGGGGATACTCCAACCTCGA-TTTTATTTCTAAAACACCGGTATTCCATAATCGGGGATACTCCA
1 AGGGGATACTCCAA-CTCCAGCTTTATTTCTAAAACACCGATATTCCACAATCGAGAATACTCCA
1487600 ACCCC
65 ACCCC
1487605 GTTATTTTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 55 0.93
72 4 0.07
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (71 bp):
AGGGGATACTCCAACTCCAGCTTTATTTCTAAAACACCGATATTCCACAATCGAGAATACTCCAA
CCCCTG
Found at i:1487669 original size:79 final size:77
Alignment explanation
Indices: 1487535--1487806 Score: 328
Period size: 79 Copynumber: 3.4 Consensus size: 77
1487525 TCCAACCCCT
** * * * *
1487535 GAGGGGATACTCCAACCTCGATTTTATTTCTAAAACACCGGTATTCCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACC-CGATTTTATTTCTAAAACATTGATTTTCCA-CATCGGGGATACTCTA
1487600 ACCCCGTTATTTTC
64 ACCCCGTTATTTTC
* *
1487614 GAGGGGATACTCCAAGCCCGACTTTATTTCTAAAACATTGATTTTTCACATTCGGGGATACTCTA
1 GAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACATTGATTTTCCACA-TCGGGGATACTCTA
*
1487679 ACCCCGTTATTTTT
64 ACCCCGTTATTTTC
** *
1487693 GAAAGGATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGGGGATACTCTA
1 GAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACATTGATTTTCCA-CATCGGGGATACTCTA
*
1487758 ACCCCGTTATTTCC
64 ACCCCGTTATTTTC
* * * *
1487772 AAGGGAATACTCCAACCTCGTTTTTATCTCTAAAA
1 GAGGGGATACTCCAACC-CGATTTTATTTCTAAAA
1487807 TATTAAAAAT
Statistics
Matches: 165, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.02
79 158 0.96
80 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (77 bp):
GAGGGGATACTCCAACCCGATTTTATTTCTAAAACATTGATTTTCCACATCGGGGATACTCTAAC
CCCGTTATTTTC
Found at i:1494078 original size:155 final size:155
Alignment explanation
Indices: 1493788--1494089 Score: 351
Period size: 155 Copynumber: 1.9 Consensus size: 155
1493778 CGATTTTAAA
* * *
1493788 AAAATTACAAAAATACCCCTAGGGGATACATTCAACGTAGAAGTACTCGGCACCCCTAAAAGGCT
1 AAAATTACAAAAATACCCCAAGGGGATACATTCAACGTAGAAGTACTCGACACCCCTAAAAGACT
* * *
1493853 TAAAAAGGATTATAGATGGGATGAACTTATCATAAATACCCGACATCGGCATAAAAGCAAACTCG
66 TAAAAAGGATTATAAATGGGATGAACCTATCATAAATACCCGACATCGGCATAAAAGCAAACTCC
1493918 ATGACAACCTAAGACTCAATTTTGG
131 ATGACAACCTAAGACTCAATTTTGG
* * ** * * *
1493943 AAAATTACAAAAATATCCCAAGGGGATACCTTTGACTTAGAGGTAC-CTGATACCCCT-AAAGAA
1 AAAATTACAAAAATACCCCAAGGGGATACATTCAACGTAGAAGTACTC-GACACCCCTAAAAG-A
* * * * * **
1494006 CTTAAAAATGATTATAAATGGGATGAACCTATCTTAAATGCCC-AGCTTTGGCATAAAAGCGGA-
64 CTTAAAAAGGATTATAAATGGGATGAACCTATCATAAATACCCGA-CATCGGCATAAAAGCAAAC
*
1494069 TCCATTGACAACCTAGGACTC
128 TCCA-TGACAACCTAAGACTC
1494090 GATTCTAAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
154 9 0.07
155 113 0.93
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
AAAATTACAAAAATACCCCAAGGGGATACATTCAACGTAGAAGTACTCGACACCCCTAAAAGACT
TAAAAAGGATTATAAATGGGATGAACCTATCATAAATACCCGACATCGGCATAAAAGCAAACTCC
ATGACAACCTAAGACTCAATTTTGG
Found at i:1494390 original size:12 final size:13
Alignment explanation
Indices: 1494373--1494401 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1494363 AAAAAATAAT
1494373 TTTTATTTT-TTA
1 TTTTATTTTATTA
1494385 TTTTATTTTATTA
1 TTTTATTTTATTA
1494398 TTTT
1 TTTT
1494402 TTTATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:1495275 original size:13 final size:15
Alignment explanation
Indices: 1495257--1495289 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
1495247 TTAATTTTTC
1495257 TTTTTTTCT-TCT-T
1 TTTTTTTCTCTCTAT
1495270 TTTTTTTCTCTCTAT
1 TTTTTTTCTCTCTAT
1495285 TTTTT
1 TTTTT
1495290 CTCACCTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 3 0.17
15 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTCTCTCTAT
Found at i:1497874 original size:52 final size:51
Alignment explanation
Indices: 1497817--1497935 Score: 157
Period size: 52 Copynumber: 2.3 Consensus size: 51
1497807 AATTACCTGC
**
1497817 ATGTATCGATACATTAAAGAATGTATCGATATGTTTAGGTCAAAAACCCAAA
1 ATGTATCGATACATTAAA-AATGTATCGATACATTTAGGTCAAAAACCCAAA
* * *
1497869 ATGTATCGATATAATGAAAAATGTATCGATACATTTAGGTCGAAAACCCAAA
1 ATGTATCGATA-CATTAAAAATGTATCGATACATTTAGGTCAAAAACCCAAA
**
1497921 ATCCATCGATACATT
1 ATGTATCGATACATT
1497936 TTCTTTCCAG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.04
52 50 0.88
53 5 0.09
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTAAAAATGTATCGATACATTTAGGTCAAAAACCCAAA
Found at i:1498922 original size:20 final size:20
Alignment explanation
Indices: 1498877--1498967 Score: 132
Period size: 19 Copynumber: 4.7 Consensus size: 20
1498867 ATAGCCAAAC
**
1498877 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1498897 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
**
1498916 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1498936 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1498955 TTGTATCGATACA
1 TTGTATCGATACA
1498968 TTGGCTTGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
19 34 0.54
20 29 0.46
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1498931 original size:39 final size:39
Alignment explanation
Indices: 1498877--1498967 Score: 182
Period size: 39 Copynumber: 2.3 Consensus size: 39
1498867 ATAGCCAAAC
1498877 TTGTATCGATACACAAAGTATGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAGTATGTATCGATACACAAAAAA
1498916 TTGTATCGATACACAAAGTATGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAGTATGTATCGATACACAAAAAA
1498955 TTGTATCGATACA
1 TTGTATCGATACA
1498968 TTGGCTTGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (39 bp):
TTGTATCGATACACAAAGTATGTATCGATACACAAAAAA
Found at i:1503033 original size:15 final size:15
Alignment explanation
Indices: 1503013--1503043 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1503003 TAAAAATGTC
*
1503013 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1503028 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1503043 C
1 C
1503044 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1505142 original size:13 final size:13
Alignment explanation
Indices: 1505124--1505161 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1505114 CATTTTTCTT
1505124 TGTATCGATACAA
1 TGTATCGATACAA
*
1505137 TGTATCGATACAC
1 TGTATCGATACAA
1505150 TGTATCGATACA
1 TGTATCGATACA
1505162 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1505314 original size:20 final size:20
Alignment explanation
Indices: 1505273--1505318 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1505263 AACTCTTTTG
1505273 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTT-ACTT
