Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 31 of 120
Found at i:8289679 original size:3 final size:3
Alignment explanation
Indices: 8289671--8289797 Score: 112
Period size: 3 Copynumber: 40.3 Consensus size: 3
8289661 GTAAATAAAT
8289671 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
8289719 CTC TTA TTTA TTTA TTTA CTA CTA TTA TTC GT- TTA TTAA TGTA TGA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
*
8289765 TTA TTTA TTA TTA TTC TTA GTTA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
8289798 CACTACGTAA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
2 1 0.01
3 82 0.78
4 21 0.20
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8290070 original size:22 final size:24
Alignment explanation
Indices: 8290045--8290091 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
8290035 TATATACCTA
8290045 TATACATACATATTT-TA-ATTTT
1 TATACATACATATTTCTATATTTT
*
8290067 TATATATACATATTTCTATATTTT
1 TATACATACATATTTCTATATTTT
8290091 T
1 T
8290092 TTCTTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 2 0.09
24 6 0.27
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (24 bp):
TATACATACATATTTCTATATTTT
Found at i:8290378 original size:17 final size:17
Alignment explanation
Indices: 8290356--8290388 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8290346 TAGGAGCATG
*
8290356 GCTAAGACAGTTGTAGT
1 GCTAAGACAATTGTAGT
8290373 GCTAAGACAATTGTAG
1 GCTAAGACAATTGTAG
8290389 CGCGTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
GCTAAGACAATTGTAGT
Found at i:8291168 original size:30 final size:30
Alignment explanation
Indices: 8291134--8291199 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
8291124 GTTCTTTTTG
*
8291134 ATAAGGAAACTGAATATTATCAAATGAAAA
1 ATAAGGAAACTAAATATTATCAAATGAAAA
* *
8291164 ATAAGGAAACTAAATATTTTCAAATGAAAG
1 ATAAGGAAACTAAATATTATCAAATGAAAA
8291194 ATAAGG
1 ATAAGG
8291200 TGAATTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (30 bp):
ATAAGGAAACTAAATATTATCAAATGAAAA
Found at i:8297950 original size:22 final size:22
Alignment explanation
Indices: 8297922--8297963 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8297912 TAAAAATGGA
* *
8297922 TTTTTTATTATTAAAATATTGT
1 TTTTTTAATATCAAAATATTGT
8297944 TTTTTTAATATCAAAATATT
1 TTTTTTAATATCAAAATATT
8297964 TTGTTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTAATATCAAAATATTGT
Found at i:8298889 original size:18 final size:18
Alignment explanation
Indices: 8298837--8298889 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
8298827 TGCAGTTGAA
*
8298837 ATAATTATTTGAAATACTT
1 ATAA-TATTTGAAATAATT
*
8298856 -TAA-ATAT-AAA-AATT
1 ATAATATTTGAAATAATT
8298870 ATAATATTTGAAATAATT
1 ATAATATTTGAAATAATT
8298888 AT
1 AT
8298890 TTTATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 9
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.11
15 6 0.22
16 6 0.22
17 3 0.11
18 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
ATAATATTTGAAATAATT
Found at i:8303750 original size:37 final size:37
Alignment explanation
Indices: 8303709--8303781 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
8303699 AAAAATATTT
*
8303709 TTATATTTCTTTTGAAAACTTTTAAAT-TTTTTATAAA
1 TTATATTTATTTTGAAAA-TTTTAAATATTTTTATAAA
* * *
8303746 TTATATTTATTTTTATAATTTTTAATATTTTTATAA
1 TTATATTTATTTTGAAAATTTTAAATATTTTTATAA
8303782 TTAGGATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (37 bp):
TTATATTTATTTTGAAAATTTTAAATATTTTTATAAA
Found at i:8303758 original size:19 final size:18
Alignment explanation
Indices: 8303736--8303781 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
8303726 ACTTTTAAAT
*
8303736 TTTTTATAAATTATATTTA
1 TTTTTATAAATTATA-ATA
* *
8303755 TTTTTATAATTTTTAATA
1 TTTTTATAAATTATAATA
8303773 TTTTTATAA
1 TTTTTATAA
8303782 TTAGGATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTATAAATTATAATA
Found at i:8303765 original size:18 final size:18
Alignment explanation
Indices: 8303736--8303784 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
8303726 ACTTTTAAAT
8303736 TTTTTATAAATTATATT-TA
1 TTTTTAT-AATTAT-TTATA
8303755 TTTTTATAATT-TTTAATA
1 TTTTTATAATTATTT-ATA
8303773 TTTTTATAATTA
1 TTTTTATAATTA
8303785 GGATTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.07
17 1 0.04
18 17 0.63
19 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTATTTATA
Found at i:8306011 original size:7 final size:7
Alignment explanation
Indices: 8306001--8306092 Score: 52
Period size: 7 Copynumber: 13.9 Consensus size: 7
8305991 CAAATCCTGA
8306001 GGTTTAG
1 GGTTTAG
8306008 GGTTT-G
1 GGTTTAG
*
8306014 GATTTAG
1 GGTTTAG
* *
8306021 GATTTAA
1 GGTTTAG
*
8306028 GGTTTTG
1 GGTTTAG
8306035 GG--TACG
1 GGTTTA-G
*
8306041 AGTTT-G
1 GGTTTAG
*
8306047 GGTTTTG
1 GGTTTAG
*
8306054 GGTTTAA
1 GGTTTAG
*
8306061 GGTTTAA
1 GGTTTAG
8306068 GGTTTA-
1 GGTTTAG
8306074 GGTTTA-
1 GGTTTAG
*
8306080 GATTTAG
1 GGTTTAG
8306087 GGTTTA
1 GGTTTA
8306093 AGGATTTGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
5 1 0.01
6 23 0.34
7 42 0.63
8 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:8306076 original size:13 final size:13
Alignment explanation
Indices: 8306054--8306127 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
8306044 TTGGGTTTTG
8306054 GGTTTAAGGTTTAA
1 GGTTT-AGGTTTAA
8306068 GGTTTAGGTTT-A
1 GGTTTAGGTTTAA
*
8306080 GATTTAGGGTTTAA
1 GGTTTA-GGTTTAA
*
8306094 GGATTTGAGGTTTAT
1 GG-TTT-AGGTTTAA
8306109 GGTTT-GAGTTTAA
1 GGTTTAG-GTTTAA
*
8306122 TGTTTA
1 GGTTTA
8306128 AGGGTTCGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
12 7 0.14
13 20 0.41
14 10 0.20
15 11 0.22
16 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (13 bp):
GGTTTAGGTTTAA
Found at i:8306078 original size:6 final size:7
Alignment explanation
Indices: 8306054--8306130 Score: 70
Period size: 7 Copynumber: 11.3 Consensus size: 7
8306044 TTGGGTTTTG
8306054 GGTTTAA
1 GGTTTAA
8306061 GGTTTAA
1 GGTTTAA
8306068 GGTTT-A
1 GGTTTAA
8306074 GGTTT-A
1 GGTTTAA
* *
8306080 GATTTAG
1 GGTTTAA
8306087 GGTTTAA
1 GGTTTAA
*
8306094 GGATTTGA
1 GG-TTTAA
*
8306102 GGTTTAT
1 GGTTTAA
*
8306109 GGTTTGA
1 GGTTTAA
8306116 -GTTTAA
1 GGTTTAA
*
8306122 TGTTTAA
1 GGTTTAA
8306129 GG
1 GG
8306131 GTTCGGGTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
6 16 0.29
7 34 0.61
8 6 0.11
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:8306090 original size:33 final size:33
Alignment explanation
Indices: 8306000--8306114 Score: 108
Period size: 33 Copynumber: 3.4 Consensus size: 33
8305990 CCAAATCCTG
* *
8306000 AGGTTTAGGGTTTGGATTTAGGATTTAAGGTTT
1 AGGTTTACGGTTTGGATTTAGGGTTTAAGGTTT
* * * *
8306033 TGG-GTACGAGTTTGGGTTTTGGGTTTAAGGTTT
1 AGGTTTACG-GTTTGGATTTAGGGTTTAAGGTTT
*
8306066 AAGGTTTA-GGTTTAGATTTAGGGTTTAAGGATTT
1 -AGGTTTACGGTTTGGATTTAGGGTTTAAGG-TTT
*
8306100 GAGGTTTATGGTTTG
1 -AGGTTTACGGTTTG
8306115 AGTTTAATGT
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
