Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 13 of 207
Found at i:4359197 original size:37 final size:37
Alignment explanation
Indices: 4359144--4359277 Score: 146
Period size: 37 Copynumber: 3.6 Consensus size: 37
4359134 TCTAAAAGTA
4359144 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTT
* * * *
4359181 ATCTTAGTATTGTATAAGTTCA-GTAATTCGATATTTT
1 ATCTTAATATTATATAAGTT-ATGTAATTCAAAATTTT
* * * *
4359218 ATCTTAACATTATATGAGTTATGTAATATTATATAA-GTT
1 ATCTTAATATTATATAAGTTATGTAAT-TCA-A-AATTTT
4359257 ATCTTAATATTATATAAGTTA
1 ATCTTAATATTATATAAGTTA
4359278 AGAAATTTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.01
37 52 0.67
38 2 0.03
39 22 0.28
40 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCAAAATTTT
Found at i:4359266 original size:20 final size:20
Alignment explanation
Indices: 4359216--4359277 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
4359206 ATTCGATATT
* *
4359216 TTATCTTAACATTATATGAG
1 TTATCTTAATATTATATAAG
*
4359236 TTAT-GTAATATTATATAAG
1 TTATCTTAATATTATATAAG
4359255 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
4359275 TTA
1 TTA
4359278 AGAAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:4359748 original size:42 final size:43
Alignment explanation
Indices: 4359694--4359935 Score: 332
Period size: 43 Copynumber: 5.7 Consensus size: 43
4359684 TTTTAAAAAT
*
4359694 AAACGCCGCTATAGA-CTATGACCTTTAGCGGCGCTTTTC-CAC
1 AAACGCCGCTATAGATC-AAGACCTTTAGCGGCGCTTTTCTCAC
* * *
4359736 AAACGCCACTATAGATCAAGACCTATAGCAGCGCTTTTC-CTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTC-AC
*
4359779 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
*
4359822 AAACGCCGCTATAGATCAAGACCTTTAGCGACGC-TTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
** * *
4359864 AAACGTAGCTATAGACCAAGACCTTTAGCGACGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
*
4359907 AAACGCCGCTATAAAT-AAGACCTTTAGCG
1 AAACGCCGCTATAGATCAAGACCTTTAGCG
4359936 ACACTTTAAT
Statistics
Matches: 179, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
42 85 0.47
43 94 0.53
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
Found at i:4359866 original size:85 final size:85
Alignment explanation
Indices: 4359694--4359942 Score: 337
Period size: 85 Copynumber: 2.9 Consensus size: 85
4359684 TTTTAAAAAT
* *
4359694 AAACGCCGCTATAGACTATGACCTTTAGCGGCGCTTTTC-CACAAACGCCACTATAGATCAAGAC
1 AAACGCCGCTATAGAC-AAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
*
4359758 CTATAGC-AGCGCTTTTCCTAC
65 CTTTAGCGA-CGCTTTTCCTAC
*
4359779 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTATAGA-CAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
4359844 CTTTAGCGACGC-TTT-CTCAC
65 CTTTAGCGACGCTTTTCCT-AC
** * *
4359864 AAACGTAGCTATAGACCAAGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTATAAAT-AAGAC
1 AAACGCCGCTATAGA-CAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
*
4359928 CTTTAGCGACACTTT
65 CTTTAGCGACGCTTT
4359943 AATTACAAAC
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
84 18 0.12
85 96 0.65
86 33 0.22
87 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTATAGACAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGACC
TTTAGCGACGCTTTTCCTAC
Found at i:4359936 original size:42 final size:42
Alignment explanation
Indices: 4359694--4359965 Score: 273
Period size: 42 Copynumber: 6.4 Consensus size: 42
4359684 TTTTAAAAAT
* * *
4359694 AAACGCCGCTATAGACTATGACCTTTAGCGGCGCTTTTC-CAC
1 AAACGCCGCTATA-AATAAGACCTTTAGCGACGCTTTTCTCAC
* * *
4359736 AAACGCCACTATAGATCAAGACCTATAGC-AGCGCTTTTC-CTAC
1 AAACGCCGCTATAAAT-AAGACCTTTAGCGA-CGCTTTTCTC-AC
* * *
4359779 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTATAAAT-AAGACCTTTAGCGACGCTTTTCTCAC
*
4359822 AAACGCCGCTATAGATCAAGACCTTTAGCGACGC-TTTCTCAC
1 AAACGCCGCTATAAAT-AAGACCTTTAGCGACGCTTTTCTCAC
** **
4359864 AAACGTAGCTATAGACCAAGACCTTTAGCGACGCTTTTCTCAC
1 AAACGCCGCTATA-AATAAGACCTTTAGCGACGCTTTTCTCAC
* ** *
4359907 AAACGCCGCTATAAATAAGACCTTTAGCGACACTTTAATTAC
1 AAACGCCGCTATAAATAAGACCTTTAGCGACGCTTTTCTCAC
* *
4359949 AAACACCGCTAAAAATA
1 AAACGCCGCTATAAATA
4359966 CCATTCTTTG
Statistics
Matches: 196, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 104 0.53
43 91 0.46
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTATAAATAAGACCTTTAGCGACGCTTTTCTCAC
Found at i:4360047 original size:16 final size:16
Alignment explanation
Indices: 4360028--4360061 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4360018 AAATATTAAA
*
4360028 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
4360044 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
4360060 TA
1 TA
4360062 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:4365444 original size:22 final size:21
Alignment explanation
Indices: 4365419--4365474 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
4365409 TTCATATCCT
*
4365419 TTAAACCCTAAATCACAACCTC
1 TTAAACCCTAAACCACAACC-C
* * *
4365441 TTAAGCCTTAAACCCCAACCC
1 TTAAACCCTAAACCACAACCC
4365462 TTAAACCCATAAA
1 TTAAACCC-TAAA
4365475 ACCTAAATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.41, C:0.36, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCCTAAACCACAACCC
Found at i:4365918 original size:18 final size:17
Alignment explanation
Indices: 4365895--4365928 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4365885 AAATTTATTT
*
4365895 AATTAATATAAATATACC
1 AATTAAGATAAA-ATACC
4365913 AATTAAGATAAAATAC
1 AATTAAGATAAAATAC
4365929 ATTTTGCGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AATTAAGATAAAATACC
Found at i:4365979 original size:41 final size:41
Alignment explanation
Indices: 4365934--4366335 Score: 377
Period size: 41 Copynumber: 9.7 Consensus size: 41
4365924 AATACATTTT
* * * *
4365934 GCGGCGCTTTTCGAAAAATGCCGCAAAAGATCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
4365975 GCGGCGCTTCAT-AAAAAACGCCGCTATAGACTAGACCAGCGCATTA
1 GCGGCGCTT-TTCCAAAAACGCCGC--TA-A--AGACCAGAGCATTA
** *
4366021 GCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
4366062 GCGGCGC--TTCATAAAAATGCCGCTATAGACCAGAGCATTA
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
** * *
4366102 GCGGCGCTTCACCAAAAACGCTGCTAAAGGCCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
** *
4366143 GCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
4366184 GCGGCGC-TTCCACAAAAACGCCGCTAAAGGCCAGAGCATTA
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
4366225 GCGGCGC-TTCCACAAAAACGCCGCTAAAGGCCAGAGCATTA
1 GCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
4366266 GCGGCGC-TTTCCTAAAAACGCTGCTAAAGGCTCA-AGCATTA
1 GCGGCGCTTTTCC-AAAAACGCCGCTAAAGAC-CAGAGCATTA
* ** * *
4366307 GCGGCTCTTTTTGAGAAACGCCACTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
4366336 CCCCGAAAAC
Statistics
Matches: 310, Mismatches: 37, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.00
40 37 0.12
41 229 0.74
42 7 0.02
43 1 0.00
44 3 0.01
46 32 0.10
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:4366261 original size:123 final size:122
Alignment explanation
Indices: 4365947--4366311 Score: 493
Period size: 123 Copynumber: 2.9 Consensus size: 122
4365937 GCGCTTTTCG
* * ** *
4365947 AAAAATGCCGCAAAAGATCAGAGCATTAGCGGCGCTTCATAAAAAACGCCGCTATAGACTAGACC
1 AAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCACCAAAAACGCCGC--TA-A--AGGCC
* *
4366012 AGCGCATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCAT
61 AGAGCATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCAC
* *
4366074 AAAAATGCCGCTATAGACCAGAGCATTAGCGGCGCTTCACCAAAAACGCTGCTAAAGGCCAGAGC
1 AAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCACCAAAAACGCCGCTAAAGGCCAGAGC
4366139 ATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCCAC
66 ATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTT-CAC
* *
4366197 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTC-CACAAAAACGCCGCTAAAGGCCAGAG
1 AAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCAC-CAAAAACGCCGCTAAAGGCCAGAG
* * * *
4366261 CATTAGCGGCGCTTTC-CTAAAAACGCTGCTAAAGGCTCA-AGCATTAGCGGC
65 CATTAGCGGCGC-TTCACCAAAAACGCCGCTATAGAC-CAGAGCATTAGCGGC
4366312 TCTTTTTGAG
Statistics
Matches: 217, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
122 63 0.29
123 100 0.46
124 6 0.03
125 2 0.01
127 46 0.21
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.16
Consensus pattern (122 bp):
AAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCACCAAAAACGCCGCTAAAGGCCAGAGC
ATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCAC
Found at i:4366335 original size:82 final size:82
Alignment explanation
Indices: 4365947--4366311 Score: 470
Period size: 82 Copynumber: 4.4 Consensus size: 82
4365937 GCGCTTTTCG
* * ** *
4365947 AAAAATGCCGCAAAAGATCAGAGCATTAGCGGCGCTTCATAAAAAACGCCGCTATAGACTAGACC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGC--TA-A--AGACC
*
4366012 AGCGCATTAGCGGCGCTTCACC
61 AGAGCATTAGCGGCGCTTCACC
* * * *
4366034 AAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCAT-AAAAATGCCGCTATAGACCAGAGC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGACCAGAGC
4366098 ATTAGCGGCGCTTCACC
66 ATTAGCGGCGCTTCACC
* * *
4366115 AAAAACGCTGCTAAAGGCCAGAGCATTAGCGGCGCTTCACCAAAAACGCCGCTATAGACCAGAGC
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGACCAGAGC
4366180 ATTAGCGGCGCTTC-CAC
66 ATTAGCGGCGCTTCAC-C
*
4366197 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCCA-CAAAAACGCCGCTAAAGGCCAGAG
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTT-CATCAAAAACGCCGCTAAAGACCAGAG
*
4366261 CATTAGCGGCGCTTTC-CT
65 CATTAGCGGCGC-TTCACC
*
4366279 AAAAACGCTGCTAAAGGCTCA-AGCATTAGCGGC
1 AAAAACGCCGCTAAAGGC-CAGAGCATTAGCGGC
4366312 TCTTTTTGAG
Statistics
Matches: 256, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
81 63 0.25
82 137 0.54
83 8 0.03
84 2 0.01
86 10 0.04
87 36 0.14
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.16
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGACCAGAGC
ATTAGCGGCGCTTCACC
Found at i:4369127 original size:148 final size:147
Alignment explanation
Indices: 4368807--4369133 Score: 349
Period size: 146 Copynumber: 2.2 Consensus size: 147
4368797 GTTTATAAAT
* * * * *
4368807 AAGCGCCACTAACTATAAG-TCGAAACGCAGTCGTTTCATCAACAAATAGCGCACACCTGTGGCG
1 AAGCGCCACTAACTATAAGATCAAAACGCAGTCGCTTCATCAACAAATACCGCAAACCCGTGGCG
* ** *
4368871 TTTTTGAAAAAACGCCACTAATAATACAACAAAACGGCCTCGTATCGATCAATGTTAAAACATTT
66 TTTTTGAAAAAACGCCACTAATAATACAAAAAAACGGCAGCGTATCGATAAATGTTAAAACATTT
* *
4368936 TGGCGGCGTTTTAACTA
131 TGGCAGCATTTTAACTA
** *
4368953 AAGCGCCACTAACTATAA-ATCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGGC-
1 AAGCGCCACTAACTATAAGATCAAAACGCAGTCGCTTCATCAACAAATACCGCAAACCCGTGGCG
* * ** * * * **
4369016 TTTTTCTAAAAATCGCCACTAATAACATTTAAAAAAACGGTAGCGTTTCTATAAATGTTTGAACA
66 TTTTT-GAAAAAACGCCACTAAT-A-ATACAAAAAAACGGCAGCGTATCGATAAATGTTAAAAC-
*
4369081 ATTTT-GCAGCATTTTAAGTA
127 ATTTTGGCAGCATTTTAACTA
* *
4369101 AAGCGCCACTAAATATAAGATC-AAACGAAGTCG
1 AAGCGCCACTAACTATAAGATCAAAACGCAGTCG
4369134 TTTCCCTAAC
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
145 5 0.03
146 69 0.46
147 1 0.01
148 66 0.44
149 8 0.05
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (147 bp):
AAGCGCCACTAACTATAAGATCAAAACGCAGTCGCTTCATCAACAAATACCGCAAACCCGTGGCG
TTTTTGAAAAAACGCCACTAATAATACAAAAAAACGGCAGCGTATCGATAAATGTTAAAACATTT
TGGCAGCATTTTAACTA
Found at i:4369384 original size:19 final size:19
Alignment explanation
Indices: 4369360--4369396 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4369350 CGCTGTTCCC
*
4369360 CTTCCCAGTTACAGGATAA
1 CTTCCCACTTACAGGATAA
4369379 CTTCCCACTTACAGGATA
1 CTTCCCACTTACAGGATA
4369397 CAAATTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (19 bp):
CTTCCCACTTACAGGATAA
Found at i:4370769 original size:114 final size:112
Alignment explanation
Indices: 4370623--4370950 Score: 354
Period size: 114 Copynumber: 2.9 Consensus size: 112
4370613 GACCTTGTTG
* * * *
4370623 GGCTTAGGTTT-TTGGCGGCGCTTCCCAAAAACGCCGTTAAAGCCCTGAGCATTAGCAGCGCTTC
1 GGCTTAGGTTTCTTTGCGGCGCTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
* *
4370687 ACCATAAACGCCACTAAATCCCCGAATACTCAAAGAACGGCGTCGTTC
66 ACCAAAAACGCCACTAAATCCCCGAATACTCAAA-AACGGCGTCGTTA
* ** * * *
4370735 GGCTTATGTTTCTTTGCGGCGCTTCCACAGAAACGCCGCTAAAGTACTGAACATTGGCGGCGCTA
1 GGCTTAGGTTTCTTTGCGGCGCTTCC-CAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
* * * *
4370800 C-CTCAAAAACGCCGCTAAGTCACCGAATGCTCAGAAAACGGCGTCGTTA
65 CAC-CAAAAACGCCACTAAATCCCCGAATACTCA-AAAACGGCGTCGTTA