*
1505294 CAAATTACTTCGTTTTT-CTT
1 CAAAATACTT-GTTTTTACTT
1505314 CAAAA
1 CAAAA
1505319 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (20 bp):
CAAAATACTTGTTTTTACTT
Found at i:1507743 original size:20 final size:20
Alignment explanation
Indices: 1507698--1507749 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1507688 GTAGCCAAAC
**
1507698 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1507718 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1507737 TTGTATCGATACA
1 TTGTATCGATACA
1507750 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1509935 original size:33 final size:33
Alignment explanation
Indices: 1509898--1509964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1509888 TTCAACGATC
1509898 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1509931 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1509964 T
1 T
1509965 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1509936 original size:13 final size:13
Alignment explanation
Indices: 1509918--1509942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1509908 CATAAAATGT
1509918 TGTATCGATACAA
1 TGTATCGATACAA
1509931 TGTATCGATACA
1 TGTATCGATACA
1509943 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1510026 original size:13 final size:13
Alignment explanation
Indices: 1510008--1510032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1509998 ATTACTCACA
1510008 TGTATCGATACAT
1 TGTATCGATACAT
1510021 TGTATCGATACA
1 TGTATCGATACA
1510033 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1510169 original size:52 final size:52
Alignment explanation
Indices: 1510041--1510161 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1510031 CACTGATCTT
*
1510041 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1510093 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1510145 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1510162 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1514912 original size:52 final size:50
Alignment explanation
Indices: 1514855--1514977 Score: 156
Period size: 52 Copynumber: 2.4 Consensus size: 50
1514845 ACTATACATT
* * * *
1514855 GAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATGTATCGATGCAA
1 GAAGAATGTATCAATACATTTGGATC-AAAACCCAAAATGTATCAATACAA
*
1514906 CGAAGAATGTATCGATACATTTGGATCAAAACCCAAAATGTATCAATACAA
1 -GAAGAATGTATCAATACATTTGGATCAAAACCCAAAATGTATCAATACAA
* * *
1514957 TAAAAATGCATCAATACATTT
1 GAAGAATGTATCAATACATTT
1514978 TCTTTCAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 17 0.27
51 21 0.34
52 24 0.39
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (50 bp):
GAAGAATGTATCAATACATTTGGATCAAAACCCAAAATGTATCAATACAA
Found at i:1515687 original size:52 final size:52
Alignment explanation
Indices: 1515619--1515938 Score: 243
Period size: 52 Copynumber: 6.1 Consensus size: 52
1515609 ATGTGACACA
* * * *
1515619 GGACTAAAAGACGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATT
1 GGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* * * * **
1515671 AGACTTAAAAATGATAAAAGGTGCCAATATGTTGTTTCAAGGCCAGTGACATT
1 GGACTTAAAGATGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* * * * ** *
1515724 GGACTTAAAGATGATAAAGGTACCAATATGTTGGTTCAATGCCAGTGATATT
1 GGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* * * * ** *
1515776 -GATCTTAAAGGT-A-ACAAGAATGCCAATGTGCTGAATCAAGGTTAAGGACATT
1 GGA-CTTAAAGATGATA-AAG-GTGCCAATATGCTGATTCAAGGCCAACGACATT
* * * * * *
1515828 AGATTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCCAGCAATATT
1 GGACTTAAAGATGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* * * **
1515881 GGACTAAAAAATGA-CAAGAGTGCCAACGTGCTGATTCAAGGCCAACGACATT
1 GGACTTAAAGATGATAAAG-GTGCCAATATGCTGATTCAAGGCCAACGACATT
1515933 GGACTT
1 GGACTT
1515939 TGGAAAGAGG
Statistics
Matches: 206, Mismatches: 53, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
50 1 0.00
51 8 0.04
52 113 0.55
53 81 0.39
54 2 0.01
55 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (52 bp):
GGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
Found at i:1515905 original size:105 final size:103
Alignment explanation
Indices: 1515586--1515922 Score: 309
Period size: 105 Copynumber: 3.2 Consensus size: 103
1515576 CTTGTCAAAT
* * * * * * *
1515586 GTGCTAATGTGCAGATTCAAGGCATGTGACA-CAGGACTAAAAGACGATAAAGGTGCCAATGTGC
1 GTGCCAATGTGCTGATTCAAGGCAAGTGACATTA-GACTTAAAGATGATAAAGGTGCCAATATGC
* * * *
1515650 TGATTCAAGGCCAACAACATTAGACTTAAAAATGATAAAA
65 TGATTCAAGGCCAGCAATATT-GACTTAAAAATGACAAGA
* * * * * * *
1515690 GGTGCCAATATGTTGTTTCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTACCAATATGT
1 -GTGCCAATGTGCTGATTCAAGGCAAGTGACATTAGACTTAAAGATGATAAAGGTGCCAATATGC
* * ** ** *
1515755 TGGTTCAATGCCAGTGATATTGATCTTAAAGGTAACAAGA
65 TGATTCAAGGCCAGCAATATTGA-CTTAAAAATGACAAGA
* * * * *
1515795 ATGCCAATGTGCTGAATCAAGGTTAAG-GACATTAGATTTAAAGATGATAAAATGTGCCAATATG
1 GTGCCAATGTGCTGATTCAAGG-CAAGTGACATTAGACTTAAAGATGAT-AAAGGTGCCAATATG
*
1515859 CTGATTCAAGGCCAGCAATATTGGACTAAAAAATGACAAGA
64 CTGATTCAAGGCCAGCAATATT-GACTTAAAAATGACAAGA
*
1515900 GTGCCAACGTGCTGATTCAAGGC
1 GTGCCAATGTGCTGATTCAAGGC
1515923 CAACGACATT
Statistics
Matches: 178, Mismatches: 49, Indels: 11
0.75 0.21 0.05
Matches are distributed among these distances:
104 38 0.21
105 138 0.78
106 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (103 bp):
GTGCCAATGTGCTGATTCAAGGCAAGTGACATTAGACTTAAAGATGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCAATATTGACTTAAAAATGACAAGA
Found at i:1516105 original size:113 final size:113
Alignment explanation
Indices: 1515900--1516105 Score: 272
Period size: 113 Copynumber: 1.8 Consensus size: 113
1515890 AATGACAAGA
* * * * * * * *
1515900 GTGCCAACGTGCTGATTCAAGGCCAACGACATTGGACTTTGGAAAGAGGGTTTGACAAGTGCTAA
1 GTGCAAACATGCTAATTCAAAGCCAACGACATTGGACTTAGGAAAAAAGATTTGACAAGTGCTAA
* *
1515965 TATGTTGATTCAAGGCTAGTGAGATTGGGCTTGAGAAAAATGGTAAAG
66 TATGCTGATTCAAGGCTAGTCAGATTGGGCTTGAGAAAAATGGTAAAG
*
1516013 GTGCAAACATGCTAATTCAAAGCCAACGACATTAGG-CTTAGGAAAAAATATTTGACAAGTGCTA
1 GTGCAAACATGCTAATTCAAAGCCAACGACATT-GGACTTAGGAAAAAAGATTTGACAAGTGCTA
*
1516077 ATGTGCTGATTCAAGGCTAG-CAGCATTGG
65 ATATGCTGATTCAAGGCTAGTCAG-ATTGG
1516106 AATTAAAGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 2 0.03
113 75 0.95
114 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (113 bp):
GTGCAAACATGCTAATTCAAAGCCAACGACATTGGACTTAGGAAAAAAGATTTGACAAGTGCTAA