32 3 0.05
33 41 0.64
34 13 0.20
35 7 0.11
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (33 bp):
AGGTTTACGGTTTGGATTTAGGGTTTAAGGTTT
Found at i:8306090 original size:40 final size:41
Alignment explanation
Indices: 8306002--8306113 Score: 101
Period size: 40 Copynumber: 2.8 Consensus size: 41
8305992 AAATCCTGAG
*
8306002 GTTTAGGG-TTTGGATTTAGGATTTAAGGTTTTGGGTACGA
1 GTTTAGGGTTTTGGATTTAGGATTTAAGGTTTAGGGTACGA
* *
8306042 GTTT-GGGTTTTGGGTTTAAGG-TTTAAGGTTTAGGTTTA-GA
1 GTTTAGGGTTTTGGATTT-AGGATTTAAGGTTTAGG-GTACGA
* *
8306082 -TTTAGGGTTTAAGGATTTGAGG-TTTATGGTTT
1 GTTTAGGGTTT-TGGATTT-AGGATTTAAGGTTT
8306114 GAGTTTAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
39 6 0.10
40 32 0.53
41 22 0.37
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (41 bp):
GTTTAGGGTTTTGGATTTAGGATTTAAGGTTTAGGGTACGA
Found at i:8306091 original size:26 final size:28
Alignment explanation
Indices: 8306056--8306107 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
8306046 GGGTTTTGGG
8306056 TTTAAGGTTTAAGG-TTT-AGGTTTAGA
1 TTTAAGGTTTAAGGATTTGAGGTTTAGA
*
8306082 TTTAGGGTTTAAGGATTTGAGGTTTA
1 TTTAAGGTTTAAGGATTTGAGGTTTA
8306108 TGGTTTGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 13 0.57
27 3 0.13
28 7 0.30
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (28 bp):
TTTAAGGTTTAAGGATTTGAGGTTTAGA
Found at i:8306152 original size:35 final size:35
Alignment explanation
Indices: 8306113--8306192 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
8306103 GTTTATGGTT
8306113 TGAGTTTAATG-TTTAAGGGTTCGGGTTACAA-G-TTA
1 TGAGTTTAA-GATTT-AGGGTTCGGGTT-CAAGGTTTA
8306148 TGAGTTTAAGATTTAGGGTTCGGGTTCAAGGTTTA
1 TGAGTTTAAGATTTAGGGTTCGGGTTCAAGGTTTA
*
8306183 AGAGTTTAAG
1 TGAGTTTAAG
8306193 GTTACATGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
33 3 0.07
34 14 0.34
35 24 0.59
ACGTcount: A:0.26, C:0.05, G:0.30, T:0.39
Consensus pattern (35 bp):
TGAGTTTAAGATTTAGGGTTCGGGTTCAAGGTTTA
Found at i:8307251 original size:3 final size:3
Alignment explanation
Indices: 8307243--8307268 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8307233 TCAACCCAAA
8307243 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
8307269 AGAAAGAATA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8311550 original size:22 final size:22
Alignment explanation
Indices: 8311522--8311564 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8311512 CTTTTGAACT
*
8311522 AATCTAATA-ATTATATCATATC
1 AATCTAAAATATTATAT-ATATC
8311544 AATCTAAAATATTATATATAT
1 AATCTAAAATATTATATATAT
8311565 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
AATCTAAAATATTATATATATC
Found at i:8312419 original size:9 final size:9
Alignment explanation
Indices: 8312405--8312472 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
8312395 TTTGGTTAAA
8312405 AATTACCCG
1 AATTACCCG
8312414 AATTACCCG
1 AATTACCCG
*
8312423 AATTAACCG
1 AATTACCCG
*
8312432 AATTAACCG
1 AATTACCCG
8312441 AATTA-CCG
1 AATTACCCG
*
8312449 AAAAATACCCG
1 --AATTACCCG
*
8312460 AATTGCCCG
1 AATTACCCG
8312469 AATT
1 AATT
8312473 TTTTTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
8 3 0.06
9 42 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:8319660 original size:12 final size:12
Alignment explanation
Indices: 8319642--8319671 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8319632 AGGTAGGCAA
8319642 CTTTTTTTTGCG
1 CTTTTTTTTGCG
*
8319654 GTTTTTTTTGCG
1 CTTTTTTTTGCG
8319666 CTTTTT
1 CTTTTT
8319672 GCTTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.17, T:0.70
Consensus pattern (12 bp):
CTTTTTTTTGCG
Found at i:8319887 original size:3 final size:3
Alignment explanation
Indices: 8319879--8319925 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
8319869 AATAAATTTA
*
8319879 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8319926 AAGGATAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8320268 original size:31 final size:32
Alignment explanation
Indices: 8320225--8320287 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
8320215 AGGCAAATTA
8320225 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
8320256 CAAGAG-ATATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTA-ATTGAATCCTAATAAAAACTCTTT
8320288 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 1 0.03
31 19 0.63
32 10 0.33
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:8324208 original size:17 final size:17
Alignment explanation
Indices: 8324186--8324224 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8324176 ACCATATCAT
8324186 TTTTATCCATTAAATAA
1 TTTTATCCATTAAATAA
** *
8324203 TTTTATTTATTAATTAA
1 TTTTATCCATTAAATAA
8324220 TTTTA
1 TTTTA
8324225 GAGTAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTATCCATTAAATAA
Found at i:8324673 original size:6 final size:6
Alignment explanation
Indices: 8324659--8324691 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8324649 CCACAAGTCT
*
8324659 GGAGGG GGAGAG GGAGAG GGAGAG GGAGAG GGA
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGA
8324692 TGTGGAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:8324698 original size:18 final size:18
Alignment explanation
Indices: 8324658--8324701 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8324648 CCCACAAGTC
*
8324658 TGGAGGGGGAGAGGGAGA
1 TGGAGAGGGAGAGGGAGA
*
8324676 GGGAGAGGGAGAGGGATG-
1 TGGAGAGGGAGAGGGA-GA
8324694 TGGAGAGG
1 TGGAGAGG
8324702 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.66, T:0.07
Consensus pattern (18 bp):
TGGAGAGGGAGAGGGAGA
Found at i:8327180 original size:3 final size:3
Alignment explanation
Indices: 8327174--8327222 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8327164 AACTCAAATA
8327174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8327222 A
1 A
8327223 TGTTTAACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8333514 original size:46 final size:46
Alignment explanation
Indices: 8333414--8333821 Score: 441
Period size: 46 Copynumber: 9.6 Consensus size: 46
8333404 TACGTATGAT
*
8333414 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
8333457 CACTTATCACTTTGTCACTTGATCAGATAGGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
8333503 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
8333549 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
8333595 CACTTATCACTTTGTTACTTGATCAGATAA--GTA--T-A---T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
8333631 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
8333667 CACTTATCACTTTTTCACTTGATCAGATAAGTGTTGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
8333713 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
8333749 CACTTATCACTTTTTCACTTGATCAGATAAGTGTCGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
8333795 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8333822 AGTACTCAAA
Statistics