* * * * * *
4370849 GTCTTAGGTTTCTTTGCGGCGATTTCTCAGAAACGTCGCTAAATCCCTGAGCTTTAGCGGCGCTT
1 GGCTTAGGTTTCTTTGCGGCG-CTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
** * * *
4370914 CATAAAAAATGCCACCAAATCCCCGAATACGCAAAAA
65 CACCAAAAACGCCACTAAATCCCCGAATACTCAAAAA
4370951 AACGACGTCG
Statistics
Matches: 173, Mismatches: 37, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
112 10 0.06
113 18 0.10
114 140 0.81
115 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (112 bp):
GGCTTAGGTTTCTTTGCGGCGCTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
ACCAAAAACGCCACTAAATCCCCGAATACTCAAAAACGGCGTCGTTA
Found at i:4373448 original size:16 final size:15
Alignment explanation
Indices: 4373414--4373462 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4373404 AAATTATTGA
4373414 AATAACATTTTAATT
1 AATAACATTTTAATT
*
4373429 AATAACATTTTTATT
1 AATAACATTTTAATT
* *
4373444 CAATAA-ATTATGATT
1 -AATAACATTTTAATT
4373459 AATA
1 AATA
4373463 GGCTTGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (15 bp):
AATAACATTTTAATT
Found at i:4376703 original size:23 final size:22
Alignment explanation
Indices: 4376672--4376715 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4376662 AAGCTTAAAA
4376672 ATATATATAT-TAAAAAATATGT
1 ATATATATATAT-AAAAATATGT
4376694 ATATATTATATATAAAAATATG
1 ATATA-TATATATAAAAATATG
4376716 CGTGTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
ATATATATATATAAAAATATGT
Found at i:4376842 original size:18 final size:18
Alignment explanation
Indices: 4376797--4376845 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
4376787 GATAATAACC
4376797 ATAATAATAAATAATATA
1 ATAATAATAAATAATATA
*
4376815 ACAATAATAAATAATGAT-
1 ATAATAATAAATAAT-ATA
*
4376833 ATAATGATAAATA
1 ATAATAATAAATA
4376846 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAATAATAAATAATATA
Found at i:4376842 original size:21 final size:21
Alignment explanation
Indices: 4376780--4376836 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
4376770 ATGAATATAG
*
4376780 AAATAATGATAATAACCATAAT
1 AAATAATGAT-ATAACAATAAT
*
4376802 -AATAAATAATATAACAATAAT
1 AAAT-AATGATATAACAATAAT
4376823 AAATAATGATATAA
1 AAATAATGATATAA
4376837 TGATAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAATAATGATATAACAATAAT
Found at i:4377621 original size:9 final size:10
Alignment explanation
Indices: 4377602--4377627 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4377592 TAAATAGCAG
4377602 AAAAATAAAA
1 AAAAATAAAA
4377612 AAAAATAAAA
1 AAAAATAAAA
4377622 AAAAAT
1 AAAAAT
4377628 CCAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:4377876 original size:17 final size:18
Alignment explanation
Indices: 4377854--4377897 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4377844 AAATTAGTTG
*
4377854 TTGGGCCTG-TTAATGGT
1 TTGGGCCCGTTTAATGGT
*
4377871 TTGGGCCCGTTTATTGGT
1 TTGGGCCCGTTTAATGGT
*
4377889 TTGTGCCCG
1 TTGGGCCCG
4377898 GGCATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.07, C:0.18, G:0.34, T:0.41
Consensus pattern (18 bp):
TTGGGCCCGTTTAATGGT
Found at i:4378555 original size:89 final size:89
Alignment explanation
Indices: 4378363--4378862 Score: 640
Period size: 89 Copynumber: 5.7 Consensus size: 89
4378353 ATAAGACTTG
* * * * * *
4378363 TATCTTTGATCTACTTCACGCTAATACGTGAAGACAAGACCTGCTATCTTTGATCTACTTCATGC
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC--GC
* * *
4378428 CA-ATACA-T-GAAGACAAGATTTGC
64 CACCTGCATTGGAAGACAAGATCTGC
* * * *
4378451 TTTCTTTGATATACTTTACGCCAATACATAAAGACAAGATCCT-TTTTCTTCGATCTACTTCGCC
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGTTTTCTTCGATCTACTTCGCC
4378515 ACCTGCATTGGAAGACAAGATCTGC
65 ACCTGCATTGGAAGACAAGATCTGC
* * *
4378540 TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTAGCCA
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
* * *
4378605 CCAGTATGGGAAGACAAGATCTGC
66 CCTGCATTGGAAGACAAGATCTGC
* * * * *
4378629 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGA-CTTC-ACGTCA
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
* * *
4378692 -ATACA-T-GAAGACAAGATCTAC
66 CCTGCATTGGAAGACAAGATCTGC
4378713 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
* * *
4378778 CCAGCATGGGAAGACAATATCTGC
66 CCTGCATTGGAAGACAAGATCTGC
4378802 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC
4378863 ACGCCAATAC
Statistics
Matches: 356, Mismatches: 46, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
84 65 0.18
85 3 0.01
86 9 0.03
87 8 0.02
88 54 0.15
89 217 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (89 bp):
TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
CCTGCATTGGAAGACAAGATCTGC
Found at i:4378832 original size:262 final size:263
Alignment explanation
Indices: 4378363--4378861 Score: 795
Period size: 262 Copynumber: 1.9 Consensus size: 263
4378353 ATAAGACTTG
* * *
4378363 TATCTTTGATCTACTTCACGCTAATACGTGAAGACAAGACCTGCTATCTTTGATCTACTTCATGC
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTGCTATCTTTG---TACTTCACGC
* * * *
4378428 CAATACATGAAGACAAGATTTGCTTTCTTTGATATACTTTACGCCAATACATAAAGACAAGATCC
63 CAATACATGAAGACAAGATCTACTATCTTTGATATACTTCACGCCAATACATAAAGACAAGATCC
* *
4378493 TTTTTCTTCGATCTACTTCGCCACCTGCATTGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
128 TTTTTCTTCGATCTACTTCGCCACCAGCATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
* *
4378558 TGCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTAGCCACCAGTATGGGAAGACAAG
193 CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTAGCCACCAGTATGGGAAGACAAG
4378623 ATCTGC
258 ATCTGC
* * *
4378629 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTG-ACTTCACGTCAA
1 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTGCTATCTTTGTACTTCACGCCAA
* *
4378693 TACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGT
66 TACATGAAGACAAGATCTACTATCTTTGATATACTTCACGCCAATACATAAAGACAAGATCCT-T
*
4378757 TTTCTTCGATCTACTTCGCCACCAGCATGGGAAGACAATATCTGCTATCTTTGATCTACTTCACG
130 TTTCTTCGATCTACTTCGCCACCAGCATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
4378822 CCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTT
195 CCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTT
4378862 CACGCCAATA
Statistics
Matches: 215, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
261 2 0.01
262 165 0.77
266 48 0.22
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (263 bp):
TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTGCTATCTTTGTACTTCACGCCAA
TACATGAAGACAAGATCTACTATCTTTGATATACTTCACGCCAATACATAAAGACAAGATCCTTT
TTCTTCGATCTACTTCGCCACCAGCATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
CAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTAGCCACCAGTATGGGAAGACAAGATC
TGC
Found at i:4378862 original size:133 final size:132
Alignment explanation
Indices: 4378392--4378900 Score: 649
Period size: 133 Copynumber: 3.9 Consensus size: 132
4378382 GCTAATACGT
* * *
4378392 GAAGACAAGACCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATTTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * *
4378457 TGATATACTTTACGCCAATACATAAAGACAAGATCCT-TTTTCTTCGATCTACTTCGCCACCTGC
66 TGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGTTTTCTTCGATCTACTTCGCCACCAGC
4378521 ATTG
130 A-TG
* *
4378525 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*** * * * *
4378590 TGATCTACTT-A-GCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
66 TGATCTACTTCACGCCA--A-TACATGAAGACAAGATCTGTTTTCTTCGATCTACTT--CGCCAC
*
4378653 TA-CAT-
126 CAGCATG
* * * *
4378658 GAAGACAAGATCTGCTTTCTTTG----ACTTCACGTCAATACATGAAGACAAGATCTACTATCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
4378719 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGCA
66 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGCA
4378784 TGG
131 T-G
* *
4378787 GAAGACAATATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * *
4378852 CGATCTACTTCACGCCAATACATGAAGACAATATCTATTTTCTTCGATC
66 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATC
4378901 GATTCCACTG
Statistics
Matches: 324, Mismatches: 37, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
126 6 0.02
127 3 0.01
128 30 0.09
129 65 0.20
130 1 0.00
131 8 0.02
132 1 0.00
133 176 0.54
134 27 0.08
135 2 0.01
136 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (132 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
TGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGCA
TG
Found at i:4378900 original size:44 final size:44
Alignment explanation
Indices: 4378365--4378887 Score: 591
Period size: 44 Copynumber: 11.9 Consensus size: 44
4378355 AAGACTTGTA
* * * *
4378365 TCTTTGATCTACTTCACGCTAATACGTGAAGACAAGACCTGCTA
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
4378409 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATTTGCTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
4378453 TCTTTGATATACTTTACGCCAATACATAAAGACAAGATCCT-TTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGCTT
* * * *
4378497 TCTTCGATCTACTT--CGCCACCTGCATTGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCACGCCA-ATACA-T-GAAGACAAGATCTGCTT
* *
4378542 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*** *
4378586 TCTTTGATCTACTT-A-GCCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCACGCCA--A-TACATGAAGACAAGATCTGCTT
4378631 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
4378675 TCTTTG----ACTTCACGTCAATACATGAAGACAAGATCTACTA
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
4378715 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* ** * *
4378759 TCTTCGATCTACTT--CGCCACCAGCATGGGAAGACAATATCTGCTA
1 TCTTTGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTT
*
4378804 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
4378848 TCTTCGATCTACTTCACGCCAATACATGAAGACAATATCT
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
4378888 ATTTTCTTCG
Statistics
Matches: 403, Mismatches: 55, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
40 37 0.09
42 15 0.04
43 7 0.02
44 238 0.59
45 85 0.21
46 7 0.02
47 14 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:4379080 original size:132 final size:132
Alignment explanation
Indices: 4378920--4379163 Score: 366
Period size: 132 Copynumber: 1.8 Consensus size: 132
4378910 GCCGACTAGA
* *
4378920 GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAA-TCTGCCAT-CT
1 GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATTC-ACCATCCT
**
4378983 TCGATCTACTTTACTACTGCCTAGGGAGATAAGACCTGTAATCATCAATCTATTCCACTGCTGCC
65 T-GATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCATCAATCTATTCCACTGCTGCC
4379048 CAAT
129 CAAT
*
4379052 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCCTT
1 GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCCTT
* * * * *
4379117 GATCTGCTCCACTACTGCTTAGGGAGATATGATCTGTAATCTTCAAT
66 GATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCATCAAT
4379164 TTGTTCAACT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
132 95 0.95
133 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
GAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCCTT
GATCTACTCCACTACTGCCTAGGGAGATAAGACCTGTAATCATCAATCTATTCCACTGCTGCCCA
AT
Found at i:4379338 original size:100 final size:100
Alignment explanation
Indices: 4379183--4380145 Score: 1624
Period size: 100 Copynumber: 9.6 Consensus size: 100
4379173 TGCAATGTTG
* * * *
4379183 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCC
4379247 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* * * * * *
4379283 GTGAAACTAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTACACTGTTAAGGAAGTAAGATTCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
4379348 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* * * * * *
4379383 AGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTTCACCGCACCG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCC
* *
4379447 GTCGTTGTGGCTTCAATCTTTTTAATTACAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
4379483 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* *
4379548 TCGTTGTGGCTTCAATCTTTTTAATTGCAGTATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
4379583 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
4379648 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
4379683 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
4379748 TCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
4379783 GGGAAACCAGATCCGCCGTCATAGCTTCAATATGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