TATGCTGATTCAAGGCTAGTCAGATTGGGCTTGAGAAAAATGGTAAAG
Found at i:1516266 original size:32 final size:32
Alignment explanation
Indices: 1516230--1516316 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
1516220 TAGAAGGAGA
* * *
1516230 TGCCATCGACTTGTATAGGCTTTTG-AGAGGGT
1 TGCCACCGACTTGTATGGGCTTTGGAAG-GGGT
* *
1516262 TGCCACCAACTTATATGGGCTTTGGAAGGGGT
1 TGCCACCGACTTGTATGGGCTTTGGAAGGGGT
* *
1516294 TGCTACCGACTTGTGTGGGCTTT
1 TGCCACCGACTTGTATGGGCTTT
1516317 AAAAAAAAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.33
Consensus pattern (32 bp):
TGCCACCGACTTGTATGGGCTTTGGAAGGGGT
Found at i:1516370 original size:33 final size:32
Alignment explanation
Indices: 1516302--1516419 Score: 94
Period size: 33 Copynumber: 3.6 Consensus size: 32
1516292 GTTGCTACCG
** * * *
1516302 ACTTGTGTGGGCTTTAAAAAAAAGATGCCTCCA
1 ACTTGTGTGGGCTTTTGAAAAAGGATGGC-ACA
* * *
1516335 ACTTGTGTGGGCTTTTGAAAAGGGTTGTCAACA
1 ACTTGTGTGGGCTTTTGAAAAAGGATGGC-ACA
* *
1516368 ACTTATGTGAGC-TTTGAAAAAGGATGGCACTA
1 ACTTGTGTGGGCTTTTGAAAAAGGATGGCAC-A
**
1516400 ACTTGCATGGGCTTTTGAAA
1 ACTTGTGTGGGCTTTTGAAA
1516420 TGGTTACCAC
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
31 2 0.03
32 22 0.33
33 42 0.64
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTTGAAAAAGGATGGCACA
Found at i:1516388 original size:65 final size:64
Alignment explanation
Indices: 1516262--1516451 Score: 155
Period size: 65 Copynumber: 2.9 Consensus size: 64
1516252 TTGAGAGGGT
** * * * * * * * * *
1516262 TGCCACCAACTTATATGGGCTTTGGAAGGGGTTGCTACCGACTTGTGTGGGCTTTAAAAAAAAGA
1 TGCCACCAACTTGCATGGGCTTTTGAAAGGGTTACCAACAACTTATGTGAGCTTT-GAAAAAAGA
* ** ** *
1516327 TGCCTCCAACTTGTGTGGGCTTTTGAAAAGGGTTGTCAACAACTTATGTGAGCTTTGAAAAAGGA
1 TGCCACCAACTTGCATGGGCTTTTG-AAAGGGTTACCAACAACTTATGTGAGCTTTGAAAAAAGA
* * * * * *
1516392 TGGCACTAACTTGCATGGGCTTTTGAAATGGTTACCACCAATTTATGTGAGCTTTTAAAA
1 TGCCACCAACTTGCATGGGCTTTTGAAAGGGTTACCAACAACTTATGTGAGCTTTGAAAA
1516452 GTGTTGCTAT
Statistics
Matches: 100, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
64 29 0.29
65 48 0.48
66 23 0.23
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCCACCAACTTGCATGGGCTTTTGAAAGGGTTACCAACAACTTATGTGAGCTTTGAAAAAAGA
Found at i:1516732 original size:91 final size:90
Alignment explanation
Indices: 1516616--1516790 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 90
1516606 GTTCCATAAA
* * * **
1516616 GTTATGGACTTTGAAGAGGATTGCCATGGAGTTGTGGACTTT-AAAGAAGGGTGCCACAAAGTTT
1 GTTATGGACTTTGAAAAGGA-TGCCATGAAGTTGTGAACTTTGAAAGAAGGGTGCCACAAAGTCA
1516680 TAGACTTTAAAAAAATGGTGCTGTGAG
65 TAGACTTTAAAAAAA-GGTGCTGTGAG
* * *
1516707 GTTATGGACTTTGAAAAAAGG-TGCCATGAAGTTGTGAACTTTGAAAGACGGTTGCCACAGAGTC
1 GTTATGGACTTTG--AAAAGGATGCCATGAAGTTGTGAACTTTGAAAGAAGGGTGCCACAAAGTC
*
1516771 ATAGACTTTAAAGAAAGGTG
64 ATAGACTTTAAAAAAAGGTG
1516791 ACATTGAGTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 36 0.50
92 31 0.43
93 5 0.07
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (90 bp):
GTTATGGACTTTGAAAAGGATGCCATGAAGTTGTGAACTTTGAAAGAAGGGTGCCACAAAGTCAT
AGACTTTAAAAAAAGGTGCTGTGAG
Found at i:1516830 original size:29 final size:30
Alignment explanation
Indices: 1516756--1516889 Score: 89
Period size: 29 Copynumber: 4.6 Consensus size: 30
1516746 TTTGAAAGAC
* *
1516756 GGTTGCCACAGAGTCATAGACTTTAAAGAAA
1 GGTTACCATAGAGTCATAGACTTTAAA-AAA
* * *
1516787 GGTGA-CATTGAGTCGTAGACTTT-AAAAA
1 GGTTACCATAGAGTCATAGACTTTAAAAAA
* * *
1516815 GGTTACCATAGAGTCGTGGACTATGAAAAAA
1 GGTTACCATAGAGTCATAGACT-TTAAAAAA
* * * *
1516846 -G-TGCCATAGAGTTATGGACTTTGAAAAA
1 GGTTACCATAGAGTCATAGACTTTAAAAAA
* *
1516874 GG-TGCCATAAAGTCAT
1 GGTTACCATAGAGTCAT
1516890 GGATTTTTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
28 13 0.16
29 45 0.54
30 17 0.20
31 8 0.10
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (30 bp):
GGTTACCATAGAGTCATAGACTTTAAAAAA
Found at i:1516891 original size:29 final size:29
Alignment explanation
Indices: 1516615--1517407 Score: 418
Period size: 30 Copynumber: 26.8 Consensus size: 29
1516605 GGTTCCATAA
* **
1516615 AGTTATGGACTTTG-AAGAGGATTGCCATGG
1 AGTTATGGACTTTGAAAAAGG--TGCCACAG
* *
1516645 AGTTGTGGACTTT-AAAGAAGGGTGCCACAA
1 AGTTATGGACTTTGAAA-AA-GGTGCCACAG
* * * ***
1516675 AGTTTTAGACTTTAAAAAAATGGTG-CTGTG
1 AGTTATGGACTTT-GAAAAA-GGTGCCACAG
*
1516705 AGGTTATGGACTTTGAAAAAAGGTGCCA-TG
1 A-GTTATGGACTTTG-AAAAAGGTGCCACAG
* * *
1516735 AAGTTGTGAACTTTGAAAGACGGTTGCCACAG
1 -AGTTATGGACTTTGAAA-AAGG-TGCCACAG
* * * * **
1516767 AGTCATAGACTTTAAAGAAAGGTGACATTG
1 AGTTATGGACTTTGAA-AAAGGTGCCACAG
** * * *
1516797 AGTCGTAGACTTT-AAAAAGGTTACCATAG
1 AGTTATGGACTTTGAAAAAGG-TGCCACAG
** * * *
1516826 AGTCGTGGACTATGAAAAAAGTGCCATAG
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* *
1516855 AGTTATGGACTTTGAAAAAGGTGCCATAA
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* * * * * *
1516884 AGTCATGGATTTTTAAAAGGGTGCTATAG
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* * *
1516913 TGTTCTGGACTTTGAAAAAAGGTGCCACAA
1 AGTTATGGACTTTG-AAAAAGGTGCCACAG
* * *
1516943 AATCATGGACTTTG-AAAAGGAGCCAC-G
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* *
1516970 AAGTTATGGACTTTAAAGAAAGTTGCCACAG
1 -AGTTATGGACTTTGAA-AAAGGTGCCACAG
*
1517001 AGTTGTGGACTTTGAAAAAAGGTGCCACAG
1 AGTTATGGACTTTG-AAAAAGGTGCCACAG
* *
1517031 AGTTGTGGACTTTGAAAGAGAGTTGCCACA-
1 AGTTATGGACTTTGAAA-A-AGGTGCCACAG
* *
1517061 AGTTGTGGACATTT-AAGAAAGGTGCCACTG
1 AGTTATGGAC-TTTGAA-AAAGGTGCCACAG
*
1517091 AGTTATGGACTTTG--AAAGTTGCCACAG
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* *
1517118 AGTCATGGACTTTGAAAAAGGTGCCACAA
1 AGTTATGGACTTTGAAAAAGGTGCCACAG
* * * *
1517147 AGTTGTGGACTTTGAAAAAAGGTGCGATAA
1 AGTTATGGACTTTG-AAAAAGGTGCCACAG
* * *
1517177 AGTTATGGACTTTG-AGAAGGTTGACACAA
1 AGTTATGGACTTTGAAAAAGG-TGCCACAG
* * * *
1517206 AGTTGTGGACTTTG-AGAAGGATTACCACGG
1 AGTTATGGACTTTGAAAAAGG--TGCCACAG
*
1517236 AGTTATGAACTTTGAAAAAAGGTGCCACAG
1 AGTTATGGACTTTG-AAAAAGGTGCCACAG
* * * *
1517266 AGTCATAGACTTTG-AGAAGGATTGCCA-TG
1 AGTTATGGACTTTGAAAAAGG--TGCCACAG
* *
1517295 AAGTTATGGACTTTAAAAAAGGGTGCCACGG
1 -AGTTATGGACTTTGAAAAA-GGTGCCACAG
* *
1517326 AGTTGTGGACTTTAAAAGAAGGTTGCCACA-
1 AGTTATGGACTTTGAAA-AAGG-TGCCACAG
* * *
1517356 AATTCGTGGACTTCT-AAGAAAAGTGCCACTA-
1 AGTT-ATGGACTT-TGAA-AAAGGTGCCAC-AG
*
1517387 AGTTGTGGACTTT-AAAAAGGT
1 AGTTATGGACTTTGAAAAAGGT
1517408 TACTCTACTA
Statistics
Matches: 602, Mismatches: 115, Indels: 94
0.74 0.14 0.12
Matches are distributed among these distances:
27 24 0.04
28 42 0.07
29 150 0.25
30 282 0.47
31 88 0.15
32 16 0.03
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (29 bp):
AGTTATGGACTTTGAAAAAGGTGCCACAG
Found at i:1516922 original size:58 final size:59
Alignment explanation
Indices: 1516831--1517220 Score: 260
Period size: 59 Copynumber: 6.7 Consensus size: 59
1516821 CATAGAGTCG
* ** * *
1516831 TGGACTATGAAAAAAGTGCCATAGAGTTATGGACTTTG-AAAAAGGTGCCATAAAGTCA
1 TGGACTTTGAAAAGGGTGCCATAGAGTTATGGACTTTGAAAAAAGGTGCCACAAAATCA
* * * * *
1516889 TGGATTTTTAAAAGGGTGCTATAGTGTTCTGGACTTTGAAAAAAGGTGCCACAAAATCA
1 TGGACTTTGAAAAGGGTGCCATAGAGTTATGGACTTTGAAAAAAGGTGCCACAAAATCA
* * * * * **
1516948 TGGACTTTGAAAA-GGAGCCA-CGAAGTTATGGACTTT-AAAGAAAGTTGCCACAGAGTTG
1 TGGACTTTGAAAAGGGTGCCATAG-AGTTATGGACTTTGAAA-AAAGGTGCCACAAAATCA
* * * * * * **
1517006 TGGACTTTGAAAAAAGGTGCCACAGAGTTGTGGACTTTGAAAGAGAGTTGCCAC-AAGTTG
1 TGGACTTTG-AAAAGGGTGCCATAGAGTTATGGACTTTGAAA-AAAGGTGCCACAAAATCA
* * * *
1517066 TGGACATTT-AAGAAAGGTGCCACT-GAGTTATGGACTTTG---AAAGTTGCCACAGAGTCA
1 TGGAC-TTTGAA-AAGGGTGCCA-TAGAGTTATGGACTTTGAAAAAAGGTGCCACAAAATCA
* * * * * * * *
1517123 TGGACTTTGAAAAAGGTGCCACAAAGTTGTGGACTTTGAAAAAAGGTGCGATAAAGTTA
1 TGGACTTTGAAAAGGGTGCCATAGAGTTATGGACTTTGAAAAAAGGTGCCACAAAATCA
* * * * * *
1517182 TGGACTTTGAGAAGGTTGACACAAAGTTGTGGACTTTGA
1 TGGACTTTGAAAAGGGTGCCATAGAGTTATGGACTTTGA
1517221 GAAGGATTAC
Statistics
Matches: 271, Mismatches: 45, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
56 36 0.13
57 14 0.05
58 68 0.25
59 83 0.31
60 52 0.19
61 18 0.07
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (59 bp):
TGGACTTTGAAAAGGGTGCCATAGAGTTATGGACTTTGAAAAAAGGTGCCACAAAATCA
Found at i:1518803 original size:20 final size:21
Alignment explanation
Indices: 1518762--1518814 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1518752 TTTCATTTGA
*
1518762 TTTTTTGT--TTTGTTTT-GT
1 TTTTTTGTGCTTTGTTTTCCT
1518780 TTTTTTGTGCTTTGTTTTCCT
1 TTTTTTGTGCTTTGTTTTCCT
1518801 TTTTTTGTGCTTTG
1 TTTTTTGTGCTTTG
1518815 CATTTCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 8 0.26
20 8 0.26
21 15 0.48
ACGTcount: A:0.00, C:0.08, G:0.17, T:0.75
Consensus pattern (21 bp):
TTTTTTGTGCTTTGTTTTCCT
Found at i:1518805 original size:21 final size:20
Alignment explanation
Indices: 1518762--1518828 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
1518752 TTTCATTTGA
*
1518762 TTTTTTGT--TTTGTTTTGT
1 TTTTTTGTGCTTTGTTTTCT
1518780 TTTTTTGTGCTTTGTTTTCCT
1 TTTTTTGTGCTTTGTTTT-CT
*
1518801 TTTTTTGTGCTTTGCATTTCT
1 TTTTTTGTGCTTTG-TTTTCT
1518822 TATTTTT
1 T-TTTTT
1518829 AAAAGGAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.19
20 8 0.19
21 18 0.43
22 8 0.19
ACGTcount: A:0.03, C:0.09, G:0.13, T:0.75
Consensus pattern (20 bp):
TTTTTTGTGCTTTGTTTTCT
Found at i:1525168 original size:52 final size:52
Alignment explanation
Indices: 1525088--1525216 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1525078 CGAAATATGA
*
1525088 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1525140 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
1525192 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1525217 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:1525229 original size:52 final size:52
Alignment explanation
Indices: 1525088--1525236 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
1525078 CGAAATATGA
* ***
1525088 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGC
***
1525140 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGC
* *
1525192 AAATTTTCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
1525237 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGC
Found at i:1525243 original size:13 final size:13
Alignment explanation
Indices: 1525225--1525249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1525215 CAAAGATCAG
1525225 TGTATCGATACAA
1 TGTATCGATACAA
1525238 TGTATCGATACA
1 TGTATCGATACA
1525250 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1525316 original size:19 final size:20
Alignment explanation
Indices: 1525292--1525344 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1525282 TAGCTCAAAT
*
1525292 TGTATCTATA-AAAAATTTA
1 TGTATCGATACAAAAATTTA
* *
1525311 TGTATCGATACAATATTTTA
1 TGTATCGATACAAAAATTTA
1525331 TGTATCGATACAAA
1 TGTATCGATACAAA
1525345 TCGTTGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAAAAATTTA
Found at i:1525421 original size:21 final size:21
Alignment explanation
Indices: 1525381--1525421 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1525371 TTGGGACCTG
*
1525381 GTATCGATACATTTTAACAAT
1 GTATCGATACATTTGAACAAT
*
1525402 GTATCGATACATTTGGACAA
1 GTATCGATACATTTGAACAA
1525422 AAATGTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
GTATCGATACATTTGAACAAT
Found at i:1526698 original size:92 final size:93
Alignment explanation
Indices: 1526273--1526747 Score: 616
Period size: 92 Copynumber: 5.0 Consensus size: 93
1526263 AAAAGGATGT
*
1526273 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
1526338 CAAGGCCAGCTATATTGGACTTA-AAGGTGC
63 CAAGGCCAGCGATATTGGACTTAGAAGGTGC
* *
1526368 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-AAAGAAGGTGCCAATATGTTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCA
* *
1526432 AGGCCAGCTATA-TCGACTTAAAGGTGAAGGTGC
65 AGGCCAGCGATATTGGACTT--A---GAAGGTGC
* * * *
1526465 CAATGTGATGATTCAAAGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
1526530 CAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCGATATTGGACTT----A-GAAGGTGC
**
1526566 CAATGTGCTGATTCAAGGCCAGCTACATTGTTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1526631 GGCCAGCGATATTGGACTTA-ACGGTGC
66 GGCCAGCGATATTGGACTTAGAAGGTGC
* *
1526658 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1526723 GGCCAGCGATATTGGGCTTAGAAGG
66 GGCCAGCGATATTGGACTTAGAAGG
1526748 GTTGCCACCG
Statistics
Matches: 338, Mismatches: 27, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
91 7 0.02
92 119 0.35
93 4 0.01
94 2 0.01
95 37 0.11
97 42 0.12
98 42 0.12
100 31 0.09
101 52 0.15
103 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAGAAGGTGC
Found at i:1526737 original size:49 final size:49
Alignment explanation
Indices: 1526215--1526742 Score: 551
Period size: 49 Copynumber: 10.8 Consensus size: 49
1526205 GTGATAAAGA
* * * * *
1526215 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
1526269 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