Matches: 325, Mismatches: 16, Indels: 45
0.84 0.04 0.12
Matches are distributed among these distances:
36 91 0.28
38 5 0.02
39 1 0.00
40 3 0.01
41 4 0.01
42 4 0.01
43 11 0.03
44 10 0.03
45 19 0.06
46 177 0.54
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:8333636 original size:36 final size:36
Alignment explanation
Indices: 8333595--8333780 Score: 221
Period size: 36 Copynumber: 4.9 Consensus size: 36
8333585 CTAAGGCTAA
*
8333595 CACTTATCACTTTGTT-ACTTGATCAGATAAGTATAT
1 CACTTATCACTTT-TTCACTTGATCAGATAAGTATAG
8333631 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
8333667 CACTTATCACTTTTTCACTTGATCAGATAAGTGTTGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAA-----G-T--A--TAG
* * *
8333713 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
8333749 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
8333781 GTCGCTAAAG
Statistics
Matches: 131, Mismatches: 8, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
35 2 0.02
36 94 0.72
40 1 0.01
41 2 0.02
42 1 0.01
44 1 0.01
46 30 0.23
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:8333717 original size:82 final size:81
Alignment explanation
Indices: 8333503--8333821 Score: 361
Period size: 82 Copynumber: 3.9 Consensus size: 81
8333493 CTAAGGCTAC
* * *
8333503 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-GCTAAAGCTACCACTTATCACTTTATCACT
8333568 TGATCAGATAAGTGTAGCTAAGG
65 TGATCAGATAA--GTA--T-A-G
* *
8333591 CTAACACTTATCACTTTGTT-ACTTGATCAGATAA----G-T--A--TATCACTTATCACTTTTT
1 ----CACTTATCACTTT-TTCACTTGATCAGATAAGTGTGCTAAAGCTACCACTTATCACTTTAT
8333646 CACTTGATCAGATAAGTATAG
61 CACTTGATCAGATAAGTATAG
* *
8333667 CACTTATCACTTTTTCACTTGATCAGATAAGTGTTGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTG-TGCTAAAGCTACCACTTATCACTTTATCACT
*
8333732 TGATCAGATAAGTGTAG
65 TGATCAGATAAGTATAG
*
8333749 CACTTATCACTTTTTCACTTGATCAGATAAGTGTCGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-GCTAAAGCTACCACTTATCACTTTATCACT
8333814 TGATCAGA
65 TGATCAGA
8333822 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 9, Indels: 36
0.82 0.04 0.14
Matches are distributed among these distances:
71 2 0.01
72 27 0.13
76 1 0.00
77 2 0.01
78 2 0.01
80 4 0.02
81 1 0.00
82 136 0.66
86 1 0.00
87 1 0.00
92 27 0.13
93 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (81 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTGCTAAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTATAG
Found at i:8333757 original size:118 final size:118
Alignment explanation
Indices: 8333549--8333780 Score: 394
Period size: 118 Copynumber: 2.0 Consensus size: 118
8333539 CTAAGGCTAC
*
8333549 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTTACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTTACT
*
8333614 TGATCAGATAAGTATATCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
8333667 CACTTATCACTTTTTCACTTGATCAGATAAGTGTTGCTAAAGCTACCACTTATCACTTTGTCT-C
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGT-TAC
*
8333731 TTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGT
65 TTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
8333781 GTCGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 106 0.99
119 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTTACT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:8336358 original size:34 final size:33
Alignment explanation
Indices: 8336282--8336364 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
8336272 CAATTCAATA
8336282 ACAGT-TCAGT-TCAGTTGGGCCTAAGCCCATT
1 ACAGTATCAGTATCAGTTGGGCCTAAGCCCATT
* *
8336313 ATAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGTATCAGTATCAGT-TGGGCCTAAGCCCATT
*
8336347 ACAGTGA-CAGTAACAGTT
1 ACAGT-ATCAGTATCAGTT
8336365 CAGACATGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
31 4 0.09
32 5 0.11
33 6 0.14
34 28 0.64
35 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (33 bp):
ACAGTATCAGTATCAGTTGGGCCTAAGCCCATT
Found at i:8346695 original size:6 final size:6
Alignment explanation
Indices: 8346684--8346711 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8346674 TTCAAATGCC
8346684 CAGAAT CAGAAT CAGAAT CAGAAT CAGA
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGA
8346712 TATAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.14
Consensus pattern (6 bp):
CAGAAT
Found at i:8356217 original size:25 final size:25
Alignment explanation
Indices: 8356138--8356218 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 25
8356128 AATTTTTTAA
* *
8356138 ATTA-TAAAAAAAT-TAT-AAAATT
1 ATTATTAAAAATATATATAAAAAAT
* * * *
8356160 ATTGTTAAAAATAAAAATCAATAAA-
1 ATTATTAAAAATATATAT-AAAAAAT
8356185 ATTATTAAAAATATATATAAAAAAT
1 ATTATTAAAAATATATATAAAAAAT
*
8356210 ATTCTTAAA
1 ATTATTAAA
8356219 TATTTTTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
22 3 0.07
23 7 0.16
24 7 0.16
25 23 0.53
26 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (25 bp):
ATTATTAAAAATATATATAAAAAAT
Found at i:8356738 original size:3 final size:3
Alignment explanation
Indices: 8356730--8356760 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8356720 TTCACACCTT
8356730 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8356761 GTGCATTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8358460 original size:6 final size:6
Alignment explanation
Indices: 8358449--8358477 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8358439 CAATGAAGTA
8358449 TTCATC TTCATC TTCATC TTCATC TTCAT
1 TTCATC TTCATC TTCATC TTCATC TTCAT
8358478 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:8365066 original size:14 final size:14
Alignment explanation
Indices: 8365042--8365075 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8365032 GAAAGGAGAG
*
8365042 AAAGGAGAAGAAAA
1 AAAGAAGAAGAAAA
*
8365056 GAAGAAGAAGAAAA
1 AAAGAAGAAGAAAA
8365070 AAAGAA
1 AAAGAA
8365076 AAAAGGTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:8365312 original size:60 final size:60
Alignment explanation
Indices: 8365235--8365363 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
8365225 GCAATTTTTT
* *
8365235 TTGTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
*
8365295 TTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
8365355 TTGTGTTTA
1 TTGTGTTTA
8365364 GTATAGTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
Found at i:8365498 original size:13 final size:13
Alignment explanation
Indices: 8365480--8365530 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
8365470 TTATTTATGC
*
8365480 ATTTATTAATTTT
1 ATTTATCAATTTT
8365493 ATTTATCAATTTT
1 ATTTATCAATTTT
*
8365506 -TTT-TCCATTTT
1 ATTTATCAATTTT
*
8365517 ATTTATTAATTTT
1 ATTTATCAATTTT
8365530 A
1 A
8365531 GGAGTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.22
12 6 0.19
13 19 0.59
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATCAATTTT
Found at i:8385790 original size:31 final size:31