4379848 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
4379883 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
4379948 CCGTTGTGGCTTCAATCTTTTTAATTACAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
4379983 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* *
4380048 CCGTTGTGGCTTCAATCTTTTTAATTACAGTATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
4380083 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATC
4380146 TATGGTTTCG
Statistics
Matches: 812, Mismatches: 48, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
99 1 0.00
100 809 1.00
101 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
Found at i:4381415 original size:21 final size:21
Alignment explanation
Indices: 4381391--4381432 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4381381 TAGCCTCTCC
4381391 ATTTTTA-CTTTTTCATTTTTT
1 ATTTTTATC-TTTTCATTTTTT
4381412 ATTTTTATCTTTTCATTTTTT
1 ATTTTTATCTTTTCATTTTTT
4381433 CACATCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTTTATCTTTTCATTTTTT
Found at i:4382362 original size:7 final size:7
Alignment explanation
Indices: 4382350--4382374 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4382340 GAATAAAGTT
4382350 AAAAATA
1 AAAAATA
4382357 AAAAATA
1 AAAAATA
4382364 AAAAATA
1 AAAAATA
4382371 AAAA
1 AAAA
4382375 CAGAGTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:4384279 original size:140 final size:140
Alignment explanation
Indices: 4384027--4384306 Score: 515
Period size: 140 Copynumber: 2.0 Consensus size: 140
4384017 AATTGCCTAA
4384027 TGTGAAAATTAAAGTTAATTTATTCAAATTTAACAGAATTCAATTAATAATATTATCAATTAAAT
1 TGTGAAAATTAAAGTTAATTTATTCAAATTTAACAGAATTCAATTAATAATATTATCAATTAAAT
4384092 TTTAATATTAAAATCAAACGAGTAAGGGACTAAACTCTTGAAATTGAATTTTAAGGGACCAATAT
66 TTTAATATTAAAATCAAACGAGTAAGGGACTAAACTCTTGAAATTGAATTTTAAGGGACCAATAT
*
4384157 TTAACTGTAT
131 TTAACAGTAT
* *
4384167 TGTGAAAATTAAATTTCATTTATTCAAATTTAACAGAATTCAATTAATAATATTATCAATTAAAT
1 TGTGAAAATTAAAGTTAATTTATTCAAATTTAACAGAATTCAATTAATAATATTATCAATTAAAT
* *
4384232 TTTAATTTTAAAATCAAACGAGTAAGGGACTAAACTCTTGAAATTGAATTTTAAGGGATCAATAT
66 TTTAATATTAAAATCAAACGAGTAAGGGACTAAACTCTTGAAATTGAATTTTAAGGGACCAATAT
4384297 TTAACAGTAT
131 TTAACAGTAT
4384307 AAGAATACAG
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (140 bp):
TGTGAAAATTAAAGTTAATTTATTCAAATTTAACAGAATTCAATTAATAATATTATCAATTAAAT
TTTAATATTAAAATCAAACGAGTAAGGGACTAAACTCTTGAAATTGAATTTTAAGGGACCAATAT
TTAACAGTAT
Found at i:4390600 original size:14 final size:15
Alignment explanation
Indices: 4390581--4390616 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4390571 ACCCAAATAC
*
4390581 AGCCCAAAAC-CCGA
1 AGCCCAAAACACCCA
4390595 AGCCCAAAACACCCA
1 AGCCCAAAACACCCA
4390610 AGCCCAA
1 AGCCCAA
4390617 TTTCATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.44, C:0.44, G:0.11, T:0.00
Consensus pattern (15 bp):
AGCCCAAAACACCCA
Found at i:4391599 original size:3 final size:3
Alignment explanation
Indices: 4391591--4391636 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
4391581 TTTTAGTGTC
* * *
4391591 ATT ATT ATT ATT ATT ATT ATC ATT ACT ACT ATT ATT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
4391637 GGCTTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4404625 original size:50 final size:50
Alignment explanation
Indices: 4404562--4404718 Score: 174
Period size: 50 Copynumber: 3.1 Consensus size: 50
4404552 GCAGTGGAAC
*
4404562 AGATTGAAACTACAACAGTGAATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAACTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAGA
* * * * * ** *
4404612 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAGT
1 AGATTGAAACTACAACAGCGAATCTTACTTCCCTGA-CATTGCAATTAAGA
* * *
4404662 AGATTGAAACTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAA-A
1 AGATTGAAACTACAACAGCGAATCTTACTTCCCTGACATTGCAA-TTAAGA
4404712 AGATTGA
1 AGATTGA
4404719 GGCCACGACG
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
49 1 0.01
50 80 0.95
51 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (50 bp):
AGATTGAAACTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAGA
Found at i:4404673 original size:100 final size:100
Alignment explanation
Indices: 4404401--4405124 Score: 854
Period size: 100 Copynumber: 7.3 Consensus size: 100
4404391 AAACCATAGT
* * * * * *
4404401 TTGCAATTTAAAAGATTGAGGCCACAAAGACGAATCTTACTTTCTCAAGTGGTGCAGTGGAACAG
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTC-CAAGCGATGCAGCGGAACAG
* *
4404466 ATTGAAGCTACAATGGCGGATCTCACTTCCCTGACA
65 ATTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * ** * * * *
4404502 TTGTAA-TCAAAAGATTGAGGCCACAACGGCAAATCTTA-TTTTCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAGA
* * * *
4404565 TTGAAACTACAACAGTGAATCTTACTTCCCTGACA
66 TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * * * * * **
4404600 TTGCAA-TTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGTAG
1 TTGCAATTTAA-AAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAG
* *
4404664 ATTGAAACTACAACGGCGAATCTCACTTCCCCGACA
65 ATTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * **
4404700 TTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTACTTACTTAGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAGA
*
4404765 TTGAAGCTACAACGGTGAATCTCACTTCTCC-GACA
66 TTGAAGCTACAACGGCGAATCTCACTTC-CCTGACA
* * ** *
4404800 TTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTACTTACTTAGCGATGCAGCGAAACAGA
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAGA
*
4404865 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * *
4404900 TTGCAATTTAAAAGATTGAGGCCACGACGGCGGATCTTAC-TTCCAAGCGAT-CTAGAGGAACAA
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGC-AGCGGAACAG
* * * *
4404963 ATTGAAGCTACAATGACGGATCTCAC-TCCCTCAACA
65 ATTGAAGCTACAACGGCGAATCTCACTTCCCT-GACA
* * *
4404999 TTGCAATTTAAAAGATTGAGGCCACGACGGCAGATCTTAC-TTCCAAGCAATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAGA
* *
4405063 TTGAAGCTACAATGGCGAATCTCACTTTCCTGACA
66 TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
*
4405098 TTGCAA-TTAAAATATTGAGGCCACAAC
1 TTGCAATTTAAAAGATTGAGGCCACAAC
4405125 AGCAAATCTT
Statistics
Matches: 548, Mismatches: 66, Indels: 21
0.86 0.10 0.03
Matches are distributed among these distances:
98 80 0.15
99 159 0.29
100 298 0.54
101 11 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTTCCAAGCGATGCAGCGGAACAGA
TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
Found at i:4404730 original size:50 final size:50
Alignment explanation
Indices: 4404676--4404943 Score: 204
Period size: 50 Copynumber: 5.4 Consensus size: 50
4404666 TGAAACTACA
4404676 ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
1 ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
* * * ** **** * * * *
4404726 ACGGCGGATCTTACTT-ACTTAGCGA-TGCAGCGGAACAGATTGAAGCTACA
1 ACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTAAAAGATTGAGGCCACG
* *
4404776 ACGGTGAATCTCACTTCTCCGACATTGCAATTTAAAAGATTGAGGCCACG
1 ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
* * * ** *** * * *
4404826 ACGGCGGATCTTACTT-ACTTAGCGA-TGC-AGCGAAACAGATTGAAGCTACA
1 ACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTAAA-AGATTGAGGCCACG
4404876 ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
1 ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
* *
4404926 ACGGCGGATCTTACTTCC
1 ACGGCGAATCTCACTTCC
4404944 AAGCGATCTA
Statistics
Matches: 156, Mismatches: 52, Indels: 20
0.68 0.23 0.09
Matches are distributed among these distances:
49 10 0.06
50 136 0.87
51 10 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (50 bp):
ACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACG
Found at i:4409378 original size:22 final size:21
Alignment explanation
Indices: 4409328--4409380 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4409318 ATATAACAAA
4409328 TTATAAAAA-TTATTTAAAAT
1 TTATAAAAATTTATTTAAAAT
* *
4409348 TAACAAAAAATTTATTTAAAATT
1 TTA-TAAAAATTTATTTAAAA-T
4409371 TTATAAAAAT
1 TTATAAAAAT
4409381 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 5 0.19
22 16 0.62
23 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATAAAAATTTATTTAAAAT
Found at i:4410008 original size:19 final size:19
Alignment explanation
Indices: 4409975--4410160 Score: 83
Period size: 20 Copynumber: 9.3 Consensus size: 19
4409965 TGTTCATGTT
* *
4409975 TTTTTATGATTTTTTATAA
1 TTTTTATAAATTTTTATAA
*
4409994 TTTTATATCAATTTTTATAA
1 TTTT-TATAAATTTTTATAA
**
4410014 TTTTTATAAATTTCAATAA
1 TTTTTATAAATTTTTATAA
* *
4410033 TTTTTATGATTTTTTAT-A
1 TTTTTATAAATTTTTATAA
* *
4410051 TGTTTTCATAAAATTTCA-AA
1 T-TTTT-ATAAATTTTTATAA
* * *
4410071 TATATTCTAATAATTTTATAA
1 T-TTTTATAA-ATTTTTATAA
*
4410092 TTGTTT-TAAATTGTATTAAAA
1 TT-TTTATAAATT-T-TTATAA
* *
4410113 TTTATTTTTATAATATTTATAA
1 -TT-TTTATA-AATTTTTATAA
*
4410135 GTTTTTATTAATTTTTA-ATA
1 -TTTTTATAAATTTTTATA-A
4410155 TTTTTA
1 TTTTTA
4410161 ATTTTTAATA
Statistics
Matches: 127, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
18 2 0.02
19 45 0.35
20 48 0.38
21 14 0.11
22 12 0.09
23 3 0.02
24 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAA
Found at i:4410049 original size:10 final size:9
Alignment explanation
Indices: 4409975--4410046 Score: 72
Period size: 9 Copynumber: 7.6 Consensus size: 9
4409965 TGTTCATGTT
*
4409975 TTTTTATGAT
1 TTTTTAT-AA
4409985 TTTTTATAA
1 TTTTTATAA
4409994 TTTTATATCAA
1 TTTT-TAT-AA
4410005 TTTTTATAA
1 TTTTTATAA
4410014 TTTTTATAAA
1 TTTTTAT-AA
**
4410024 TTTCAATAA
1 TTTTTATAA
*
4410033 TTTTTATGA
1 TTTTTATAA
4410042 TTTTT
1 TTTTT
4410047 TATATGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
9 27 0.51
10 20 0.38
11 6 0.11
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4410061 original size:29 final size:28
Alignment explanation
Indices: 4409975--4410061 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
4409965 TGTTCATGTT
4409975 TTTTTATGATTTTTTATAATTTTAT-ATCAA
1 TTTTTATGATTTTTTAT-ATTTT-TCAT-AA
* **
4410005 TTTTTAT-AATTTTTATAAATTTCAATAA
1 TTTTTATGATTTTTTATATTTTTC-ATAA
4410033 TTTTTATGATTTTTTATATGTTTTCATAA
1 TTTTTATGATTTTTTATAT-TTTTCATAA
4410062 AATTTCAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 1 0.02
28 12 0.26
29 23 0.49
30 11 0.23
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTTATGATTTTTTATATTTTTCATAA
Found at i:4410194 original size:9 final size:9
Alignment explanation
Indices: 4410116--4410231 Score: 53
Period size: 9 Copynumber: 12.6 Consensus size: 9
4410106 ATTAAAATTT
4410116 ATTTTTATA
1 ATTTTTATA
*
4410125 ATATTTATA
1 ATTTTTATA
4410134 AGTTTTTATTA
1 A-TTTTTA-TA
4410145 A-TTTT-TA
1 ATTTTTATA
4410152 ATATTTT-TA
1 AT-TTTTATA
4410161 ATTTTTAATA
1 ATTTTT-ATA
* **
4410171 GTTTCAATA
1 ATTTTTATA
*
4410180 TGTTTTTATA
1 -ATTTTTATA
*
4410190 ATTTTTTATG
1 A-TTTTTATA
*
4410200 GTTTTTAT-
1 ATTTTTATA
*
4410208 -TTTTTATG
1 ATTTTTATA
4410216 ATCTTTTAATA
1 AT-TTTT-ATA
4410227 ATTTT
1 ATTTT
4410232 CTATGAGAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
7 10 0.12
8 4 0.05
9 32 0.38
10 31 0.37
11 7 0.08
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:4410530 original size:18 final size:18
Alignment explanation
Indices: 4410507--4410541 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4410497 TTATGAATAT
4410507 GTTTTTGTCTTTTTATAA
1 GTTTTTGTCTTTTTATAA
4410525 GTTTTTGTCTTTTTATA
1 GTTTTTGTCTTTTTATA
4410542 CTTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (18 bp):
GTTTTTGTCTTTTTATAA
Found at i:4412901 original size:46 final size:46
Alignment explanation
Indices: 4412832--4412920 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
4412822 GTTTTTGCCA
* *
4412832 AGGTTCCGAGTTCCTAGATATGTTGC-ATACTTGAGAATACATGTTT
1 AGGTTCCGAGCTCCTAGATATGTTGCGA-ACTCGAGAATACATGTTT
*
4412878 AGGTTCTGAGCTCCT-GCATATGTTGCGAACTCGAGAATACATG
1 AGGTTCCGAGCTCCTAG-ATATGTTGCGAACTCGAGAATACATG
4412921 AATATTAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 1 0.03
46 36 0.95
47 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (46 bp):
AGGTTCCGAGCTCCTAGATATGTTGCGAACTCGAGAATACATGTTT
Found at i:4414798 original size:40 final size:40
Alignment explanation
Indices: 4414727--4414850 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
4414717 ATTGGTGGCG
*
4414727 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTCTGCGGCA
1 TTTAT-GGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCA
* * *
4414768 TTTATGAGAAAAACACCG-TATTGCTTTACCTTTTGTGGCG
1 TTTATG-GAAAAACGCCGCTATTGCTTTACCTTTTGCGGCA