1526322 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
1526365 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
1526414 TGCCAATATGTTGATTCAAGGCCAGCTATA-TCGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
1526462 TGCCAATGTGATGATTCAAAGCCAGCGACATTGGACTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGG
* * *
1526514 CGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * ** *
1526563 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGTTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
1526612 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--ACGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
1526655 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
1526704 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1526743 GAAGGGTTGC
Statistics
Matches: 401, Mismatches: 56, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
43 79 0.20
45 1 0.00
47 2 0.00
48 40 0.10
49 160 0.40
52 77 0.19
53 6 0.01
54 1 0.00
55 35 0.09
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:1526786 original size:33 final size:32
Alignment explanation
Indices: 1526735--1527075 Score: 465
Period size: 33 Copynumber: 10.5 Consensus size: 32
1526725 CCAGCGATAT
1526735 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1526765 TGGGCTTTG-GAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAG--GGTTGCCACCGACTTGTG
*
1526798 TGGGCTTTGAGAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* * *
1526830 TGGGCTTTAAAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
*
1526863 TGGGCTTTAAAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
* *
1526896 TGGGCTTTAGAGAAGGTTTGCCACCGACTTGTA
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
*
1526929 TGGGCTTTAGAGAAGGGTGGCCACCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
* *
1526962 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1526995 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
*
1527027 TGGGCTTTAAAGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
* *
1527059 TGGGCTTTAAAAAGGGT
1 TGGGCTTTGAGAAGGGT
1527076 GAAAGATGCC
Statistics
Matches: 283, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
30 5 0.02
31 10 0.04
32 84 0.30
33 180 0.64
34 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:1526902 original size:66 final size:65
Alignment explanation
Indices: 1526742--1527075 Score: 521
Period size: 66 Copynumber: 5.1 Consensus size: 65
1526732 TATTGGGCTT
*
1526742 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAGAAGGTTGCCACCGACTTGTGTGGGCTTTA
1526806 G
65 G
* *
1526807 AGAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAGAATGGTTGCCACCAACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAA-GGTTGCCACCGACTTGTGTGGGCTTTA
*
1526872 A
65 G
* *
1526873 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTATGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGG-TTGCCACCGACTTGTGTGGGCTTTA
1526938 G
65 G
* * *
1526939 AGAAGGGTGGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTT-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAA-GGTTGCCACCGACTTGTGTGGGCTTTA
1527003 G
65 G
1527004 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCGACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1527068 AAAAGGGT
1 AGAAGGGT
1527076 GAAAGATGCC
Statistics
Matches: 248, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
64 37 0.15
65 93 0.38
66 116 0.47
67 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (65 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1527135 original size:68 final size:71
Alignment explanation
Indices: 1527057--1527205 Score: 189
Period size: 68 Copynumber: 2.1 Consensus size: 71
1527047 CACCGACTTG
** *
1527057 TGTGGGCTTTAAAAAGGGTGAAAG-ATGCCACGAAGTTGTGGAC-TT-AAAAGAACAAG-GTGCC
1 TGTGGGCTTT-AAAAGGGAAAAAGCATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCC
1527118 ACGGAGT
65 ACGGAGT
* * *
1527125 TGTGGGCTTTAAAAGGGAAAAAGCGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGGAAAAAGCATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCA
1527190 CGGAGT
66 CGGAGT
* *
1527196 TATGGACTTT
1 TGTGGGCTTT
1527206 GGAAAAGATG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
67 11 0.16
68 26 0.38
69 2 0.03
70 10 0.14
71 20 0.29
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (71 bp):
TGTGGGCTTTAAAAGGGAAAAAGCATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCA
CGGAGT
Found at i:1527188 original size:35 final size:35
Alignment explanation
Indices: 1527057--1527205 Score: 162
Period size: 35 Copynumber: 4.3 Consensus size: 35
1527047 CACCGACTTG
** *
1527057 TGTGGGCTTTAAAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTAAAAA--GAAAAAGAGTGCCACGGAGT
* *
1527093 TGTGGAC-TT-AAAAGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* *
1527125 TGTGGGCTTTAAAAGGGAAAAAGCGTGCCACGGAGT
1 TGTGGGCTTTAAAA-AGAAAAAGAGTGCCACGGAGT
1527161 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
* *
1527196 TATGGACTTT
1 TGTGGGCTTT
1527206 GGAAAAGATG
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
32 20 0.21
33 2 0.02
34 7 0.07
35 35 0.36
36 32 0.33
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (35 bp):
TGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGT
Found at i:1527255 original size:28 final size:29
Alignment explanation
Indices: 1527176--1527261 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
1527166 GCTTTAAAAA
* * * * *
1527176 GAAAAAGAGTGCCACGGAGTTATGGACTTT
1 GAAAAAGA-TGCCACCGACTTGTGGGCTTC
*
1527206 GGAAAAGATGCCACCGACTTGTGGGCTTC
1 GAAAAAGATGCCACCGACTTGTGGGCTTC
*
1527235 GAAAAAGATGCCACTGA-TTGTGGGCTT
1 GAAAAAGATGCCACCGACTTGTGGGCTT
1527262 TTGAAGGGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.21
29 31 0.65
30 7 0.15
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (29 bp):
GAAAAAGATGCCACCGACTTGTGGGCTTC
Found at i:1528705 original size:1 final size:1
Alignment explanation
Indices: 1528699--1528763 Score: 76
Period size: 1 Copynumber: 65.0 Consensus size: 1
1528689 CATCCGGACC
* * * * * *
1528699 TTTTTTTTTGTTTTTTTTTGTTTTTTTTTTTGTTTTGTTTTGTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1528764 GTGGAGGACG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:1528727 original size:22 final size:22
Alignment explanation
Indices: 1528699--1528762 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
1528689 CATCCGGACC
1528699 TTTTTTTTTGTTTTTTTTTGTT
1 TTTTTTTTTGTTTTTTTTTGTT
*
1528721 TTTTTTTTTGTTTTGTTTTGTT