Alignment explanation
Indices: 8385752--8385840 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
8385742 GCTTAATATG
8385752 ACTTGACACTTTTTTCTAATTTGGTACCTAA
1 ACTTGACACTTTTTTCTAATTTGGTACCTAA
8385783 ACTTGACA-TTTTTTCCTAATTTGGTACCTAA
1 ACTTGACACTTTTTT-CTAATTTGGTACCTAA
*
8385814 ACTTGACAC-TTTTTCTTAAGTTGGTAC
1 ACTTGACACTTTTTTC-TAATTTGGTAC
8385841 TTAATCTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
30 7 0.13
31 47 0.87
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (31 bp):
ACTTGACACTTTTTTCTAATTTGGTACCTAA
Found at i:8385900 original size:31 final size:31
Alignment explanation
Indices: 8385752--8385903 Score: 132
Period size: 31 Copynumber: 5.0 Consensus size: 31
8385742 GCTTAATATG
* *
8385752 ACTTGACACTTTTTTCTAATTTGGTACCTAA
1 ACTTGACTCTTTTTCCTAATTTGGTACCTAA
8385783 ACTTGACAT-TTTTTCCTAATTTGGTACCTAA
1 ACTTGAC-TCTTTTTCCTAATTTGGTACCTAA
* * * *
8385814 ACTTGACACTTTTTCTTAAGTTGGTACTTAA
1 ACTTGACTCTTTTTCCTAATTTGGTACCTAA
* ** **** *
8385845 TCTT-TTTGGGGGTT-C-ATTTTGGTACCTAA
1 ACTTGACT-CTTTTTCCTAATTTGGTACCTAA
8385874 ACTTGACTCTTTTTCCTAATTTGGTACCTA
1 ACTTGACTCTTTTTCCTAATTTGGTACCTA
8385904 CTTTTTTTTG
Statistics
Matches: 89, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
29 16 0.18
30 2 0.02
31 71 0.80
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.46
Consensus pattern (31 bp):
ACTTGACTCTTTTTCCTAATTTGGTACCTAA
Found at i:8386064 original size:24 final size:23
Alignment explanation
Indices: 8386037--8386082 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
8386027 TTTTTTTGTA
8386037 TTTTATATATTCAATTACTTTTAG
1 TTTTATATATTCAATTA-TTTTAG
* *
8386061 TTTTATTTATTTAATTATTTTA
1 TTTTATATATTCAATTATTTTA
8386083 TTAGTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATATATTCAATTATTTTAG
Found at i:8386309 original size:30 final size:30
Alignment explanation
Indices: 8386268--8386350 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
8386258 TATAACATTT
8386268 AAAAAATTTAGGTACCAAATTAAACCTAAA
1 AAAAAATTTAGGTACCAAATTAAACCTAAA
* *** *
8386298 AAAAAACTTAGGTACCAAATTGGGCCTTAA
1 AAAAAATTTAGGTACCAAATTAAACCTAAA
* *
8386328 AAAAAGTTTAAGTACCAAATTAA
1 AAAAAATTTAGGTACCAAATTAA
8386351 GAAAAAGTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (30 bp):
AAAAAATTTAGGTACCAAATTAAACCTAAA
Found at i:8397924 original size:7 final size:7
Alignment explanation
Indices: 8397912--8397958 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
8397902 AAGACCTTCT
*
8397912 TTTTTTC
1 TTTTTTG
8397919 TTTTTTG
1 TTTTTTG
8397926 TTTTTTG
1 TTTTTTG
8397933 TTTTTTG
1 TTTTTTG
8397940 TTTTTTG
1 TTTTTTG
*
8397947 TTTTTTC
1 TTTTTTG
8397954 TTTTT
1 TTTTT
8397959 CATATTTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:8398993 original size:44 final size:44
Alignment explanation
Indices: 8398942--8399172 Score: 266
Period size: 44 Copynumber: 5.2 Consensus size: 44
8398932 CTGCAGTTTT
* * * * **
8398942 AGGGAGATAAAATTTGTTGCTTCAATCTGCTCCACTATAACTTC
1 AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
* *
8398986 AAGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
1 AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
* *
8399030 AGGGAGATAAGATTCGTAACTCCAATCTGCTCTACTGCAAC-TC
1 AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
* * * *
8399073 TAGGGAGATAAGATTCATAGCTCCAATCTGCTCTATTGTAACTTC
1 -AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
* * * * *
8399118 AGAGAGATGAGATTCGTAGCTTCAATTTGCTCCACTACAACTTC
1 AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
*
8399162 TGGGAGATAAG
1 AGGGAGATAAG
8399173 GTTTGCTATG
Statistics
Matches: 159, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 2 0.01
44 155 0.97
45 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATTCGTAGCTTCAATCTGCTCTACTGCAACTTC
Found at i:8412687 original size:18 final size:18
Alignment explanation
Indices: 8412666--8412703 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8412656 TAGTTTACCC
8412666 TATAAT-TTATGGTTATTT
1 TATAATATTATGGTT-TTT
*
8412684 TATAATATTCTGGTTTTT
1 TATAATATTATGGTTTTT
8412702 TA
1 TA
8412704 GAAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.61
Consensus pattern (18 bp):
TATAATATTATGGTTTTT
Found at i:8414370 original size:22 final size:23
Alignment explanation
Indices: 8414313--8414373 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 23
8414303 CTTTTATATG
*
8414313 ATTATTTTAACTTGCTTTGTAAATT
1 ATTATTTTAAGTTGCTTTGT--ATT
*
8414338 ATCTATGTTAAGTTGCTTTGT-TT
1 AT-TATTTTAAGTTGCTTTGTATT
8414361 ATTATTTTAAGTT
1 ATTATTTTAAGTT
8414374 ATTTTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
25 2 0.06
26 16 0.50
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (23 bp):
ATTATTTTAAGTTGCTTTGTATT
Found at i:8422248 original size:44 final size:44
Alignment explanation
Indices: 8422200--8422313 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
8422190 ACCAGTATGG
* * * *
8422200 GAAGACAAGATTTGCTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTCTCTTCGATCTACTCCACGCCAATACAT
* *
8422244 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACGCTAATACAT
1 GAAGACAAGATCTGCTCTCTTCGATCTACTCCACGCCAATACAT
* * * *
8422288 GAAGGCAATATCTTCTTTCTTCGATC
1 GAAGACAAGATCTGCTCTCTTCGATC
8422314 GATTCCACTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (44 bp):
GAAGACAAGATCTGCTCTCTTCGATCTACTCCACGCCAATACAT
Found at i:8422571 original size:44 final size:44
Alignment explanation
Indices: 8422523--8422858 Score: 121
Period size: 44 Copynumber: 7.6 Consensus size: 44
8422513 GCCATCTTCG
*
8422523 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTTA
1 ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTTA
* * * * * * *
8422567 ATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * * * *** * *
8422610 ATGTACTCCACT-GTAACCTCAAGGAGGTAAAATCTACCATATTTG
1 ATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGTAATCTTTA
* * *
8422655 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTA
1 ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTTA
* * * * * * *
8422699 ATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * * * *** * *
8422742 ATGTACTCCACT-GTAACCTCAAGGAGGTAAAATCTACCATATTTG
1 ATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGTAATCTTTA
* * * *
8422787 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATATTTA
1 ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTTA
* * * * *
8422831 ATTTATTCTACTACTGCCCAGGGAGATA
1 ATCTACTCCACTACTACTCAGGGAGATA
8422859 GAATTACTGG
Statistics
Matches: 199, Mismatches: 77, Indels: 32
0.65 0.25 0.10
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 34 0.17
44 121 0.61
45 28 0.14
46 4 0.02
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTTA
Found at i:8422676 original size:132 final size:132
Alignment explanation
Indices: 8422329--8422913 Score: 900
Period size: 132 Copynumber: 4.5 Consensus size: 132