* * *
4414808 TTTATGCAAAAACGCCGCTAATACTTTACCTTTTGCGGCA
1 TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCA
4414848 TTT
1 TTT
4414851 TTTGGTTAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.13
40 47 0.66
41 15 0.21
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCA
Found at i:4416231 original size:3 final size:3
Alignment explanation
Indices: 4416223--4416248 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4416213 AAAATAATGA
4416223 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
4416249 TTAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:4424458 original size:22 final size:24
Alignment explanation
Indices: 4424407--4424459 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
4424397 TTTTTATGAC
4424407 TAAATTATTGTTATTAAATATGCTT
1 TAAATTATTGTTATT-AATATGCTT
*
4424432 GAAATTATTG-TATT-ATAT-CTTT
1 TAAATTATTGTTATTAATATGC-TT
4424454 TAAATT
1 TAAATT
4424460 GAATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 11 0.44
24 4 0.16
25 9 0.36
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
TAAATTATTGTTATTAATATGCTT
Found at i:4428636 original size:3 final size:3
Alignment explanation
Indices: 4428628--4428677 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
4428618 TCAACACTGT
*
4428628 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4428675 TAA
1 TAA
4428678 AACCTTCTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4434928 original size:17 final size:17
Alignment explanation
Indices: 4434908--4434941 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4434898 TATATTTATT
*
4434908 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
4434925 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
4434942 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:4434962 original size:40 final size:41
Alignment explanation
Indices: 4434906--4435015 Score: 186
Period size: 40 Copynumber: 2.7 Consensus size: 41
4434896 AATATATTTA
*
4434906 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTGAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
4434947 TTTTTT-TAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTGAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
4434987 TTTTTTGAAATTTTTTTACTTTTAAAATA
1 TTTTTTGAAATTTTTTTAATTTTAAAATA
4435016 AATTTTTTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 39 0.60
41 26 0.40
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (41 bp):
TTTTTTGAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:4435039 original size:9 final size:9
Alignment explanation
Indices: 4435025--4435049 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4435015 AAATTTTTTT
4435025 AAAAAATTA
1 AAAAAATTA
4435034 AAAAAATTA
1 AAAAAATTA
4435043 AAAAAAT
1 AAAAAAT
4435050 AAATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:4436748 original size:19 final size:19
Alignment explanation
Indices: 4436721--4436764 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4436711 GTTAATTTTG
*
4436721 TGAATTATATAATGTA-TGA
1 TGAAATATAT-ATGTACTGA
*
4436740 TGAAATATATATTTACTGA
1 TGAAATATATATGTACTGA
4436759 TGAAAT
1 TGAAAT
4436765 GAGAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (19 bp):
TGAAATATATATGTACTGA
Found at i:4436931 original size:46 final size:45
Alignment explanation
Indices: 4436833--4436951 Score: 188
Period size: 45 Copynumber: 2.6 Consensus size: 45
4436823 TTTGAGTACT
*
4436833 TCTGATCAAGTGACAAAGTGATAAGTGATAGTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
4436878 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
*
4436924 TCTGATCAAG-AAC-AAGTGATAAAGTGGT
1 TCTGATCAAGTGACAAAGTGAT-AAGTGGT
4436952 GACAAAGTGA
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
44 7 0.10
45 39 0.56
46 24 0.34
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:4437042 original size:62 final size:62
Alignment explanation
Indices: 4436887--4437077 Score: 303
Period size: 63 Copynumber: 3.0 Consensus size: 62
4436877 ATCTGATCAA
*
4436887 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAACAAGTGATAAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGAACAAGTGAT-AAGTG
4436950 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGAACAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGAACAAGTGATAAGTG
* * *
4437012 GTGATAAAGTGATAAGTGGCAGCTTTAGCTACACTTTTCTGATCAAGTGATA-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-AG-GA-ACAAGTGATAAGTG
4437076 GT
1 GT
4437078 AGCCTAGCTA
Statistics
Matches: 121, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
62 46 0.38
63 58 0.48
64 16 0.13
65 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (62 bp):
GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGAACAAGTGATAAGTG
Found at i:4438155 original size:22 final size:22
Alignment explanation
Indices: 4438084--4438155 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
4438074 TGACCTCTCC
* * *
4438084 TTTTTTTTTCAGTTTCATATTT
1 TTTTTTTTTCACTTTGATTTTT
* *
4438106 TTTTATTTTGACTTTGATTTTT
1 TTTTTTTTTCACTTTGATTTTT
* *
4438128 CCTTTTTTTT-ATTTTGATTTTT
1 -TTTTTTTTTCACTTTGATTTTT
4438150 TTTTTT
1 TTTTTT
4438156 GAATTGGATC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 5 0.12
22 28 0.70
23 7 0.17
ACGTcount: A:0.11, C:0.07, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTCACTTTGATTTTT
Found at i:4444249 original size:3 final size:3
Alignment explanation
Indices: 4444243--4444281 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4444233 TTTTCTTACC
4444243 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4444282 TCATTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4444561 original size:83 final size:82
Alignment explanation
Indices: 4444466--4444752 Score: 337
Period size: 83 Copynumber: 3.4 Consensus size: 82
4444456 TTACAGAAAT
4444466 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAATACGCCGCTAAAGATCATGTTCT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAATACGCCGCTAAAGATCATGTTCT
4444531 TTAGCGGCACTTATAAAA
66 TTAGCGGCACTTA-AAAA
* * * *
4444549 AAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTCAAAAAA-ACGCCGCTAAAGGTCACGTTC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-AAAAAATACGCCGCTAAAGATCATGTTC
4444613 TTTAGCGGCACTTCAAAAA
65 TTTAGCGGCACTT-AAAAA
* * *
4444632 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAACAAAT--GCCACTAAAGAACATG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC--TTA-AA-AAATACGCCGCTAAAGATCATG
** * * * * *
4444695 ACCTATAGCGGCGCATACCAAG
62 TTCTTTAGCGGCACTTA-AAAA
* *
4444717 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
4444753 TCTTGACAAA
Statistics
Matches: 175, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
83 103 0.59
84 9 0.05
85 60 0.34
86 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAATACGCCGCTAAAGATCATGTTCT
TTAGCGGCACTTAAAAA
Found at i:4444562 original size:42 final size:41
Alignment explanation
Indices: 4444466--4444752 Score: 322
Period size: 42 Copynumber: 6.9 Consensus size: 41
4444456 TTACAGAAAT
*
4444466 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAA
* *
4444507 ATACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTATAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAA
* *
4444549 AAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTCAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAA
* * *
4444590 AAACGCCGCTAAAGGTCACGTTCTTTAGCGGCACTTCAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AAAAA
* * * *
4444632 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC--TTAAAAA
* * * ** * * * *
4444675 AAATGCCACTAAAGAACATGACCTATAGCGGCGCATACCAAG
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAA
* *
4444717 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
4444753 TCTTGACAAA
Statistics
Matches: 207, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
41 72 0.35
42 102 0.49
43 31 0.15
44 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAA
Found at i:4444806 original size:85 final size:85
Alignment explanation
Indices: 4444466--4444813 Score: 304
Period size: 85 Copynumber: 4.1 Consensus size: 85
4444456 TTACAGAAAT
* * *
4444466 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC--T-TAAAAAATACGCCGCTAAAG-ATCATG
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTAAACAA-ACGCCGCTAAAGTAACATG
*
4444527 TTCTTTAGCGGCACTTATAAAA
65 -ACTTTAGCGGCACTTATAAAA
* * * *
4444549 AAACGCCGCTAAAGATCATGTTCTTTAGTGGCGC-TTC-AAAAAAACGCCGCTAAAGGTCACGT-
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTAAACAAACGCCGCTAAA-GTAACATG
*
4444611 TCTTTAGCGGCACTTCA-AAAA
65 ACTTTAGCGGCACTT-ATAAAA
* * * *
4444632 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TACAACAAATGCCACTAAAG-AACATG
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTA-AACAAACGCCGCTAAAGTAACATG
* * * ** *
4444695 ACCTATAGCGGCGCATACCAAG
65 A-CTTTAGCGGCACTTATAAAA
* * ** *
4444717 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTTGACAAACGCCGC-AATGTAACATGA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTAAACAAACGCCGCTAAAGTAACATGA
* * *
4444781 CTTTTAGCGGCGCTTTTATAA
66 C-TTTAGCGGCACTTATAAAA
*
4444802 AAACGCCACTAA
1 AAACGCCGCTAA
4444814 TTTTATGATT
Statistics
Matches: 216, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
83 96 0.44
84 18 0.08
85 101 0.47
86 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTAAACAAACGCCGCTAAAGTAACATGA
CTTTAGCGGCACTTATAAAA
Found at i:4447041 original size:9 final size:9
Alignment explanation
Indices: 4447024--4447120 Score: 56
Period size: 9 Copynumber: 10.3 Consensus size: 9
4447014 TTTGTATTAG
*
4447024 GTAAATTAT
1 GTAAGTTAT
4447033 GTAAGTTAT
1 GTAAGTTAT
* *
4447042 GAAAGTAAT
1 GTAAGTTAT
4447051 GT-A-TTAT
1 GTAAGTTAT
4447058 GTAAGTTATT
1 GTAAGTTA-T
*
4447068 TTAAGTTAT
1 GTAAGTTAT
*
4447077 GTAATAAGTTCT
1 G---TAAGTTAT
4447089 GTATTA-TATAT
1 GTA--AGT-TAT
4447100 GTAAGTTAT
1 GTAAGTTAT
*
4447109 TTAAGTTAT
1 GTAAGTTAT
4447118 GTA
1 GTA
4447121 TTATGAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 36 0.54
10 10 0.15
11 6 0.09
12 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:4447227 original size:30 final size:30
Alignment explanation
Indices: 4447193--4447284 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
4447183 AAATTTTATC
4447193 TTAATATTATATAAGTTATGTAATGAGAAA
1 TTAATATTATATAAGTTATGTAATGAGAAA
* *
4447223 TTAATATTATCTAAGTTATGTTA-GTAGAAA
1 TTAATATTATATAAGTTATGTAATG-AGAAA
*
4447253 TTAATATTATATAAGTTATGTAATTAGAAA
1 TTAATATTATATAAGTTATGTAATGAGAAA
4447283 TT
1 TT
4447285 TTATCTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 54 0.98
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.43
Consensus pattern (30 bp):
TTAATATTATATAAGTTATGTAATGAGAAA
Found at i:4449851 original size:364 final size:364
Alignment explanation
Indices: 4449179--4449890 Score: 1178
Period size: 364 Copynumber: 2.0 Consensus size: 364
4449169 TACATCGACA
*
4449179 TTTGCGGCGTTTTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGTCGTTTTA
1 TTTGCGGCGTTTTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTA
* *
4449244 TAAAAATATAAGGAAACATTCTGGCATTTTCCCAAACACACCACAATTAATATATTATCTAACCG
66 TAAAAATATAAGGAAACATTCTGGCATTTTCCCAAAAACACCACAATTAATATATTATCGAACCG
* * * *
4449309 GCGTCGTTTTCAATAAATTTTATACATCCTTGCGGCATTTTTAATAAAAAGCCACTAAAAGATTC
131 ACGCCGTTTTCAATAAATTTTATACATCATTGCGGCATTTATAATAAAAAGCCACTAAAAGATTC
*
4449374 CATCCTTCAACTGAAACGGCGCCGTTTTTGCAAAGTTCAAATATTATTTACGGCACTTTTCGGAA
196 CATCCTTCAACTGAAACGGCGCCGTTTTGGCAAAGTTCAAATATTATTTACGGCACTTTTC-GAA
* *
4449439 AAAAGCCACAACTAAAATTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATA
260 AAAAACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATA
4449504 TTTGTGGCA-TTTTTATCAAAACACCGGTAATGTCTACCT
325 TTTGTGGCATTTTTTATCAAAACACCGGTAATGTCTACCT
*
4449543 TTTGCGGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTA
1 TTTGCGGCGTTTTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTA
* *
4449608 TAAAAATATAAGGCAACATTCTGGCATTTTCCCAAAAACGCCACAATTAATATATTATCGAACCG
66 TAAAAATATAAGGAAACATTCTGGCATTTTCCCAAAAACACCACAATTAATATATTATCGAACCG
* * *
4449673 ACGCCGTTTTCAGA-AAATTTTATACATCATTGCGGCGTTTATAATAAAACGCCACTAAAATATT
131 ACGCCGTTTTCA-ATAAATTTTATACATCATTGCGGCATTTATAATAAAAAGCCACTAAAAGATT
* *
4449737 CCATCCTTCAACTGAAACGGCGCCGTTTTGGCAAAGTTTAAATATTATTTACGGCGCTTTTC-AA
195 CCATCCTTCAACTGAAACGGCGCCGTTTTGGCAAAGTTCAAATATTATTTACGGCACTTTTCGAA
* *
4449801 AAAAACACGACAACTAAAACTTATTCCCTAAGTCGAAACGACGTCGTATCGGTAAATGCAATAAA