1 TTTTTTTTTGTTTTTTTTTGTT
*
1528743 TTTTTTCTTTTTTTTTTTTT
1 TTTTTT-TTTGTTTTTTTTT
1528763 TGTGGAGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 27 0.71
23 11 0.29
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (22 bp):
TTTTTTTTTGTTTTTTTTTGTT
Found at i:1542696 original size:13 final size:13
Alignment explanation
Indices: 1542678--1542702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1542668 CAAAGATCAG
1542678 TGTATCGATACAA
1 TGTATCGATACAA
1542691 TGTATCGATACA
1 TGTATCGATACA
1542703 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1542781 original size:19 final size:20
Alignment explanation
Indices: 1542745--1542797 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1542735 TAGCTTAAAT
*
1542745 TGTATTGATACAAAA-TTTA
1 TGTATCGATACAAAATTTTA
* *
1542764 TGTATCGATGCAATATTTTA
1 TGTATCGATACAAAATTTTA
1542784 TGTATCGATACAAA
1 TGTATCGATACAAA
1542798 TCGTTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAAAATTTTA
Found at i:1545685 original size:20 final size:21
Alignment explanation
Indices: 1545649--1545687 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1545639 TTGGACAAGT
1545649 TAAAATGCATGGAACATGGCA
1 TAAAATGCATGGAACATGGCA
1545670 TAAAATGCAT-GAACATGG
1 TAAAATGCATGGAACATGG
1545688 GCTGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (21 bp):
TAAAATGCATGGAACATGGCA
Found at i:1547998 original size:13 final size:13
Alignment explanation
Indices: 1547980--1548004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1547970 CTATTCATAA
1547980 TGTATCGATACAC
1 TGTATCGATACAC
1547993 TGTATCGATACA
1 TGTATCGATACA
1548005 TGAACAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1548034 original size:24 final size:24
Alignment explanation
Indices: 1547999--1548070 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
1547989 ACACTGTATC
*
1547999 GATACATGAACAATAATGAATAGT
1 GATACATGAACAATAATGAACAGT
* *
1548023 GATACATTAACAATGATGAACAGT
1 GATACATGAACAATAATGAACAGT
** * *
1548047 GATATGTGAACAGTGATGAACAGT
1 GATACATGAACAATAATGAACAGT
1548071 AATGTATCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (24 bp):
GATACATGAACAATAATGAACAGT
Found at i:1548167 original size:13 final size:13
Alignment explanation
Indices: 1548151--1548175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1548141 TATCAAGAAC
1548151 ATGTATCGATACA
1 ATGTATCGATACA
1548164 ATGTATCGATAC
1 ATGTATCGATAC
1548176 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1548173 original size:32 final size:33
Alignment explanation
Indices: 1548132--1548196 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1548122 ACAATTCATG
1548132 ATGTATCGATA-TCAAG-AACATGTATCGATACA
1 ATGTATCGATACT-AAGCAACATGTATCGATACA
*
1548164 ATGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCGATACTAAGCAACATGTATCGATACA
1548197 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACTAAGCAACATGTATCGATACA
Found at i:1548762 original size:74 final size:74
Alignment explanation
Indices: 1548662--1548832 Score: 189
Period size: 74 Copynumber: 2.3 Consensus size: 74
1548652 TATCTTCTTG
* * * * * * *
1548662 CTTTAAGACTATTTGTTTCACTCAGGTTGTCAATACATCTTCATACTGTTGATTCCACCTAAGTC
1 CTTTCAGACTATTTGTTCCACCCAGGTCGTCAATACATCTGCAAACTATTGATTCCACCTAAGTC
* *
1548727 GTCTTCTCA
66 ATCTACTCA
* * *
1548736 CTTTCAGACTATTTGTTCCACCCAGGTCGTCAATATATCTGCAAACTATTGGTTCTACCTAAGTC
1 CTTTCAGACTATTTGTTCCACCCAGGTCGTCAATACATCTGCAAACTATTGATTCCACCTAAGTC
**
1548801 ATCTACTTG
66 ATCTACTCA
* * *
1548810 CTTTCATACTATTGGTTCTACCC
1 CTTTCAGACTATTTGTTCCACCC
1548833 TAATCATCGA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (74 bp):
CTTTCAGACTATTTGTTCCACCCAGGTCGTCAATACATCTGCAAACTATTGATTCCACCTAAGTC
ATCTACTCA
Found at i:1551328 original size:37 final size:37
Alignment explanation
Indices: 1551278--1551348 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
1551268 TAAAAGCATG
1551278 ATTTGGGTTGTGGTTGGTCCAATATCCATATAGCCAT
1 ATTTGGGTTGTGGTTGGTCCAATATCCATATAGCCAT
* *
1551315 ATTTGGGTTGTGGTTTGTCCAATGTCCATATAGC
1 ATTTGGGTTGTGGTTGGTCCAATATCCATATAGC
1551349 TATACGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (37 bp):
ATTTGGGTTGTGGTTGGTCCAATATCCATATAGCCAT
Found at i:1552094 original size:61 final size:60
Alignment explanation
Indices: 1552021--1552140 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 60
1552011 TCTAATTTGT
* * * *
1552021 GACAGAGATATTATTATGACAATTTATTTGTTGTTTTATTTTTAATATCATTAAATATTTC
1 GACAAAGATATTATAATGACAATTTATTTGCTATTTTATTTTT-ATATCATTAAATATTTC
*
1552082 GACAAAGATATTATAATGACAATTTATTTGCTATTTTATTTTTATATTATTAAATATTT
1 GACAAAGATATTATAATGACAATTTATTTGCTATTTTATTTTTATATCATTAAATATTT
1552141 TGTACTTTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 15 0.28
61 39 0.72
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (60 bp):
GACAAAGATATTATAATGACAATTTATTTGCTATTTTATTTTTATATCATTAAATATTTC
Found at i:1560443 original size:14 final size:13
Alignment explanation
Indices: 1560418--1560442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1560408 TTTAGGGGCT
1560418 ATTGAATTTTTTC
1 ATTGAATTTTTTC
1560431 ATTGAATTTTTT
1 ATTGAATTTTTT
1560443 TTGTTTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTGAATTTTTTC
Found at i:1560535 original size:166 final size:167
Alignment explanation
Indices: 1560341--1561032 Score: 798
Period size: 167 Copynumber: 4.2 Consensus size: 167
1560331 GATGATTTAA
* * *
1560341 AATTTTCAAAATTCATCAAATATTATTATTTAATTT-ATATTAAATTAATTTT-AAAAATTCATT
1 AATTTTTAAAATTCATCAAATATTATTATTT-ATTTCATAATAAATTAGTTTTAAAAAATTCATT
* * * * * * * * * *
1560404 CATTTTTAGGGGCTATTGAATTTTTTCATTGAATTTTTTTTGTTTTTGAAAAACAGAGTTTTCTA
65 CATTTTCATGAGTTTTTGAATTTTTTCCTTGAATTTCTCTTATTTTCGAAAAACAGAGTTTTCTA
*
1560469 CTCCGTAAATTTTTTCAAGGG-GATTTTTCTTAGTTTTT
130 CTCCTTAAATTTTTTCAAGGGAGATTTTTCTT-GTTTTT
* *
1560507 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTGAAAAATTCATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATTAGTTTTAAAAAATTCATTC
* * * *
1560572 ATTTTCATGAGTTTTTGAATTTTTT-TTTGAAATTCTCTTATTTTCAAAAAACGGAGTTTTCTAC
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAATTTCTCTTATTTTCGAAAAACAGAGTTTTCTAC
* ** *
1560636 TTCTTAAATTTTTT-TGGGGAGATTTTTCTTGGTTTT
131 TCCTTAAATTTTTTCAAGGGAGATTTTTCTTGTTTTT
* *
1560672 AA-TTTTAAAATTCTTCAAATATTATTATTTATTTCATAATAAGTTAGTTTTAAAAAATTCATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATTAGTTTTAAAAAATTCATTC
* * * *