8422319 CACTACCGAT
* * * *
8422329 CAGGGAGTTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
* * *
8422394 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
66 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
8422459 CC
131 CC
* * * *
8422461 CATGGAGAT-GGA--A-----TTCAATGTACTCCACTGTAACCTCATGGAGGTAAAAT-TCGCCA
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCT-ACCA
* * * *
8422517 TCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCT
65 TATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCT
8422582 GCC
130 GCC
8422585 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
8422650 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
66 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
8422715 CC
131 CC
8422717 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
* * * *
8422782 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATATTTAATTTATTCTACTACTG
66 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
8422847 CC
131 CC
* * *
8422849 CAGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
1 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
8422914 CAACCTGCTC
Statistics
Matches: 416, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
124 109 0.26
125 2 0.00
127 1 0.00
129 1 0.00
131 2 0.00
132 300 0.72
133 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTACCAT
ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
CC
Found at i:8424323 original size:20 final size:21
Alignment explanation
Indices: 8424300--8424346 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
8424290 TTAGCCTCTC
*
8424300 CATTTTACTTTTTCAT-TTTT
1 CATTTTACATTTTCATCTTTT
*
8424320 CATTTTTCATTTTCATCTTTT
1 CATTTTACATTTTCATCTTTT
*
8424341 TATTTT
1 CATTTT
8424347 TTCACATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTACATTTTCATCTTTT
Found at i:8424348 original size:7 final size:7
Alignment explanation
Indices: 8424308--8424347 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
8424298 TCCATTTTAC
8424308 TTTTTCA
1 TTTTTCA
8424315 TTTTTCA
1 TTTTTCA
8424322 TTTTTCA
1 TTTTTCA
8424329 -TTTTCA
1 TTTTTCA
*
8424335 TCTTTTTA
1 T-TTTTCA
8424343 TTTTT
1 TTTTT
8424348 TCACATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:8425338 original size:18 final size:19
Alignment explanation
Indices: 8425313--8425354 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
8425303 TAATTTGGCA
8425313 GAAAAAAATCTG-AAAGAAT
1 GAAAAAAAT-TGTAAAGAAT
8425332 GAAAAAAATTGTAAAGAAT
1 GAAAAAAATTGTAAAGAAT
8425351 GAAA
1 GAAA
8425355 GAACATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (19 bp):
GAAAAAAATTGTAAAGAAT
Found at i:8427264 original size:19 final size:19
Alignment explanation
Indices: 8427240--8427285 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
8427230 AACTGTGTTT
* *
8427240 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
8427258 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
8427278 AATGCAAA
1 AATGCAAA
8427286 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:8438005 original size:3 final size:3
Alignment explanation
Indices: 8437997--8438037 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8437987 TGAGAGTAAA
8437997 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8438038 AGGGAATACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8441321 original size:12 final size:12
Alignment explanation
Indices: 8441304--8441339 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8441294 TATATATTTT
*
8441304 TAAAAATTTATA
1 TAAAAATTAATA
*
8441316 TAAAAAATAATA
1 TAAAAATTAATA
8441328 TAAAAATTAATA
1 TAAAAATTAATA
8441340 CGGGTGGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAATTAATA
Found at i:8448094 original size:12 final size:12
Alignment explanation
Indices: 8448077--8448101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8448067 AATAATGAAA
8448077 ACGTAAATAAAT
1 ACGTAAATAAAT
8448089 ACGTAAATAAAT
1 ACGTAAATAAAT
8448101 A
1 A
8448102 AAATGAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ACGTAAATAAAT
Found at i:8448941 original size:10 final size:10
Alignment explanation
Indices: 8448928--8448969 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
8448918 ATTTTATTTT
8448928 ATTTCATTCC
1 ATTTCATTCC
*
8448938 ATTTCGTTCC
1 ATTTCATTCC
* *
8448948 ATTCCATACC
1 ATTTCATTCC
8448958 ATTTCATTCC
1 ATTTCATTCC
8448968 AT
1 AT
8448970 AGCATTTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.02, T:0.45
Consensus pattern (10 bp):
ATTTCATTCC
Found at i:8448941 original size:15 final size:15
Alignment explanation
Indices: 8448928--8448984 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
8448918 ATTTTATTTT
*
8448928 ATTTCATTCCATTTC
1 ATTTCATTCCATATC
* * *
8448943 GTTCCATTCCATACC
1 ATTTCATTCCATATC
*
8448958 ATTTCATTCCATAGC
1 ATTTCATTCCATATC
8448973 ATTTCATTCCAT
1 ATTTCATTCCAT
8448985 CAAGCATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.04, T:0.44
Consensus pattern (15 bp):
ATTTCATTCCATATC
Found at i:8452169 original size:10 final size:10
Alignment explanation
Indices: 8452145--8452189 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
8452135 CGAAAGAGGA
*
8452145 AAAAAAAACT
1 AAAAAAAAGT
8452155 CAAAAAAAAGT
1 -AAAAAAAAGT
8452166 AAAAAAAAGT
1 AAAAAAAAGT
*
8452176 AAAATAAA-T
1 AAAAAAAAGT
8452185 AAAAA
1 AAAAA
8452190 CTCAAGAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 5 0.16
10 17 0.55
11 9 0.29
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (10 bp):
AAAAAAAAGT
Found at i:8454001 original size:9 final size:9
Alignment explanation
Indices: 8453983--8454028 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
8453973 CGAAGAAACA
*
8453983 TCATCATCC
1 TCATCGTCC
8453992 TCATCGTCC
1 TCATCGTCC
8454001 TCATCGTCC
1 TCATCGTCC
* * *
8454010 TTATCATCG
1 TCATCGTCC
8454019 TCATCGTCC
1 TCATCGTCC
8454028 T
1 T
8454029 TTTTGCAACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.15, C:0.39, G:0.09, T:0.37
Consensus pattern (9 bp):
TCATCGTCC
Found at i:8462552 original size:16 final size:17
Alignment explanation
Indices: 8462528--8462560 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8462518 AATTTCTATT
*
8462528 TATAGGGGA-AAAATAA
1 TATAAGGGAGAAAATAA
8462544 TATAAGGGAGAAAATAA
1 TATAAGGGAGAAAATAA
8462561 AAAGTTGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (17 bp):
TATAAGGGAGAAAATAA
Found at i:8464185 original size:73 final size:73
Alignment explanation
Indices: 8464077--8464220 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 73
8464067 AAAGCGCAGC
* *
8464077 AAAAAACCTAAGCCCAACAACGCCGTTTCTCGAGCTTTCGGGGATTTAGCGGCGTTTCCAAGAAA
1 AAAAAACCTAAGCCCAACAACGCCGTTTCTCGAGCTTTCGGGGATTTAGCGACATTTCCAAGAAA
8464142 GCGCCGTA
66 GCGCCGTA
* **
8464150 AAAAAACCTAAGCCCAACAACGCCATTT-TCTGAGCTTTCGGGGATTTAGCGACATTTTTAAGAA
1 AAAAAACCTAAGCCCAACAACGCCGTTTCTC-GAGCTTTCGGGGATTTAGCGACATTTCCAAGAA