260 AAAAAC-C-ACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAA
*
4449866 TTTTTGTGGCATTTTTTATCAAAAC
323 TATTTGTGGCATTTTTTATCAAAAC
4449891 GCCGCTAAAT
Statistics
Matches: 323, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
362 7 0.02
363 1 0.00
364 301 0.93
365 14 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (364 bp):
TTTGCGGCGTTTTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTA
TAAAAATATAAGGAAACATTCTGGCATTTTCCCAAAAACACCACAATTAATATATTATCGAACCG
ACGCCGTTTTCAATAAATTTTATACATCATTGCGGCATTTATAATAAAAAGCCACTAAAAGATTC
CATCCTTCAACTGAAACGGCGCCGTTTTGGCAAAGTTCAAATATTATTTACGGCACTTTTCGAAA
AAAACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATAT
TTGTGGCATTTTTTATCAAAACACCGGTAATGTCTACCT
Found at i:4449960 original size:24 final size:23
Alignment explanation
Indices: 4449933--4450013 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 23
4449923 TGTATCATTC
4449933 ATTTAAATAATTAATTACCTATCT
1 ATTTAAATAATTAATTACCTAT-T
4449957 ATTTAAATAATTAATTACCTAAAAATT
1 ATTTAAATAATTAATTACCT----ATT
4449984 AATTTAAATAATTAATTACCTATTT
1 -ATTTAAATAATTAATTACCTA-TT
4450009 ATTTA
1 ATTTA
4450014 TTTGTTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
24 26 0.51
25 2 0.04
27 1 0.02
28 22 0.43
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATAATTAATTACCTATT
Found at i:4449998 original size:13 final size:13
Alignment explanation
Indices: 4449957--4450000 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
4449947 TTACCTATCT
4449957 ATTTAAATAATTA
1 ATTTAAATAATTA
4449970 ATTACCTAAA-AATTA
1 ATT---TAAATAATTA
4449985 ATTTAAATAATTA
1 ATTTAAATAATTA
4449998 ATT
1 ATT
4450001 ACCTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
15 8 0.30
16 4 0.15
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAAATAATTA
Found at i:4450016 original size:28 final size:26
Alignment explanation
Indices: 4449933--4450016 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 26
4449923 TGTATCATTC
*
4449933 ATTTAAATAATTAATTACC--TATCT
1 ATTTAAATAATTAATTACCTATATTT
* *
4449957 ATTTAAATAATTAATTACCTAAAAATTA
1 ATTTAAATAATTAATTACCT--ATATTT
4449985 ATTTAAATAATTAATTACCTATTTATTT
1 ATTTAAATAATTAATTACCTA--TATTT
4450013 ATTT
1 ATTT
4450017 GTTTATTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.39
26 1 0.02
28 29 0.59
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAAATAATTAATTACCTATATTT
Found at i:4450457 original size:14 final size:14
Alignment explanation
Indices: 4450438--4450471 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4450428 GATCTTGAAT
4450438 CCCTAACCCATAAC
1 CCCTAACCCATAAC
4450452 CCCTAACCCATAAC
1 CCCTAACCCATAAC
4450466 CCCTAA
1 CCCTAA
4450472 ACCTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (14 bp):
CCCTAACCCATAAC
Found at i:4451259 original size:33 final size:33
Alignment explanation
Indices: 4451212--4451282 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
4451202 TTTTAAATCC
*
4451212 CTAAGCATTAGCGGCACATCT-TCAAAAACGCCA
1 CTAAACATTAGCGGCAC-TCTATCAAAAACGCCA
* * *
4451245 CTAAACATTAGCGGCGCTTTATTAAAAACGCCA
1 CTAAACATTAGCGGCACTCTATCAAAAACGCCA
4451278 CTAAA
1 CTAAA
4451283 TCCACGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (33 bp):
CTAAACATTAGCGGCACTCTATCAAAAACGCCA
Found at i:4451450 original size:114 final size:114
Alignment explanation
Indices: 4451250--4451696 Score: 580
Period size: 114 Copynumber: 3.9 Consensus size: 114
4451240 CGCCACTAAA
* * * *
4451250 CATTAGCGGCGCTTTA-TTAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACGGCGTTGTTGG
1 CATTAGCGGCGC-TTACATAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGG
* * ** **
4451314 GCTTAGGTTTCTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAAACCTGAG
65 GCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAG
* * *
4451364 CATTAGCTGTGCTTACATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTACATAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG
*
4451429 CTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCAGCTAAAGCCCTGAG
66 CTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAG
* * * * *
4451478 CGTTGGCGGCGCTTA-ATTAAAAACACTGCTAAATCCCCGAAAGCTCAA-AAAATGGCGTCGTTG
1 CATTAGCGGCGCTTACA-TAAAAACGCCGCTAAATCCCCGAAAGCT-AAGAAAACGGCGTCGTTG
* *
4451541 GGCTTAGGTTTTTTTGTGGCACTTTAGCAAAAACGCCGCTAAAGCCCT-AGG
64 GGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGA-G
* * * *
4451592 CATTAGCGGCGCTTCCCTAAAAACGCTGGTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTACATAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG
* *
4451657 ATTAGG-TTTTTTGTGGCGCTTTATCAAAAACGCCACTAAA
66 CTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAA
4451697 TCCCCATAAG
Statistics
Matches: 291, Mismatches: 36, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
113 38 0.13
114 252 0.87
115 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (114 bp):
CATTAGCGGCGCTTACATAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG
CTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAG
Found at i:4451731 original size:186 final size:187
Alignment explanation
Indices: 4451506--4451883 Score: 570
Period size: 186 Copynumber: 2.0 Consensus size: 187
4451496 AAAAACACTG
4451506 CTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTT-AGCA
1 CTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTCA--A
* *
4451570 AAAA-CGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCTGGTAAATCCCCGAAA
64 AAAATCGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCCCGAAA
* * *
4451634 GCTAAGAAAACGGCGTCGTTGGGATTAGG-TTTTTTGTGGCGCTTT-ATCAAAAACGCCA
129 GCTAAGAAAACGACGCCATTGGGATTAGGTTTTTTTGTGGCGCTTTCA-CAAAAACGCCA
*
4451692 CTAAATCCCC-ATAAGCT-AAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCAA
1 CTAAATCCCCGA-AAGCTCAA-AAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTCAA
*
4451755 AAAATCGTCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCCCGAAA
64 AAAATCGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCCCGAAA
* * * *
4451820 GCTCAGAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGCGCTTTCACAAAAATGCTA
129 GCTAAGAAAACGACGCCATTGGGATTAGGTTTTTTTGTGGCGCTTTCACAAAAACGCCA
4451879 CTAAA
1 CTAAA
4451884 GCCCTGAGCA
Statistics
Matches: 175, Mismatches: 11, Indels: 11
0.89 0.06 0.06
Matches are distributed among these distances:
185 8 0.05
186 135 0.77
187 31 0.18
188 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (187 bp):
CTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTCAAAA
AATCGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCCCGAAAGC
TAAGAAAACGACGCCATTGGGATTAGGTTTTTTTGTGGCGCTTTCACAAAAACGCCA
Found at i:4451758 original size:72 final size:71
Alignment explanation
Indices: 4451621--4451757 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 71
4451611 AAAACGCTGG
4451621 TAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTATCAAAA
1 TAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTA-CAAAA
4451686 ACGCCAC
65 ACGCCAC
* *
4451693 TAAATCCCC-ATAAGCTAAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTT-CAAA
1 TAAATCCCCGA-AAGCTAAGAAAACGGCGTCGTTGGGATTAGG-TTTTTTGTGGCGCTTTACAAA
4451756 AA
64 AA
4451758 ATCGTCGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
71 7 0.11
72 38 0.62
73 16 0.26
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (71 bp):
TAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTACAAAAA
CGCCAC
Found at i:4451927 original size:300 final size:300
Alignment explanation
Indices: 4451382--4451964 Score: 811
Period size: 300 Copynumber: 1.9 Consensus size: 300
4451372 GTGCTTACAT
* *
4451382 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCACTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
* * * *
4451447 GCTTTATCAAAAACGCAGCTAAAGCCCTGAGCGTTGGCGGCGCTTAATTAAAAACACTGCTAAAT
66 GCTTTA-CAAAAACGCAGCTAAAGCCCTGAGCATTAGCGGCGCTTAACTAAAAACACCGCTAAAT
* * * *
4451512 CCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTAGCAAAAACGC
130 CCCCGAAAGCTCAAAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGCACTTTAGCAAAAACGC
* * ***
4451577 CGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCTAAAAACGCTGGTAAAT-CCCCGAAAGCTAAGA
195 CACTAAAGCCCTAGGCATTAGCAGCGCTTCCCTAAAAACGCCACTAAATCCCCCGAAAGCTAAGA
4451641 AAACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTATC
260 AAACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTATC
*
4451682 AAAAACGCCACTAAATCCCC-ATAAGCTAAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
1 AAAAACGCCACTAAATCCCCGA-AAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
** *
4451746 CGCTTT-CAAAAAATCGTC-GCTAAAGCCCT-AGGCATTAGCGGCGCTTCCCTAAAAACGCCGCT
65 CGCTTTAC-AAAAA-CG-CAGCTAAAGCCCTGA-GCATTAGCGGCGCTTAACTAAAAACACCGCT
* *
4451808 AAATCCCCGAAAGCTCAGAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGCGCTTTCA-CAAA
126 AAATCCCCGAAAGCTCAAAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGCACTTT-AGCAAA
* * *
4451872 AATGCTACTAAAGCCCT-GAGCATTAGCAGCGCTTCCTTAAAAACGCCACTAAATCCCCCGAAAG
190 AACGCCACTAAAGCCCTAG-GCATTAGCAGCGCTTCCCTAAAAACGCCACTAAATCCCCCGAAAG
* *
4451936 CTCAGAAAACGGCGTCGTTGGGCTTAGGT
254 CTAAGAAAACGGCGTCGTTGGGATTAGGT
4451965 ATTTGGCAAC
Statistics
Matches: 249, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
298 1 0.00
299 8 0.03
300 202 0.81
301 38 0.15
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (300 bp):
AAAAACGCCACTAAATCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
GCTTTACAAAAACGCAGCTAAAGCCCTGAGCATTAGCGGCGCTTAACTAAAAACACCGCTAAATC
CCCGAAAGCTCAAAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGCACTTTAGCAAAAACGCC
ACTAAAGCCCTAGGCATTAGCAGCGCTTCCCTAAAAACGCCACTAAATCCCCCGAAAGCTAAGAA
AACGGCGTCGTTGGGATTAGGTTTTTTGTGGCGCTTTATC
Found at i:4451980 original size:114 final size:114
Alignment explanation
Indices: 4451682--4451964 Score: 412
Period size: 114 Copynumber: 2.5 Consensus size: 114
4451672 GCGCTTTATC
* *
4451682 AAAAACGCCACTAAATCCCC-ATAAGCTAAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
1 AAAAACGCCACTAAATCCCCGA-AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
* *
4451746 CGCTTTCAAAAAATCGTCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCT
65 CGCTTTCAAAAAATCGTCACTAAAGCCCTAGGCATTAGCAGCGCTTCCCT
* * * *
4451796 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCATTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
*
4451861 GCTTTCACAAAAAT-G-CTACTAAAGCCCT-GAGCATTAGCAGCGCTTCCTT
66 GCTTTCA-AAAAATCGTC-ACTAAAGCCCTAG-GCATTAGCAGCGCTTCCCT
4451910 AAAAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 AAAAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
4451965 ATTTGGCAAC
Statistics
Matches: 151, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
113 2 0.01
114 107 0.71
115 42 0.28
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
GCTTTCAAAAAATCGTCACTAAAGCCCTAGGCATTAGCAGCGCTTCCCT
Found at i:4452337 original size:12 final size:12
Alignment explanation
Indices: 4452320--4452349 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4452310 ATTCTCGAAA
4452320 ATTGTCTTTATT
1 ATTGTCTTTATT
4452332 ATTGTCTTTATT
1 ATTGTCTTTATT
4452344 ATTGTC
1 ATTGTC
4452350 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (12 bp):
ATTGTCTTTATT
Found at i:4455338 original size:35 final size:35
Alignment explanation
Indices: 4455285--4455375 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 35
4455275 TATTTTTTAT
** *
4455285 TTAAATCAACCAAATAATATTTTTATAAAAGTCAA
1 TTAAATCAAATAATTAATATTTTTATAAAAGTCAA
*
4455320 TTAAATCAAATAATTAATAATATTTTTATAAAAGTTAA
1 TTAAATCAAATAA-T--TAATATTTTTATAAAAGTCAA
4455358 TTAAATCAAATAATTAAT
1 TTAAATCAAATAATTAAT
4455376 CCATATGCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
35 15 0.31
37 1 0.02
38 33 0.67
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (35 bp):
TTAAATCAAATAATTAATATTTTTATAAAAGTCAA
Found at i:4455348 original size:38 final size:38
Alignment explanation
Indices: 4455297--4455375 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
4455287 AAATCAACCA
4455297 AATAATATTTTTATAAAAGTCAATTAAATCAAATAATT
1 AATAATATTTTTATAAAAGTCAATTAAATCAAATAATT
*
4455335 AATAATATTTTTATAAAAGTTAATTAAATCAAATAATT
1 AATAATATTTTTATAAAAGTCAATTAAATCAAATAATT
4455373 AAT
1 AAT
4455376 CCATATGCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (38 bp):
AATAATATTTTTATAAAAGTCAATTAAATCAAATAATT
Found at i:4457689 original size:16 final size:16
Alignment explanation
Indices: 4457668--4457703 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4457658 TTTGGTTCGC