1560736 ATTTTCATGAGTTTTT-AA-ATTTTCCTTGAAGTTCTCCTATTTTCGAAAAATAGAGTTTTCTAC
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAATTTCTCTTATTTTCGAAAAACAGAGTTTTCTAC
* * *
1560799 TCCATAAATTTTTTTAAGGGA-ATTTTTATTGGTTTTT
131 TCCTTAAATTTTTTCAAGGGAGATTTTTCTT-GTTTTT
* * * *
1560836 AATTTTTAAAATTCATAAAATATTATTATTTATTTTATATTAAATCT-GTTTTTAAAAATTCATT
1 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAAT-TAGTTTTAAAAAATTCATT
* * * *
1560900 CATTTTCATGAGTTTTTCATTTTTTTCCTTGAA-TTCTTCTTATTTTCGAAATACGGAGTTTTCT
65 CATTTTCATGAGTTTTTGAATTTTTTCCTTGAATTTC-TCTTATTTTCGAAAAACAGAGTTTTCT
* * **
1560964 ACTCCTTAAATCTTTTC--GGGAGAATTTTTCTCGATTTAA
129 ACTCCTTAAATTTTTTCAAGGGAG-ATTTTTCTTG-TTTTT
* * *
1561003 AATTTTTAAAATCCATCTAATATTGTTATT
1 AATTTTTAAAATTCATCAAATATTATTATT
1561033 AAACTCCCAT
Statistics
Matches: 450, Mismatches: 62, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
162 4 0.01
163 55 0.12
164 85 0.19
165 88 0.20
166 102 0.23
167 116 0.26
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (167 bp):
AATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATTAGTTTTAAAAAATTCATTC
ATTTTCATGAGTTTTTGAATTTTTTCCTTGAATTTCTCTTATTTTCGAAAAACAGAGTTTTCTAC
TCCTTAAATTTTTTCAAGGGAGATTTTTCTTGTTTTT
Found at i:1560841 original size:329 final size:331
Alignment explanation
Indices: 1560341--1561032 Score: 903
Period size: 329 Copynumber: 2.1 Consensus size: 331
1560331 GATGATTTAA
*
1560341 AATTTTCAAAATTCATCAAATATTATTATTTAATTTATATTAAATTAATTTTAAAAATTCATTCA
1 AATTTTCAAAATTCATCAAATATTATTATTTAATTTATAATAAATTAATTTTAAAAATTCATTCA
* * * * * ** * *
1560406 TTTTTAGGGGCTATTGAATTTTTTCATTGAATTTTTTTTGTTTTTGAAAAACAGAGTTTTCTACT
66 TTTTCAGGAGCTATTGAATATTTTCATTGAAGTTCTCCTATTTTCGAAAAACAGAGTTTTCTACT
* * * *
1560471 CCGTAAATTTTTTCAAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTAT
131 CCATAAATTTTTTCAAGGGAATTTTTATTAGTTTTTAATTTTTAAAATTCATAAAATATTATTAT
1560536 TTATTTCATAATAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTT-TT
196 TTATTTCATAATAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTT-AATTTTTTTCTT
* * *
1560600 GAAATTC-TCTTATTTTCAAAAAACGGAGTTTTCTACTTCTTAAATTTTTTTGGG-GAGATTTTT
260 G-AATTCTTCTTATTTTCAAAAAACGGAGTTTTCTACTCCTTAAATCTTTTCGGGAGA-ATTTTT
1560663 CTTGGTTTT
323 CTTGGTTTT
* * *
1560672 AATTTT-AAAATTCTTCAAATATTATTATTT-ATTTCATAATAAGTTAGTTTTAAAAAATTCATT
1 AATTTTCAAAATTCATCAAATATTATTATTTAATTT-ATAATAAATTAATTTT-AAAAATTCATT
* * * * *
1560735 CATTTTCATGAG-TTTTTAA-ATTTTCCTTGAAGTTCTCCTATTTTCGAAAAATAGAGTTTTCTA
64 CATTTTCAGGAGCTATTGAATATTTTCATTGAAGTTCTCCTATTTTCGAAAAACAGAGTTTTCTA
* *
1560798 CTCCATAAATTTTTTTAAGGGAATTTTTATTGGTTTTTAATTTTTAAAATTCATAAAATATTATT
129 CTCCATAAATTTTTTCAAGGGAATTTTTATTAGTTTTTAATTTTTAAAATTCATAAAATATTATT
* * * * *
1560863 ATTTATTTTATATTAAATCTGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTCATTTTTTTCC
194 ATTTATTTCATAATAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTAATTTTTTT-C
* *
1560928 TTGAATTCTTCTTATTTTCGAAATACGGAGTTTTCTACTCCTTAAATCTTTTCGGGAGAATTTTT
258 TTGAATTCTTCTTATTTTCAAAAAACGGAGTTTTCTACTCCTTAAATCTTTTCGGGAGAATTTTT
* * *
1560993 CTCGATTTAA
323 CTTGGTTT-T
* * * *
1561003 AATTTTTAAAATCCATCTAATATTGTTATT
1 AATTTTCAAAATTCATCAAATATTATTATT
1561033 AAACTCCCAT
Statistics
Matches: 312, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
328 8 0.03
329 153 0.49
330 98 0.31
331 34 0.11
332 19 0.06
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (331 bp):
AATTTTCAAAATTCATCAAATATTATTATTTAATTTATAATAAATTAATTTTAAAAATTCATTCA
TTTTCAGGAGCTATTGAATATTTTCATTGAAGTTCTCCTATTTTCGAAAAACAGAGTTTTCTACT
CCATAAATTTTTTCAAGGGAATTTTTATTAGTTTTTAATTTTTAAAATTCATAAAATATTATTAT
TTATTTCATAATAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTAATTTTTTTCTTG
AATTCTTCTTATTTTCAAAAAACGGAGTTTTCTACTCCTTAAATCTTTTCGGGAGAATTTTTCTT
GGTTTT
Found at i:1561047 original size:167 final size:163
Alignment explanation
Indices: 1560333--1561032 Score: 741
Period size: 166 Copynumber: 4.2 Consensus size: 163
1560323 ATTTTTTTGA
* * **
1560333 TGATTTAAAATTTTCAAAATTCATCAAATATTATTATTTAATTT-ATATTAAATTAATTTTAAAA
1 TGATTTATAATTTTTAAAATTCATCAAATATTATTATTT-ATTTCATATTAAATTGTTTTTAAAA
* * * * * * * * * * *
1560397 ATTCATTCATTTTTAGGGGCTATTGAATTTTTTCATTGAATTTTTTTTGTTTTTGAAAAACAGAG
65 ATTCATTCATTTTCATGAG-TTTTTATTTTTTTCCTTGAA-TTCTCTTATTTTCGAAAAACAGAG
*
1560462 TTTTCTACTCCGTAAATTTTTTCAAGGGG-ATTTTTCT
128 TTTTCTACTCCTTAAATTTTTTC--GGGGAATTTTTCT
* * * *
1560499 T-AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTGAAA
1 TGA-TTTATAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAAT-TGTTTTTAAA
* *
1560563 AATTCATTCATTTTCATGAGTTTTTGAATTTTTTT--TTGAAATTCTCTTATTTTCAAAAAACGG
64 AATTCATTCATTTTCATGAGTTTTT--ATTTTTTTCCTTG-AATTCTCTTATTTTCGAAAAACAG
* *
1560626 AGTTTTCTACTTCTTAAATTTTTTTGGGGAGATTTTTCT
126 AGTTTTCTACTCCTTAAATTTTTTCGGGGA-ATTTTTCT
* * * * *
1560665 TGGTTT-TAA-TTTTAAAATTCTTCAAATATTATTATTTATTTCATAATAAGTTAGTTTTAAAAA
1 TGATTTATAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATT-GTTTTTAAAA
** * *
1560728 ATTCATTCATTTTCATGAGTTTTTA-AATTTTCCTTGAAGTTCTCCTATTTTCGAAAAATAGAGT
65 ATTCATTCATTTTCATGAGTTTTTATTTTTTTCCTTGAA-TTCTCTTATTTTCGAAAAACAGAGT
* ** *
1560792 TTTCTACTCCATAAATTTTTTTAAGGGAATTTTTAT
129 TTTCTACTCCTTAAA-TTTTTTCGGGGAATTTTTCT
* * * *
1560828 TGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTTATATTAAATCTGTTTTTAAAA
1 TGATTTATAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAAT-TGTTTTTAAAA
* *
1560893 ATTCATTCATTTTCATGAGTTTTTCATTTTTTTCCTTGAATTCTTCTTATTTTCGAAATACGGAG
65 ATTCATTCATTTTCATGAGTTTTT-ATTTTTTTCCTTGAATTC-TCTTATTTTCGAAAAACAGAG
*
1560958 TTTTCTACTCCTTAAATCTTTTCGGGAGAATTTTTCT
128 TTTTCTACTCCTTAAATTTTTTCGGG-GAATTTTTCT
* * * * *
1560995 CGATTTAAAATTTTTAAAATCCATCTAATATTGTTATT
1 TGATTTATAATTTTTAAAATTCATCAAATATTATTATT
1561033 AAACTCCCAT
Statistics
Matches: 449, Mismatches: 64, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
161 4 0.01
162 3 0.01
163 50 0.11
164 90 0.20
165 78 0.17
166 110 0.24
167 107 0.24
168 7 0.02
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.51
Consensus pattern (163 bp):
TGATTTATAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATTGTTTTTAAAAA
TTCATTCATTTTCATGAGTTTTTATTTTTTTCCTTGAATTCTCTTATTTTCGAAAAACAGAGTTT
TCTACTCCTTAAATTTTTTCGGGGAATTTTTCT
Found at i:1563633 original size:33 final size:33
Alignment explanation
Indices: 1563596--1563662 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1563586 TTCAACGATT