8464214 AGCGCCG
65 AGCGCCG
8464221 CTAACGCTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 2 0.03
73 63 0.97
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (73 bp):
AAAAAACCTAAGCCCAACAACGCCGTTTCTCGAGCTTTCGGGGATTTAGCGACATTTCCAAGAAA
GCGCCGTA
Found at i:8464268 original size:114 final size:114
Alignment explanation
Indices: 8464121--8464681 Score: 811
Period size: 114 Copynumber: 4.9 Consensus size: 114
8464111 CTTTCGGGGA
** * * * *
8464121 TTTAGCGGCGTTTCCAAGAAAGCGCCGTAAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
8464186 TTCGGGGATTTAGCGACATTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
8464235 TTTAGCGGCGTTTTTAGGAAAGCACCACAAAAAAACCTAAGCCCAACGACACCGTTTTCTAAGCT
1 TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
8464300 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGTTAATGCTCATGGC
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*** * * * *
8464349 TTTAGCGGCGTGGGGTGGGGAAGCGCCGCAAAAAAACCTAAGCCCAACTACGCAGTTTTCTGAGC
1 TTTAGCGGCGT-TTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
8464414 TTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
8464464 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
8464529 TTCGGGGATCTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
8464578 TTTAGCGGCGTTTTT-GATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGC
1 TTTAGCGGCGTTTTTAG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* *
8464642 TTTCGGGGATTTAGCGGCAGTTTT-GGAAAAGCGCCGCTAA
65 TTTCGGGGATTTAGCGGCATTTTTAAG-AAAGCGCCGCTAA
8464682 AAATATTTTA
Statistics
Matches: 399, Mismatches: 45, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
113 2 0.01
114 297 0.74
115 100 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:8464392 original size:229 final size:228
Alignment explanation
Indices: 8464137--8464681 Score: 833
Period size: 229 Copynumber: 2.4 Consensus size: 228
8464127 GGCGTTTCCA
* *
8464137 AGAAAGCGCCGTAAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGA
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGG
8464202 CATTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCGTTTTTAGGAAAGCACCACAAAA
66 CATTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCGTTTTTAGGAAAGCACCACAAAA
*
8464267 AAACCTAAGCCCAACGACACCGTTTTCTAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCG
131 AAACCTAAGCCCAACGACACCGTTTTCTAAGCTTTCGGGGATCTAGCGGCGTTTTTAAGAAAGCG
* *
8464332 CCGTTAATGCTCATGGCTTTAGCGGCGTGGGGTG
196 CCGCTAATGCTCAGGGCTTTAGCGGCGT-GGGTG
* * *
8464366 GGGAAGCGCCGCAAAAAAACCTAAGCCCAACTACG-CAGTTTTCTGAGCTTTCGGGGATTTAGCG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCA-TTTTCTGAGCTTTCGGGGATTTAGCG
* * * *
8464430 GCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAA
65 GCATTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCGTTTTTAGGAAAGCACCACAAA
* * *
8464495 AAATCCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATCTAGCGGCGTTTTTAAGAAAGC
130 AAAACCTAAGCCCAACGACACCGTTTTCTAAGCTTTCGGGGATCTAGCGGCGTTTTTAAGAAAGC
***
8464560 GCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
195 GCCGCTAATGCTCAGGGCTTTAGCGGCGTGGGTG
* * **
8464594 ATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGCGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGG
* *
8464659 CAGTTTT-GGAAAAGCGCCGCTAA
66 CATTTTTAAG-AAAGCGCCGCTAA
8464682 AAATATTTTA
Statistics
Matches: 287, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
227 1 0.00
228 81 0.28
229 205 0.71
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (228 bp):
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGG
CATTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCGTTTTTAGGAAAGCACCACAAAA
AAACCTAAGCCCAACGACACCGTTTTCTAAGCTTTCGGGGATCTAGCGGCGTTTTTAAGAAAGCG
CCGCTAATGCTCAGGGCTTTAGCGGCGTGGGTG
Found at i:8465252 original size:7 final size:7
Alignment explanation
Indices: 8465242--8465280 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
8465232 GATTTAAGGT
8465242 TTAGGGG
1 TTAGGGG
8465249 TTAGGGG
1 TTAGGGG
8465256 TTTAGGGG
1 -TTAGGGG
**
8465264 TTAGATG
1 TTAGGGG
8465271 TTAGGGG
1 TTAGGGG
8465278 TTA
1 TTA
8465281 AGAGTTAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:8465308 original size:15 final size:14
Alignment explanation
Indices: 8465235--8465305 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
8465225 NNNNTGGGAT
8465235 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
*
8465249 TTAGGGGTTTAGGGG
1 TTA-AGGTTTAGGGG
*
8465264 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
* **
8465278 TTAAGAGTTAAGGAT
1 TTAAG-GTTTAGGGG
8465293 TTAAGGTTTAGGG
1 TTAAGGTTTAGGG
8465306 ATTCAGGGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
13 2 0.05
14 18 0.41
15 23 0.52
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:8466237 original size:106 final size:108
Alignment explanation
Indices: 8465992--8466238 Score: 338
Period size: 106 Copynumber: 2.3 Consensus size: 108
8465982 TAAAAACTAA
* * *
8465992 AATAGCAAACCGACGTCATTTTATTCAAAATGAAAAAATTTTGCGGCGTTTTTTATAAAAACGCC
1 AATAGCAAAACGACGTCGTTTTATTCAAAATG--AAAA-TTAGCGGCGTTTTTTATAAAAACGCC
*
8466057 ACAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAG
63 ACAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAG
* * * ** *
8466103 CATAGCAAAATGGCGTCGTTTTGCTCAAAATG-AAA-TAGCGGCG-TTTTTATAAAAAACGCCGC
1 AATAGCAAAACGACGTCGTTTTATTCAAAATGAAAATTAGCGGCGTTTTTTAT-AAAAACGCCAC
8466165 AAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAG
65 AAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAG
*
8466209 AATAGTAAAACGACGTCGTTTTATTCAAAA
1 AATAGCAAAACGACGTCGTTTTATTCAAAA
8466239 AAAAGAGCTA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
105 7 0.06
106 84 0.71
108 3 0.03
111 25 0.21
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (108 bp):
AATAGCAAAACGACGTCGTTTTATTCAAAATGAAAATTAGCGGCGTTTTTTATAAAAACGCCACA
AAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAG
Found at i:8469899 original size:43 final size:43
Alignment explanation
Indices: 8469812--8469969 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
8469802 CAAGAAGCGT
* * * ***
8469812 CGCTAAAGGT-TTGTTCTATAGTGGCGTTCGTATAAAAAGT-GC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAA-TCGC
* *
8469854 CGCTAAAGGTCTTGATCTACAGTGGCGTTTGTGGGAAAATCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAATCGC
* * *
8469897 CGCTAAAGGTCTTGAGCTATAGCGGCGTTT-TCGAGG-AAAGCGG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-G-GGAAAATCGC
8469940 CGCTAAAGGTCATTG-TCTATAGCGGCGTTT
1 CGCTAAAGGTC-TTGATCTATAGCGGCGTTT
8469970 ATTTCCAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.12
43 82 0.83
44 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAATCGC
Found at i:8487643 original size:12 final size:12
Alignment explanation
Indices: 8487594--8487636 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
8487584 TCATTTTATC
*