4457668 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4457684 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4457700 TGTA
1 TGTA
4457704 ATAACAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4457960 original size:18 final size:17
Alignment explanation
Indices: 4457939--4457973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4457929 TTATTATTAA
*
4457939 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4457957 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4457974 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4458027 original size:157 final size:157
Alignment explanation
Indices: 4457826--4458142 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
4457816 TAGAATACCC
* *
4457826 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTCGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4457891 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATATATTTTAATTAAAA
4457956 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
4457983 TTAGCAGAAATTCGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTCGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
4458048 ATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATATATTTTAATTAAAA
4458113 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4458140 TTA
1 TTA
4458143 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTCGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4458117 original size:18 final size:17
Alignment explanation
Indices: 4458096--4458130 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4458086 TTATTATTAA
*
4458096 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4458114 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4458131 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4459378 original size:22 final size:22
Alignment explanation
Indices: 4459353--4459397 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4459343 TTTAATAAAG
4459353 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
4459375 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
4459397 A
1 A
4459398 CACTCCTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:4463115 original size:22 final size:22
Alignment explanation
Indices: 4463090--4463134 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4463080 TTTAATAAAG
4463090 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
4463112 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
4463134 A
1 A
4463135 CATTAACCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:4465577 original size:11 final size:11
Alignment explanation
Indices: 4465561--4465586 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4465551 TCGGGAGGCA
4465561 AAGGTAGAACG
1 AAGGTAGAACG
4465572 AAGGTAGAACG
1 AAGGTAGAACG
4465583 AAGG
1 AAGG
4465587 AAGAGGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:4466419 original size:22 final size:23
Alignment explanation
Indices: 4466394--4466448 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
4466384 CGTGGAGGAT
*
4466394 TGGAGGTGGATCGTTGCCGGA-C
1 TGGAGGTGGATCGATGCCGGAGC
* *
4466416 TGGAGGTGGATCGATGTCGGAGG
1 TGGAGGTGGATCGATGCCGGAGC
4466439 TGGAGGTGGA
1 TGGAGGTGGA
4466449 GGTTGAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.16, C:0.11, G:0.51, T:0.22
Consensus pattern (23 bp):
TGGAGGTGGATCGATGCCGGAGC
Found at i:4466515 original size:17 final size:17
Alignment explanation
Indices: 4466493--4466527 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4466483 GGATTTCTGG
4466493 AATAGGGGAAACGGGGA
1 AATAGGGGAAACGGGGA
*
4466510 AATAGGGGAAATGGGGA
1 AATAGGGGAAACGGGGA
4466527 A
1 A
4466528 GAAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.09
Consensus pattern (17 bp):
AATAGGGGAAACGGGGA
Found at i:4470497 original size:66 final size:66
Alignment explanation
Indices: 4470391--4470523 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
4470381 ATATTGGCAT
* *
4470391 TTCTACGTGTGATATCCATCACCGACAAAAGGACATCATTTTACTAAATGTTCACTTGCCTATAG
1 TTCTACGCGTGATATCCATCACCGACAAAAGGACATCATTTTACTAAATCTTCACTTGCCTATAG
4470456 G
66 G
4470457 TTCTACGCGTGATATCCATCACCGACAAAAGGACATCATTTTACTAAATCTTCACTTGCCTATAG
1 TTCTACGCGTGATATCCATCACCGACAAAAGGACATCATTTTACTAAATCTTCACTTGCCTATAG
4470522 G
66 G
4470523 T
1 T
4470524 AATGACCTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (66 bp):
TTCTACGCGTGATATCCATCACCGACAAAAGGACATCATTTTACTAAATCTTCACTTGCCTATAG
G
Found at i:4471438 original size:17 final size:18
Alignment explanation
Indices: 4471404--4471449 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
4471394 CCGTTATGTC
4471404 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
4471419 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
4471436 CGCGACCGCGACCG
1 CGCGACCGCGACCG
4471450 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:4476568 original size:40 final size:40
Alignment explanation
Indices: 4476524--4476617 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
4476514 TAAATATATT
* * *
4476524 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAAACAA
4476564 TTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAAACAA
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAAACAA
4476604 TTTTTTTAATTTTT
1 TTTTTTTAATTTTT
4476618 AAAATAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAAACAA
Found at i:4476621 original size:21 final size:21
Alignment explanation
Indices: 4476591--4476630 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4476581 ATTTTAAAAT
*
4476591 ATTTTAAAAACAATTTTTTTA
1 ATTTTAAAAACAAATTTTTTA
* *
4476612 ATTTTTAAAATAAATTTTT
1 ATTTTAAAAACAAATTTTT
4476631 AGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTAAAAACAAATTTTTTA
Found at i:4477783 original size:46 final size:45
Alignment explanation
Indices: 4477685--4477802 Score: 179
Period size: 45 Copynumber: 2.6 Consensus size: 45
4477675 TTTGAGTACT
* *
4477685 TCTGATCAAGTGACAAAATGATAAGTGATAGTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
4477730 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
4477776 TCTGATC-AG-GA-ACAAGTGATAAGTGGT
1 TCTGATCAAGTGACA-AAGTGATAAGTGGT
4477803 GATAAAGTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
43 1 0.01
44 16 0.23
45 31 0.45
46 21 0.30
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:4477815 original size:62 final size:64
Alignment explanation
Indices: 4477739--4477866 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 64
4477729 ATCTGATCAA
*
4477739 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-AG-GA-ACAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAAGTGATA-AAGTGATAAGTG
*
4477801 GTGATAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
4477865 GT
1 GT
4477867 AGCCTAGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 42 0.69
63 2 0.03
64 16 0.26
65 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (64 bp):
GTGACAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
Found at i:4477889 original size:45 final size:46
Alignment explanation
Indices: 4477801--4477907 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
4477791 GTGATAAGTG
*
4477801 GTGATAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGCAGCTCTAGCTACACTTATCTGATCAA
*
4477847 GTGATAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAA
1 GTGATAAAGTGATAAGTGGCAGCTCTAGCTACACTTATCTGATCAA
4477892 -T-A-ACAAGTGATAAGTG
1 GTGATA-AAGTGATAAGTG
4477908 ATCATACGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
42 1 0.02
43 13 0.22
44 1 0.02
45 21 0.36
46 22 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
GTGATAAAGTGATAAGTGGCAGCTCTAGCTACACTTATCTGATCAA
Found at i:4477905 original size:107 final size:107
Alignment explanation
Indices: 4477694--4477907 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
4477684 TTCTGATCAA
*
4477694 GTGACAAAATGATAAGTGATAGTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 GTGACAAAATGATAAGTGACAGTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
* *
4477759 AGCTTTAGCTACACTTATCTGATCAGGAACAAGTGATAAGTG
66 AGCTCTAGCTACACTTATCTGATCAAGAACAAGTGATAAGTG
* * * *
4477801 GTGATAAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGG
1 GTGACAAAATGATAAGTGACAG-TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
*
4477866 TAGC-CTAGCTACACTTATCTGATCAATAACAAGTGATAAGTG
65 TAGCTCTAGCTACACTTATCTGATCAAGAACAAGTGATAAGTG
4477908 ATCATACGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 53 0.54
108 45 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (107 bp):
GTGACAAAATGATAAGTGACAGTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
AGCTCTAGCTACACTTATCTGATCAAGAACAAGTGATAAGTG
Found at i:4495648 original size:119 final size:118
Alignment explanation
Indices: 4495511--4495882 Score: 424
Period size: 119 Copynumber: 3.0 Consensus size: 118
4495501 TGTCTGATGT
* * * * * *
4495511 GATCTGCTCTACTACAACTTCGGAGAGATGAGATCCATTATTTTGATCCGCTCTACTGCAACTTC
1 GATCTTCTCTACTGCAACTTCAGAGAGATAAGAT-CATTGTTTTAATCCGCTCTACTGCAACTTC
*
4495576 AGGGAGATAGGATTGGTTTTTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAA
65 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
4495630 GATCTTCTCTACTGCAACTTCAGAAAGATAAAAT-ATGTGGTTTTAATCTGCTCCACTGCAACTT
1 GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCAT-T-GTTTTAATCCGCTCTACTGCAACTT
4495694 CAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGA
64 CAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGAT-A-A
*
4495751 CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC-TGTGGTTGTAATCCGCTCTAC
1 ---GAT-C--T-T-CTCTACTGCAACTTCAGAGAGATAAGATCAT-T-GTTTTAATCCGCTCTAC
* * * * * * *
4495815 TGCAACTTTAAGGAGATATGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGATATGA
56 TGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAA
4495878 GATCT
1 GATCT
4495883 GTGGTTGTAA
Statistics
Matches: 217, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
117 2 0.01
118 1 0.00
119 101 0.47
120 1 0.00
121 2 0.01
123 1 0.00
124 6 0.03
125 1 0.00
127 2 0.01
128 1 0.00
129 99 0.46
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (118 bp):
GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCATTGTTTTAATCCGCTCTACTGCAACTTCA
GGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:4495703 original size:44 final size:43
Alignment explanation
Indices: 4495631--4496749 Score: 415
Period size: 44 Copynumber: 25.8 Consensus size: 43
4495621 GGGAGATAAG
* * ** * *
4495631 ATCTTCTCTACTGCAACTTCAGAAAGATAAAATATGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * * *
4495675 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTG-GTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTT-GT-A
* * * * **
4495719 GTCTGCTCCACTGCAACTTCAGGGAGATGAGA--CTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTTGTA
* *
4495760 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * * * * * * *
4495804 ATCCGCTCTACTGCAACTTTAAGGAGATATGATTG-GTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTT-GT-A
* * * * *
4495848 GTCTGCTCTACTGCAACTTCAAGGATATGAGATCTGTGGTTGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
** *
4495892 ATCTGCTCCACT-CAACTTCAGGGAGATAAGATTGATTTCTTCT-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG--TGGTTGTA
* *
4495935 GTCTGCTCCACTGCAACTTCAGGGAGATGAGATCTGTGGTTGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * ** *
4495979 ATCCGCTCCACTGCAACTTTAGGGAGATAAGATTGATTTCTTCT-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG--TGGTTGTA
* * * * * * **
4496023 GTCTGTTCCACTGCAACTTCAAGGG-GGTGAGA--CTGGATGCG
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTGTGGTTGTA
* **
4496064 ATCTGCTCTACTGCAACTTCAGATAGATAAGATATGTGGTTGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * * * *
4496108 ATCTGCTCCACTGCAACTTCAGGG-GAGAGGATTG-GTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTT-GT-A
* * * * * **
4496151 GTCTGCTCTACTGCAACTTCAGGGAGATGAGA--CTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTTGTA
* * * ** ** * *
4496192 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
** * * * * ** *
4496236 ATCCACTTCACTGTAACTTCAGGGAGATAGGATTATCAACTT-CA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT--GGTTGTA
****
4496280 ATCTGCTCCACTGCAACCTT-AGGGAGATAAGATTCACCATCT-TCA
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATT-GTGGT-TGT-A
* * * * *
4496325 GTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGT-TTTCTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTGGTTGT-A