1563596 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1563629 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1563662 T
1 T
1563663 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1563634 original size:13 final size:13
Alignment explanation
Indices: 1563616--1563640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563606 CATAAAATGT
1563616 TGTATCGATACAA
1 TGTATCGATACAA
1563629 TGTATCGATACA
1 TGTATCGATACA
1563641 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1563721 original size:13 final size:13
Alignment explanation
Indices: 1563703--1563727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563693 ATTACTCAAA
1563703 TGTATCGATACAT
1 TGTATCGATACAT
1563716 TGTATCGATACA
1 TGTATCGATACA
1563728 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1563780 original size:52 final size:52
Alignment explanation
Indices: 1563736--1563916 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
1563726 CACTGATCTT
*
1563736 TGTATCGATACATGCAGGCAAATTTGCCCGGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1563788 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1563840 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1563892 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1563917 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1567648 original size:152 final size:153
Alignment explanation
Indices: 1567021--1567711 Score: 840
Period size: 152 Copynumber: 4.5 Consensus size: 153
1567011 CATTCTCTCA
* *** *
1567021 CATCTAATCCTTCTAAGTCCTTTAGGGGTATCAAACACTTTCACGTCGAAGGTATCCCCT-AGGG
1 CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCGAAGGTATCCCCTAAGGG
* * *
1567085 TCATTTTCGTAATTTTTATGGAA-CAAGTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCAAAGG
66 -CATTTTCATAATTTTTATAGAACCAAGTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCAAAGG
1567149 T-AGACATTCAAGATAGGTTCATCC
130 TGA-ACATTCAAGATAGGTTCATCC
* * *
1567173 CATCTAATCCTTTTAAGTCCTTTAAGGGTATCGGGTACTTTCACACCGTAA-GTATCCCCTAAGG
1 CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCG-AAGGTATCCCCTAAGG
* *
1567237 GCATTTTCATAATTTTTATAGAACCAAGTCTTAGGTCGTCACTGAGTCCGCTTTTATGCCAAAGG
65 GCATTTTCATAATTTTTATAGAACCAAGTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCAAAGG
* *
1567302 TGGACATTCAAGATAGGCTCATCC
130 TGAACATTCAAGATAGGTTCATCC
* * * * *
1567326 TATTTAATTCTTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACGTCGAAGGTATTCCCTATA-
1 CATCTAA-TCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCGAAGGTATCCCCTA-AG
* * * * *
1567390 GGCATTTTCGTAATAGTTT-TAGAACCAAGTCCTAGGTCGTCACTGGGTCCGTTTTTATGCCAAA
64 GGCATTTTCATAAT-TTTTATAGAACCAAGTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCAAA
*
1567454 GGTGAACATTCAGGATAGGTTCAT-C
128 GGTGAACATTCAAGATAGGTTCATCC
* * * *
1567479 CATCTAATCTTTTTAAGTCCTTTAGGGGTATTGGCCACTTTCACATCGAAGGTAT-CTCTAAGGG
1 CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCGAAGGTATCCCCTAAGGG
* * * * *
1567543 CATTTTCATAATTTTTCTAGAATCAAGTTCTAGGTCATCACCGAGTTCGCTTTTATGCCAAAGGT
66 CATTTTCATAATTTTTATAGAACCAAGTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCAAAGGT
* *
1567608 GAACATTTATGATAGGTTCATCC
131 GAACATTCAAGATAGGTTCATCC
* * * * ** * * *
1567631 CATCTAATCCTTTTAAGTCCTTTAGGAGTATCCGGTACTTTTATGTCAAAGGTATCCTCTAAAGG
1 CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCGAAGGTATCCCCTAAGGG
**
1567696 CATTTTTGTAATTTTT
66 CATTTTCATAATTTTT
1567712 CTTAAACTTA
Statistics
Matches: 466, Mismatches: 61, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
150 4 0.01
151 77 0.17
152 160 0.34
153 100 0.21
154 121 0.26
155 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (153 bp):
CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGGGCACTTTCACATCGAAGGTATCCCCTAAGGG
CATTTTCATAATTTTTATAGAACCAAGTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCAAAGGT
GAACATTCAAGATAGGTTCATCC
Found at i:1571181 original size:45 final size:44
Alignment explanation
Indices: 1571132--1571271 Score: 176
Period size: 45 Copynumber: 3.1 Consensus size: 44
1571122 AGAATTTAAT
1571132 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTATGATAAAA
1 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTATGATAAAA
*
1571176 CTTTTTTATTTATTTCTTAATTAATTTAATTTAATTAAAT-ATAAAA
1 -TTTTTTATTTATCTCTTAATTAATTTAATTTAATT--ATGATAAAA
* * *
1571222 TTACTTTATTTACCTCTTAATTAATTTATTTTAATT-TGATATAAA
1 TT-TTTTATTTATCTCTTAATTAATTTAATTTAATTATGATA-AAA
*
1571267 ATTTT
1 TTTTT
1571272 ATTAGTGACA
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.06
45 40 0.48
46 35 0.42
47 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (44 bp):
TTTTTTATTTATCTCTTAATTAATTTAATTTAATTATGATAAAA
Found at i:1571240 original size:46 final size:43
Alignment explanation
Indices: 1571135--1571269 Score: 171
Period size: 46 Copynumber: 3.0 Consensus size: 43
1571125 ATTTAATTTT
*
1571135 TTTATTTATCTCTTAATTAATTTAATTTAATTATGATAAAACTTT
1 TTTATTTATCTCTTAATTAATTTAATTTAATTAT-ATAAAA-TTC
*
1571180 TTTATTTATTTCTTAATTAATTTAATTTAATTAAATATAAAATTAC
1 TTTATTTATCTCTTAATTAATTTAATTTAATT--ATATAAAATT-C
* *
1571226 TTTATTTACCTCTTAATTAATTTATTTTAATTTGATATAAAATT
1 TTTATTTATCTCTTAATTAATTTAATTTAA-TT-ATATAAAATT
1571270 TTATTAGTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
45 33 0.41
46 43 0.54
47 4 0.05
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (43 bp):
TTTATTTATCTCTTAATTAATTTAATTTAATTATATAAAATTC
Found at i:1571394 original size:18 final size:18
Alignment explanation
Indices: 1571357--1571399 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1571347 TCGAGCTAAC
*
1571357 TTAAAATAGTATTTTATA
1 TTAAAATAATATTTTATA
1571375 TTAAAATAATATATTT-TA
1 TTAAAATAATAT-TTTATA
*
1571393 TTTAAAT
1 TTAAAAT
1571400 TTAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTAAAATAATATTTTATA
Found at i:1571404 original size:20 final size:21
Alignment explanation
Indices: 1571361--1571398 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1571351 GCTAACTTAA
1571361 AATAGTATTTTATATTAAAAT
1 AATAGTATTTTATATTAAAAT
1571382 AATA-TATTTTAT-TTAAA
1 AATAGTATTTTATATTAAA
1571399 TTTAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AATAGTATTTTATATTAAAAT
Found at i:1572147 original size:2 final size:2
Alignment explanation
Indices: 1572140--1572186 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1572130 ATGGCTTAAG
1572140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1572182 AT AT A
1 AT AT A
1572187 ATGCATGACG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.