8487594 ATCAAGTCTTGA
1 ATCAAGTCATGA
8487606 ATCAAGTCATGA
1 ATCAAGTCATGA
*
8487618 ATCAAGTCATTA
1 ATCAAGTCATGA
8487630 ATCAAGT
1 ATCAAGT
8487637 TTTTAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (12 bp):
ATCAAGTCATGA
Found at i:8502932 original size:25 final size:24
Alignment explanation
Indices: 8502904--8503043 Score: 127
Period size: 25 Copynumber: 5.6 Consensus size: 24
8502894 CAGAGAATTT
* *
8502904 GCCATAAAGGATTTCCAAAAGATAC
1 GCCACAAAGGCTTTCC-AAAGATAC
* **
8502929 GCCACAAAGGCTTTCCAGAGAATTT
1 GCCACAAAGGCTTTCCAAAG-ATAC
** *
8502954 GCCACAAAGGCTTTCCGGAGAATTC
1 GCCACAAAGGCTTTCCAAAG-ATAC
*
8502979 GCCACAAAGGCTTTCCGAATGATAC
1 GCCACAAAGGCTTTCC-AAAGATAC
* * *
8503004 GCCATAAAAGCTTTTCAAATGATAC
1 GCCACAAAGGCTTTCCAAA-GATAC
8503029 GCCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
8503044 TAGAGAATTC
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
24 5 0.05
25 88 0.94
26 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
GCCACAAAGGCTTTCCAAAGATAC
Found at i:8502955 original size:50 final size:50
Alignment explanation
Indices: 8502880--8503052 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 50
8502870 TAACAACTCA
* * *
8502880 CCACAACGGTTTTCCAGAGAATTTGCCATAAAGGATTTCCAAAAGATACG
1 CCACAAAGGCTTTCCAGAGAATTTGCCATAAAGGCTTTCCAAAAGATACG
* ** *
8502930 CCACAAAGGCTTTCCAGAGAATTTGCCACAAAGGCTTTCC-GGAGAATTCG
1 CCACAAAGGCTTTCCAGAGAATTTGCCATAAAGGCTTTCCAAAAG-ATACG
** * * *
8502980 CCACAAAGGCTTTCC-GA-ATGATACGCCATAAAAGCTTTTCAAATGATACG
1 CCACAAAGGCTTTCCAGAGA--ATTTGCCATAAAGGCTTTCCAAAAGATACG
*
8503030 CCACAAAGGCTTTCTAGAGAATT
1 CCACAAAGGCTTTCCAGAGAATT
8503053 CTTGAGTTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 4 0.04
50 90 0.91
51 3 0.03
52 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (50 bp):
CCACAAAGGCTTTCCAGAGAATTTGCCATAAAGGCTTTCCAAAAGATACG
Found at i:8503003 original size:75 final size:75
Alignment explanation
Indices: 8502880--8503053 Score: 197
Period size: 75 Copynumber: 2.3 Consensus size: 75
8502870 TAACAACTCA
* * * * *
8502880 CCACAACGGTTTTCCAGAGAATTTGCCATAAAGGATTTCCAAAAGATACGCCACAAAGGCTTTCC
1 CCACAAAGGCTTTCCAGAGAATTCGCCACAAAGGATTTCCAAAAGATACGCCACAAAAGCTTTCC
* **
8502945 AGA-GAATTTG
66 AAATG-ATACG
* * * * * *
8502955 CCACAAAGGCTTTCCGGAGAATTCGCCACAAAGGCTTTCCGAATGATACGCCATAAAAGCTTTTC
1 CCACAAAGGCTTTCCAGAGAATTCGCCACAAAGGATTTCCAAAAGATACGCCACAAAAGCTTTCC
8503020 AAATGATACG
66 AAATGATACG
*
8503030 CCACAAAGGCTTTCTAGAGAATTC
1 CCACAAAGGCTTTCCAGAGAATTC
8503054 TTGAGTTTAC
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 81 0.99
76 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (75 bp):
CCACAAAGGCTTTCCAGAGAATTCGCCACAAAGGATTTCCAAAAGATACGCCACAAAAGCTTTCC
AAATGATACG
Found at i:8503854 original size:3 final size:3
Alignment explanation
Indices: 8503846--8503909 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
8503836 TCTACATATT
*
8503846 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
8503894 AAG AAG AAA AAG AAG A
1 AAG AAG AAG AAG AAG A
8503910 GAATGTTGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8516328 original size:21 final size:20
Alignment explanation
Indices: 8516287--8516332 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8516277 TAAATGATAA
*
8516287 TATAAATAGAATATAACTTT
1 TATAAATAAAATATAACTTT
* *
8516307 TATAAATATAAATATGATTTT
1 TATAAATA-AAATATAACTTT
8516328 TATAA
1 TATAA
8516333 TCTTCAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TATAAATAAAATATAACTTT
Found at i:8520963 original size:3 final size:3
Alignment explanation
Indices: 8520941--8521005 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
8520931 TTTTTTTTTC
*
8520941 TCT TCT CCT TC- TCTT TCT TCT TCT TC- TCT T-T CTCT TCT TCT TCT
1 TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT
*
8520985 TCT TCT TCT TTT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
8521006 ATTATACTGC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 7 0.13
3 42 0.81
4 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:8520967 original size:26 final size:26
Alignment explanation
Indices: 8520955--8521005 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8520945 CTCCTTCTCT
8520955 TTCTTCTTCTTCTCTTTCTCTTCTTC
1 TTCTTCTTCTTCTCTTTCTCTTCTTC
*
8520981 TTCTTCTTCTTCTTTTTCTCTTCTT
1 TTCTTCTTCTTCTCTTTCTCTTCTT
8521006 ATTATACTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (26 bp):
TTCTTCTTCTTCTCTTTCTCTTCTTC
Found at i:8520978 original size:32 final size:32
Alignment explanation
Indices: 8520937--8521002 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
8520927 TCCTTTTTTT
8520937 TTTCTCTTCTCCTTC-TCTTTCTTCTTCTTCTC
1 TTTCTCTTCTCCTTCTTC-TTCTTCTTCTTCTC
* *
8520969 TTTCTCTTCTTCTTCTTCTTCTTCTTTTTCTC
1 TTTCTCTTCTCCTTCTTCTTCTTCTTCTTCTC
8521001 TT
1 TT
8521003 CTTATTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTCTCTTCTCCTTCTTCTTCTTCTTCTTCTC
Found at i:8521804 original size:15 final size:15
Alignment explanation
Indices: 8521762--8521804 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
8521752 CCTACAAGGG
8521762 TAAAATAAAATA-TT
1 TAAAATAAAATATTT
*
8521776 AAAAAT-AAATATTT
1 TAAAATAAAATATTT
*
8521790 TAAAATAAAACATTT
1 TAAAATAAAATATTT
8521805 GTCACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATAAAATATTT
Found at i:8524813 original size:57 final size:57
Alignment explanation
Indices: 8524700--8524813 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
8524690 CTCCACTCCA
* * **
8524700 ACATTTACAGTTTCACCTCCATTTATTTGAACAGAAGCGGAGCTCTTATTGTGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
* *
8524757 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGACAG-GCTTTTCTTCAGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAG-CAGAGCTCTTATTCAGCTGC
8524814 TCTTCAACAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
57 48 0.96
58 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (57 bp):
ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
Found at i:8525931 original size:2 final size:2
Alignment explanation
Indices: 8525847--8525911 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
8525837 ATATATATAT
*
8525847 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
8525889 AG AG AG GG AG GG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
8525912 ATACCAAAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8526454 original size:22 final size:22
Alignment explanation
Indices: 8526435--8526520 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
8526425 TTGCCGTAAC
*
8526435 AAGCTCTCATGTTTCACGTACT
1 AAGCTCTCATGTTTAACGTACT
8526457 AAGCTCTCATGTTTAACGTACT
1 AAGCTCTCATGTTTAACGTACT
*
8526479 AAGCTCTCATGTTTAACGAACT
1 AAGCTCTCATGTTTAACGTACT
* * **
8526501 AAACCCTCATGGCTAACGTA
1 AAGCTCTCATGTTTAACGTA
8526521 ATTTTGTAGC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (22 bp):
AAGCTCTCATGTTTAACGTACT