* * * * * ** *
4496369 GTCTGCTTCGCTGTAACCTCAGGGAGATAAGA-CCT-GATGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTTGTA
* * * * * *
4496410 ATCTACTCTACTGCAAAC-TCAGAGAGATAAGATCTATTGTTTTA
1 ATCTGCTCCACTGC-AACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * * * * *
4496454 ATCCGCTCTACTGTAACTTCAGGGAGATATGATTACTGGCTT-CA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTGG-TTGTA
* * ****
4496498 ATCTGCTCCACTGCAACCTCAGGGAGACAAGATTCACCATCT-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTGGT-TGT-A
* * * *
4496543 GTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCT--TTCTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TGGTTGT-A
*** ** * *
4496587 ATCTGCTCTGTTGCAACCTT-AGGGAGATAAGA-CCT-GATGTG
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTGTGGTTGTA
* * * * * * *
4496628 ATCTACTCTACTGCAACCTCAGAGAGATAAGATCTATTGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTGGTTGTA
* * * * *
4496672 ATCCGCTCCACTGTAACTTCAGAGAGATAAGATTACTGGCTT-CA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTGG-TTGTA
*
4496716 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
4496750 TGCCATCTTC
Statistics
Matches: 794, Mismatches: 222, Indels: 118
0.70 0.20 0.10
Matches are distributed among these distances:
40 6 0.01
41 128 0.16
42 19 0.02
43 86 0.11
44 468 0.59
45 80 0.10
46 7 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGGTTGTA
Found at i:4495861 original size:129 final size:131
Alignment explanation
Indices: 4495630--4495923 Score: 396
Period size: 129 Copynumber: 2.3 Consensus size: 131
4495620 AGGGAGATAA
* * * * *
4495630 GATCTTCTCTACTGCAACTTCAGAAAGATAAAATATGTGGTTTTAATCTGCTCCACTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTC
* *
4495695 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGA-C-TGGATG
66 AAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAAGGAGATGAGATCGTGGATG
4495758 C
131 C
* * *
4495759 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTGTAATCCGCTCTACTGCAACTTT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTC
* * * *
4495824 AAGGAGATATGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGATATGAGATCTGTGGTT
66 AAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAAGGAGATGAGATC-GTGGAT
*
4495889 GT
130 GC
* * *
4495891 AATCTGCTCCACT-CAACTTCAGGGAGATAAGAT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
4495924 TGATTTCTTC
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
129 108 0.75
130 1 0.01
131 19 0.13
132 16 0.11
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (131 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTC
AAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAAGGAGATGAGATCGTGGATG
C
Found at i:4496056 original size:304 final size:301
Alignment explanation
Indices: 4495640--4496224 Score: 859
Period size: 304 Copynumber: 1.9 Consensus size: 301
4495630 GATCTTCTCT
* * *
4495640 ACTGCAACTTCAGAAAGATAAAATATGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAAAGATAAAATATGTGGTTGTAATCCGCTCCACTGCAACTTCAGGGAGATAA
*
4495705 GATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTGGATGCGATCTGCTCTA
66 GATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTGGATGCGATCTGCTCTA
* * * *
4495770 CTGCAACTTCAGAGAGATAAGATCTGTGGTTGTAATCCGCTCTACTGCAACTTTAAGGAGATATG
131 CTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAAC-TTAAGGAGAGAGG
* * *
4495835 ATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGATATGAGATCTGTGGTTGTAATCTGCTC
195 ATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGAGATGAGA-C--TGGATGCAATCTGCTC
*
4495900 CACT-CAACTTCAGGGAGATAAGATTGATTTCTTCTGTCTGCTCC
257 CACTGCAACTTCAGAGAGATAAGATTGATTTCTTCTGTCTGCTCC
** * * * *
4495944 ACTGCAACTTCAGGGAGATGAGATCTGTGGTTGTAATCCGCTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAAAGATAAAATATGTGGTTGTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* *
4496009 GATTGATTTCTTCTGTCTGTTCCACTGCAACTTCAAGGG-GGTGAGACTGGATGCGATCTGCTCT
66 GATTGATTTCTTCTGTCTGCTCCACTGCAACTTC-AGGGAGATGAGACTGGATGCGATCTGCTCT
* * * *
4496073 ACTGCAACTTCAGATAGATAAGATATGTGGTTGTAATCTGCTCCACTGCAACTTCAGGGGAGAGG
130 ACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTAAGGAGAGAGG
* * *
4496138 ATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAGGGAGATGAGACTGGATGCGATCTGCTCTAC
195 ATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGAGATGAGACTGGATGCAATCTGCTCCAC
*
4496203 TGTAACTTCAGAGAGATAAGAT
260 TGCAACTTCAGAGAGATAAGAT
4496225 CCATCATTTT
Statistics
Matches: 251, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
300 16 0.06
301 18 0.07
302 1 0.00
303 52 0.21
304 160 0.64
305 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (301 bp):
ACTGCAACTTCAGAAAGATAAAATATGTGGTTGTAATCCGCTCCACTGCAACTTCAGGGAGATAA
GATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTGGATGCGATCTGCTCTA
CTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTAAGGAGAGAGGA
TTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAAGGAGATGAGACTGGATGCAATCTGCTCCACT
GCAACTTCAGAGAGATAAGATTGATTTCTTCTGTCTGCTCC
Found at i:4496195 original size:128 final size:129
Alignment explanation
Indices: 4495936--4496224 Score: 429
Period size: 128 Copynumber: 2.2 Consensus size: 129
4495926 ATTTCTTCTG
* * * * *
4495936 TCTGCTCCACTGCAACTTCAGGGAGATGAGATCTGTGGTTGTAATCCGCTCCACTGCAACTTTAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTCAG
* * *
4496001 GGAGATAAGATTGATTTCTTCTGTCTGTTCCACTGCAACTTCAAGGGGGTGAGACTGGATGCGA
66 GGAGAGAAGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGGGATGAGACTGGATGCGA
* *
4496065 TCTGCTCTACTGCAACTTCAGATAGATAAGATATGTGGTTGTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTCAG
* * *
4496130 GG-GAGAGGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTC-AGGGAGATGAGACTGGATGCGA
66 GGAGAGAAGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGG-GATGAGACTGGATGCGA
*
4496193 TCTGCTCTACTGTAACTTCAGAGAGATAAGAT
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGAT
4496225 CCATCATTTT
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 4 0.03
128 80 0.56
129 60 0.42
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (129 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTGTAATCCGCTCCACTGCAACTTCAG
GGAGAGAAGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGGGATGAGACTGGATGCGA
Found at i:4496248 original size:128 final size:129
Alignment explanation
Indices: 4495936--4496296 Score: 388
Period size: 128 Copynumber: 2.8 Consensus size: 129
4495926 ATTTCTTCTG
* * * * ** * *
4495936 TCTGCTCCACTGCAACTTCAGGGAGATGAGAT-CTGTGGTTGTAATCCGCTCCACTGCAACTTTA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATAC-ATCATTGTAATCCACTCCACTGCAACTTCA
* * *
4496000 GGGAGATAAGATTGATTTCTTCTGTCTGTTCCACTGCAACTTCAAGGGGGTGAGACTGGATGCGA
65 GGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGGGATGAGACTGGATGCGA
* ** ** **
4496065 TCTGCTCTACTGCAACTTCAGATAGATAAGATATGTGGTTGTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTGTAATCCACTCCACTGCAACTTCAG
* * *
4496130 GG-GAGAGGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTC-AGGGAGATGAGACTGGATGCGA
66 GGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGG-GATGAGACTGGATGCGA
* * * * * *
4496193 TCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTGATCCACTTCACTGTAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTGTAATCCACTCCACTGCAACTTCAG
** **
4496258 GGAGATAGGATT-ATCAACTTCAATCTGCTCCACTGCAAC
66 GGAGATAGGATTGAT-TTCTTCTGTCTGCTCCACTGCAAC
4496297 CTTAGGGAGA
Statistics
Matches: 195, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
127 4 0.02
128 105 0.54
129 86 0.44
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (129 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTGTAATCCACTCCACTGCAACTTCAG
GGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAAGGGGATGAGACTGGATGCGA
Found at i:4496422 original size:218 final size:217
Alignment explanation
Indices: 4496109--4496772 Score: 899
Period size: 218 Copynumber: 3.1 Consensus size: 217
4496099 GTGGTTGTAA
* * * * * * *
4496109 TCTGCTCCACTGCAACTTCA-GGGGAGAGGA-TTGGTTTCTTCTGTCTGCTCTACTGCAACTTCA
1 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTC-TCAGTCTGCTCTGCTGCAACCTCA
* * * * * ** *
4496172 GGGAGATGAGA-CTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTG
65 GGGAGATAAGACCT-GATGTGATCTACTCTACTGAAAC-TCAGAGAGATAAGATCTATTGTTTTA
* * ** *
4496236 ATCCACTTCACTGTAACTTCAGGGAGATAGGATTA-TCAACTTCAATCTGCTCCACTGCAACCTT
128 ATCCGCTTCACTGTAACTTCAGGGAGATAAGATTACT-GGCTTCAATCTGCTCCACTGCAACCTC
4496300 AGGGAGATAAGATTCACCATCTTCAG
192 AGGGAGATAAGATTCACCATCTTCAG
* *
4496326 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCT-TCGCTGTAACCTCA
1 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCT-GCTGCAACCTCA
*
4496390 GGGAGATAAGACCTGATGTAATCTACTCTACTGCAAACTCAGAGAGATAAGATCTATTGTTTTAA
65 GGGAGATAAGACCTGATGTGATCTACTCTACTG-AAACTCAGAGAGATAAGATCTATTGTTTTAA
*
4496455 TCCGC-TCTACTGTAACTTCAGGGAGATATGATTACTGGCTTCAATCTGCTCCACTGCAACCTCA
129 TCCGCTTC-ACTGTAACTTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACTGCAACCTCA
*
4496519 GGGAGACAAGATTCACCATCTTCAG
193 GGGAGATAAGATTCACCATCTTCAG
* * *
4496544 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAATCTGCTCTGTTGCAACCTTAG
1 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCTGCTGCAACCTCAG
*
4496609 GGAGATAAGACCTGATGTGATCTACTCTACTGCAACCTCAGAGAGATAAGATCTATTGTTTTAAT
66 GGAGATAAGACCTGATGTGATCTACTCTACTG-AAACTCAGAGAGATAAGATCTATTGTTTTAAT
* *
4496674 CCGCTCCACTGTAACTTCAGAGAGATAAGATTACTGGCTTCAATCTGCTCCACTGCAACCTCAGG
130 CCGCTTCACTGTAACTTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACTGCAACCTCAGG
** *
4496739 GAGATAAGATTTGCCATCTTCAA
195 GAGATAAGATTCACCATCTTCAG
*
4496762 TCTGCTCCACT
1 TCTGCCCCACT
4496773 ACTGCTTAGG
Statistics
Matches: 400, Mismatches: 38, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
217 22 0.05
218 363 0.91
219 15 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (217 bp):
TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCTGCTGCAACCTCAG
GGAGATAAGACCTGATGTGATCTACTCTACTGAAACTCAGAGAGATAAGATCTATTGTTTTAATC
CGCTTCACTGTAACTTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCACTGCAACCTCAGGG
AGATAAGATTCACCATCTTCAG
Found at i:4504277 original size:42 final size:42
Alignment explanation
Indices: 4504214--4504493 Score: 375
Period size: 42 Copynumber: 6.7 Consensus size: 42
4504204 CGTTTGCAAA
* * *
4504214 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTAAG
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
* * * *
4504255 AAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCG-GTAAAAT
1 AAAA-ACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCAT-GAAG
* * *
4504298 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAAT
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
* * *
4504340 AAAAATGCCGCTAAAGATCTTGTTCTTTAGCAGCGCATGGAG
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
* *
4504382 AAAAATGCCGCTAAAGATCTTGTTCTTTAGCAGCGCATGAAG
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
* *
4504424 AAAAACGACGCTAAAGATCTTGTTCTTTAGTGGCGCATGAAG
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
4504466 AAAAACGCCGCTAAAGATCTTGTTCTTT
1 AAAAACGCCGCTAAAGATCTTGTTCTTT
4504494 TCACGGCGCT
Statistics
Matches: 218, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
41 4 0.02
42 207 0.95
43 7 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGAAG
Found at i:4504973 original size:21 final size:21
Alignment explanation
Indices: 4504949--4505016 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
4504939 CTTCTCTCGT
*
4504949 TGCTTCTCTAGCTGCAGCCTC
1 TGCTTCTCTTGCTGCAGCCTC
4504970 TGCTTCTCTTGCTGCAGCCTC
1 TGCTTCTCTTGCTGCAGCCTC
* * *
4504991 TACTTCCCTTGCTGCGGCCTC
1 TGCTTCTCTTGCTGCAGCCTC
4505012 TGCTT
1 TGCTT
4505017 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.06, C:0.38, G:0.19, T:0.37
Consensus pattern (21 bp):
TGCTTCTCTTGCTGCAGCCTC
Found at i:4509369 original size:115 final size:116
Alignment explanation
Indices: 4509158--4509370 Score: 304
Period size: 115 Copynumber: 1.8 Consensus size: 116
4509148 ATTTCTGGCG
4509158 TTTTTAAAATGAGCCACTAAAAGAAAACAAAAAAAAACGTCACCGTCTTTGTTCACTTAAAGGAA
1 TTTTTAAAATGAGCCACTAAAAGAAAACAAAAAAAAACGTCACCGTCTTTGTTCACTTAAAGGAA
* * *
4509223 ATTTGCAGCGTTTATTCGCAAAACGCTGGTAATACATCACCTTTAGCGGCA
66 ATTTGCAGCGTTTATTCACAAAACACCGGTAATACATCACCTTTAGCGGCA
* * * * *
4509274 TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACA-G-CACCGTCTTTGTTATAGTTAAAGGA
1 TTTTTAAAATGAGCCACTAAAAGAAAACAAAAAAAAACGTCACCGTCTTTGTT-CACTTAAAGGA
* * *
4509337 AATTTGCGGCGTTTCTTCACAAAATACCGGTAAT
65 AATTTGCAGCGTTTATTCACAAAACACCGGTAAT
4509371 GTATCAAGAA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
114 13 0.15
115 38 0.45
116 34 0.40
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (116 bp):
TTTTTAAAATGAGCCACTAAAAGAAAACAAAAAAAAACGTCACCGTCTTTGTTCACTTAAAGGAA
ATTTGCAGCGTTTATTCACAAAACACCGGTAATACATCACCTTTAGCGGCA
Found at i:4510087 original size:20 final size:20
Alignment explanation
Indices: 4510049--4510105 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
4510039 TCTTCAATTT
4510049 CCAAACT-AAATCCTAAAACC
1 CCAAACTCAAA-CCTAAAACC
* *
4510069 CTAAACTCAAACCTTAAACC
1 CCAAACTCAAACCTAAAACC
*
4510089 CCAAATTCAAACTCTAA
1 CCAAACTCAAAC-CTAA
4510106 CACATAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (20 bp):
CCAAACTCAAACCTAAAACC
Found at i:4510157 original size:7 final size:7
Alignment explanation
Indices: 4510145--4510171 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4510135 CAGTATACCA
4510145 TAAACCC
1 TAAACCC
4510152 TAAACCC
1 TAAACCC
4510159 TAAACCC
1 TAAACCC
4510166 TAAACC
1 TAAACC
4510172 GTAGACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:4510750 original size:113 final size:111
Alignment explanation
Indices: 4510557--4510883 Score: 264
Period size: 114 Copynumber: 2.9 Consensus size: 111
4510547 ATCCCTGAGC
* * * * ** *
4510557 ATTAGCGGTGCTTCCCTAAAAACGCCACTAAATCCCCAAAAGCTCCGAAAACTGTGCCGTTGGAC
1 ATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGTTCAAAAAACAGTGCCGTTGG-C
** * * *
4510622 TTAGTTTTTTTTTGCGAC-AT-TTTTCCGAAAATGCCACTAAAG-GAAGA
65 TTAG-GATTTATTGCGACGATAGTTT-C-AAAACGCCACTAAAGCGAAGA
* * * *
4510669 ATTAGCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCGAAAGTTCATAAAACGGTGCCGTTAG
1 ATTAGCGGCGCTTTCCT-AAAAACGCCGCTAAAT-CCCCAAAAGTTCAAAAAACAGTGCCGTT-G
* * * * ** *
4510734 GCTTAGGATTTATTGCGGCGCTAGTTTCAAAACGTCGCTAAAGCCCTTAGC
63 GCTTAGGATTTATTGCGACGATAGTTTCAAAACGCCACTAAAG--CGAAGA
** * *
4510785 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCAAAAGTTCAAAAAACAGTGCAGTTGGGC
1 ATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGTTCAAAAAACAGTGCCGTT-GGC
* * **
4510850 TTAGGATTTATTGCGGCGCTTTTTTCAAAACGCC
65 TTAGGATTTATTGCGACGATAGTTTCAAAACGCC
4510884 GTTAAAGCCC
Statistics
Matches: 175, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
112 14 0.08
113 36 0.21
114 88 0.50
115 20 0.11
116 17 0.10
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (111 bp):
ATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGTTCAAAAAACAGTGCCGTTGGCT
TAGGATTTATTGCGACGATAGTTTCAAAACGCCACTAAAGCGAAGA
Found at i:4510985 original size:114 final size:114
Alignment explanation
Indices: 4510669--4510963 Score: 410
Period size: 114 Copynumber: 2.6 Consensus size: 114
4510659 TAAAGGAAGA
** * * *
4510669 ATTAGCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCGAAAGTTCATAAAACGGTGCCGTTAG
1 ATTAGCGGCGCTTTAGT-AAAAATGCCGCTAAAT-CCCCGAAAGTTCAAAAAACGGTGCCGTTGG
** *
4510734 GCTTAGGATTTATTGCGGCGCTAGTTTCAAAACGTCGCTAAAGCCCTTAGC
64 GCTTAGGATTTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
* * *
4510785 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCAAAAGTTCAAAAAACAGTGCAGTTGGGC
1 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCGAAAGTTCAAAAAACGGTGCCGTTGGGC
* *
4510850 TTAGGATTTATTGCGGCGCTTTTTTCAAAACGCCGTTAAAGCCCTTATC
66 TTAGGATTTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
* * * * *
4510899 ATTAGCAGCGCTTTAGTAAAAATGCCGCTAAATTCCTGAAAGCTCAGAAAACGGTGCCGTTGGGC
1 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCGAAAGTTCAAAAAACGGTGCCGTTGGGC
4510964 GTATATTTTT
Statistics
Matches: 158, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
114 128 0.81
115 15 0.09
116 15 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (114 bp):
ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCGAAAGTTCAAAAAACGGTGCCGTTGGGC
TTAGGATTTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
Found at i:4511116 original size:73 final size:73
Alignment explanation
Indices: 4511038--4511212 Score: 208
Period size: 73 Copynumber: 2.4 Consensus size: 73
4511028 TAAATCCACG
* * * * *
4511038 AAAGCTCAGAAAACGACGCCGTTAGGCTTAGGTTTTTTACCGGCGCTTTTTTAGAAACGCCGCTA
1 AAAGCTCAGAAAACGACACCGTTAGGCTTAGGATTATTACCGGCGCTTCTTTAAAAACGCCGCTA
4511103 AATCCCAA
66 AATCCCAA
* * * **
4511111 AAAGCTCAGGAAACGGCACCGTTTGGCTTAGGATTATTAGTGGCGCTTCTTTAAAAACGCCGCTA
1 AAAGCTCAGAAAACGACACCGTTAGGCTTAGGATTATTACCGGCGCTTCTTTAAAAACGCCGCTA
*
4511176 AATCCCCA
66 AATCCCAA
* * *
4511184 AAAGCTC-GATAAACGGCATCGTTGGGCTT
1 AAAGCTCAGA-AAACGACACCGTTAGGCTT
4511213 TGGTTTTGCG
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 1 0.01
73 86 0.99
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (73 bp):
AAAGCTCAGAAAACGACACCGTTAGGCTTAGGATTATTACCGGCGCTTCTTTAAAAACGCCGCTA
AATCCCAA
Found at i:4517196 original size:22 final size:23
Alignment explanation
Indices: 4517171--4517213 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4517161 ACTTATTTGT
*
4517171 TAATTCAATTT-TATTATGTTTA
1 TAATTCAATTTAAATTATGTTTA
*
4517193 TAATTGAATTTAAATTATGTT
1 TAATTCAATTTAAATTATGTT
4517214 AGTACTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (23 bp):
TAATTCAATTTAAATTATGTTTA
Found at i:4518459 original size:30 final size:28
Alignment explanation
Indices: 4518404--4518460 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4518394 TTTCATTTTG
*
4518404 TTTTTTTTTTGTTTTCGTCTTTTAATCT
1 TTTTTTTTTTGTTTTCGTCTATTAATCT
*
4518432 TTTTTTTTTTGTGTTTCGTGTGATTAATC
1 TTTTTTTTTTGT-TTTCGTCT-ATTAATC
4518461 ATTTGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (28 bp):
TTTTTTTTTTGTTTTCGTCTATTAATCT
Found at i:4519160 original size:20 final size:21
Alignment explanation
Indices: 4519126--4519167 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4519116 ATAATTATTT
*
4519126 TTTTTACATTATTTTATTATG
1 TTTTTACATTATTTTATCATG
*
4519147 TTTTTA-ATTCTTTTATCATG
1 TTTTTACATTATTTTATCATG
4519167 T
1 T
4519168 ATTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTACATTATTTTATCATG
Found at i:4521181 original size:4 final size:4
Alignment explanation
Indices: 4521172--4521202 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4521162 AGTGAACATT
4521172 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
4521203 TTATAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4521734 original size:20 final size:23
Alignment explanation
Indices: 4521680--4521752 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
4521670 TTTTGGTGCA
*
4521680 GTTTCACTG-TCCTTTTTAATGTT
1 GTTTCACTGCTGC-TTTTAATGTT
4521703 GTTTCACTGCTGCTTTTAATGTT
1 GTTTCACTGCTGCTTTTAATGTT
* * * *
4521726 GTTCCGCTGCCGCTTTTAATATT
1 GTTTCACTGCTGCTTTTAATGTT
4521749 GTTT
1 GTTT
4521753 GGATATTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.52
Consensus pattern (23 bp):
GTTTCACTGCTGCTTTTAATGTT
Found at i:4527035 original size:23 final size:23
Alignment explanation
Indices: 4527008--4527052 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4526998 AAACACTTAA
4527008 ATATTTAGATATATTCCCTCTAT
1 ATATTTAGATATATTCCCTCTAT
4527031 ATATTTAGATATATTCCCTCTA
1 ATATTTAGATATATTCCCTCTA
4527053 AGTAGGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATTTAGATATATTCCCTCTAT
Found at i:4528744 original size:14 final size:16
Alignment explanation
Indices: 4528708--4528745 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4528698 TTTTTTTATA
*
4528708 ATTTTCATATGTAATT
1 ATTTTTATATGTAATT
4528724 ATTTTTATATGT-ATT
1 ATTTTTATATGTAATT
4528739 -TTTTTAT
1 ATTTTTAT
4528746 GTACATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 3 0.14
16 11 0.52
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
ATTTTTATATGTAATT
Found at i:4531902 original size:19 final size:19
Alignment explanation
Indices: 4531878--4532009 Score: 167
Period size: 19 Copynumber: 6.8 Consensus size: 19
4531868 AATTTTTGAG
4531878 GATATGCAATCTT-GTATAT
1 GATATGCAATCTTAG-ATAT
*
4531897 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
4531916 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4531935 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
4531956 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
4531975 GATGTATAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
4531994 GATATGCAGTCTTAGA
1 GATATGCAATCTTAGA
4532010 AGATATGATT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 77 0.79
20 1 0.01
21 19 0.20
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4531945 original size:59 final size:59
Alignment explanation
Indices: 4531879--4531998 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 59
4531869 ATTTTTGAGG
* *
4531879 ATATGCAATCTT-GTATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAG-ATATGATATGCAATACTAGATATGATATACAATCTTAGATATGAT
* * * *
4531938 ATATGCAATCTTAGATATGATATGCAATATTAGATATGATGTATAATCTTATATATGAT
1 ATATGCAATCTTAGATATGATATGCAATACTAGATATGATATACAATCTTAGATATGAT
4531997 AT
1 AT
4531999 GCAGTCTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATACTAGATATGATATACAATCTTAGATATGAT
Found at i:4532809 original size:20 final size:23
Alignment explanation
Indices: 4532784--4532834 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
4532774 TTCCTATATT
4532784 TTTTTAAATG-A-ATATTT-TCA
1 TTTTTAAATGTATATATTTATCA
* *
4532804 TTTTTATATGTATATATTTATGA
1 TTTTTAAATGTATATATTTATCA
4532827 TTTTTAAA
1 TTTTTAAA
4532835 ATGATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 1 0.04
22 6 0.24
23 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTTAAATGTATATATTTATCA
Found at i:4533169 original size:15 final size:15
Alignment explanation
Indices: 4533149--4533182 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4533139 ATTTTTTATG
4533149 TCATTGATATATTTA
1 TCATTGATATATTTA
* *
4533164 TCATTGTTGTATTTA
1 TCATTGATATATTTA
4533179 TCAT
1 TCAT
4533183 CATAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (15 bp):
TCATTGATATATTTA
Found at i:4533574 original size:98 final size:98
Alignment explanation
Indices: 4533460--4533654 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
4533450 TTAAAAATAA
* * *
4533460 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGAAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGAAATCGTGCCCTAACGTATTGGGTGTGATTTC
4533525 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
4533558 TAAAGGAAATATTCCGAGCTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGAAATCGTGCCCTAACGTATTGGGTGTGATTTC
4533623 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
4533655 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGAAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:4535192 original size:24 final size:24
Alignment explanation
Indices: 4535147--4535192 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
4535137 AGAACAATCC
* * *
4535147 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGAAAATGAAGGAACAGCTT
*
4535171 CAAAAGAAAATGAATGAACAGC
1 CAAAAGAAAATGAAGGAACAGC
4535193 AAAAAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.24, T:0.11
Consensus pattern (24 bp):
CAAAAGAAAATGAAGGAACAGCTT
Found at i:4537620 original size:8 final size:8
Alignment explanation
Indices: 4537607--4537644 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
4537597 TTTAGATTCA
4537607 AAAAAAAC
1 AAAAAAAC
4537615 -AAAAAAC
1 AAAAAAAC
4537622 AAAAAAAC
1 AAAAAAAC
4537630 AAAAAAAC
1 AAAAAAAC
4537638 AAAAAAA
1 AAAAAAA
4537645 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4537626 original size:16 final size:17
Alignment explanation
Indices: 4537605--4537645 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
4537595 AGTTTAGATT
4537605 CAAAAAAAAC-AAAAAA
1 CAAAAAAAACAAAAAAA
4537621 C-AAAAAAACAAAAAAA
1 CAAAAAAAACAAAAAAA
4537637 CAAAAAAAA
1 CAAAAAAAA
4537646 AAGAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
16 8 0.35
17 7 0.30
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAACAAAAAAA
Found at i:4537652 original size:16 final size:15
Alignment explanation
Indices: 4537605--4537652 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 15
4537595 AGTTTAGATT
4537605 CAAAAAAAACAAAAAA
1 CAAAAAAAA-AAAAAA
4537621 CAAAAAAACAAAAAAA
1 CAAAAAAA-AAAAAAA
4537637 CAAAAAAAAAAGAAAA
1 CAAAAAAAAAA-AAAA
4537653 AATGAAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.10
16 26 0.87
17 1 0.03
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Done.