Found at i:8530922 original size:23 final size:23
Alignment explanation
Indices: 8530872--8530922 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8530862 AGTAAAATTC
**
8530872 AAAATATTCTTACAATAATGTTA
1 AAAATATTCTTACAATAATGAAA
*
8530895 AAAATATTCTTATAATAA-GAAA
1 AAAATATTCTTACAATAATGAAA
8530917 ACAAAT
1 A-AAAT
8530923 GTCTAAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATATTCTTACAATAATGAAA
Found at i:8534730 original size:12 final size:12
Alignment explanation
Indices: 8534715--8534740 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8534705 ATCATCCCCT
8534715 TCATCAGATTCA
1 TCATCAGATTCA
8534727 TCATCAGATTCA
1 TCATCAGATTCA
8534739 TC
1 TC
8534741 CCTCAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:8536472 original size:9 final size:9
Alignment explanation
Indices: 8536458--8536583 Score: 91
Period size: 9 Copynumber: 14.0 Consensus size: 9
8536448 TAAGTGTAAT
8536458 TAAGTTATG
1 TAAGTTATG
8536467 TAAGTTATG
1 TAAGTTATG
* * *
8536476 ATATGATATA
1 -TAAGTTATG
*
8536486 T-ATTTATG
1 TAAGTTATG
8536494 T-A-TTATG
1 TAAGTTATG
8536501 TAAGTTATG
1 TAAGTTATG
*
8536510 TGAGTTATG
1 TAAGTTATG
8536519 TAAGTTATG
1 TAAGTTATG
* *
8536528 ATATGATATATA
1 -TAAG-T-TATG
8536540 TAAGTTAT-
1 TAAGTTATG
8536548 TAAGTTATG
1 TAAGTTATG
*
8536557 TATGTTATG
1 TAAGTTATG
8536566 TGAA-TTATG
1 T-AAGTTATG
*
8536575 GAAGTTATG
1 TAAGTTATG
8536584 ATATGATATA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
7 6 0.06
8 16 0.17
9 53 0.57
10 11 0.12
11 4 0.04
12 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:8536531 original size:47 final size:45
Alignment explanation
Indices: 8536460--8536574 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 45
8536450 AGTGTAATTA
*
8536460 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGT
1 AGTTATGTAA-TTATGATATGATATATA--TAAG--TTAT-TAAGTTATGT
8536511 GAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGT
1 -AGTTATGTAA-TTATGATATGATATATATAAGTTATTAAGTTATGT
8536558 ATGTTATGTGAATTATG
1 A-GTTATGT-AATTATG
8536575 GAAGTTATGA
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
46 1 0.02
47 22 0.37
48 6 0.10
50 3 0.05
52 28 0.47
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (45 bp):
AGTTATGTAATTATGATATGATATATATAAGTTATTAAGTTATGT
Found at i:8536567 original size:56 final size:55
Alignment explanation
Indices: 8536460--8536602 Score: 213
Period size: 56 Copynumber: 2.6 Consensus size: 55
8536450 AGTGTAATTA
8536460 AGTTATGTAAGTTATGATATGATATATAT---TTATGTATTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGTATTATGTAAGTTATGTG
*
8536512 AGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTATGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGT-A-TTATGTAAGTTATGTG
* *
8536568 AATTATGGAAGTTATGATATGATATATATAAGTTA
1 AGTTATGTAAGTTATGATATGATATATATAAGTTA
8536603 AAATAGTCCC
Statistics
Matches: 83, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
52 29 0.35
54 1 0.01
55 5 0.06
56 48 0.58
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (55 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATGTATTATGTAAGTTATGTG
Found at i:8537662 original size:41 final size:41
Alignment explanation
Indices: 8537604--8537794 Score: 337
Period size: 41 Copynumber: 4.6 Consensus size: 41
8537594 CTTAATTTAA
*
8537604 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
8537646 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
8537687 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
8537728 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
8537769 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
8537795 ACGTATAGTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 143 0.97
42 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:8538019 original size:2 final size:2
Alignment explanation
Indices: 8538014--8538044 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8538004 CGAAACACAC
8538014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8538045 GCCTCATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8541757 original size:18 final size:18
Alignment explanation
Indices: 8541736--8541777 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8541726 GGTGATGTAG
8541736 CAGATGAGGG-AGATGCAA
1 CAGATGAGGGCA-ATGCAA
*
8541754 CAGAGGAGGGCAATGCAA
1 CAGATGAGGGCAATGCAA
8541772 CAGATG
1 CAGATG
8541778 GGTTGGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.38, C:0.14, G:0.38, T:0.10
Consensus pattern (18 bp):
CAGATGAGGGCAATGCAA
Found at i:8541948 original size:40 final size:40
Alignment explanation
Indices: 8541893--8541970 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
8541883 AAAACAAAAT
* * *
8541893 GACCTTTGGCGGCGTTTTTCTCCTAGTGCCTCTAATGCTC
1 GACCTTTGGCGGCGTTTTTCACCTAGCGCCGCTAATGCTC
*
8541933 GACCTTTTGCGGCGTTTTTCACCTAGCGCCGCTAATGC
1 GACCTTTGGCGGCGTTTTTCACCTAGCGCCGCTAATGC
8541971 CACTAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.12, C:0.31, G:0.23, T:0.35
Consensus pattern (40 bp):
GACCTTTGGCGGCGTTTTTCACCTAGCGCCGCTAATGCTC
Found at i:8541986 original size:12 final size:12
Alignment explanation
Indices: 8541969--8541993 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8541959 CGCCGCTAAT
8541969 GCCACTAAAAAC
1 GCCACTAAAAAC
8541981 GCCACTAAAAAC
1 GCCACTAAAAAC
8541993 G
1 G
8541994 ACACCGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.32, G:0.12, T:0.08
Consensus pattern (12 bp):
GCCACTAAAAAC
Found at i:8542551 original size:7 final size:7
Alignment explanation
Indices: 8542541--8542566 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8542531 CCTAAATTAT
8542541 AAACCCA
1 AAACCCA
8542548 AAACCCA
1 AAACCCA
8542555 AAACCCA
1 AAACCCA
8542562 AAACC
1 AAACC
8542567 ATAAACACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.42, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCA
Found at i:8542559 original size:29 final size:29
Alignment explanation
Indices: 8542501--8542560 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
8542491 TATTTTTAAA
* * **
8542501 CCCTAATCTATAATCCCTAAACCCCTAAC
1 CCCTAATCTATAAACCCAAAACCCAAAAC
8542530 CCCTAAAT-TATAAACCCAAAACCCAAAAC
1 CCCT-AATCTATAAACCCAAAACCCAAAAC
8542559 CC
1 CC
8542561 AAAACCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (29 bp):
CCCTAATCTATAAACCCAAAACCCAAAAC
Found at i:8542572 original size:14 final size:14
Alignment explanation
Indices: 8542539--8542587 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
8542529 CCCCTAAATT
8542539 ATAAACCCAAAACCC
1 ATAAACCCAAAA-CC
8542554 A-AAACCCAAAACC
1 ATAAACCCAAAACC
* *
8542567 ATAAACACTAAACC
1 ATAAACCCAAAACC
8542581 ATAAACC
1 ATAAACC
8542588 TACACTCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 3 0.10
14 26 0.87
15 1 0.03
ACGTcount: A:0.57, C:0.35, G:0.00, T:0.08
Consensus pattern (14 bp):
ATAAACCCAAAACC
Found at i:8542579 original size:28 final size:28
Alignment explanation
Indices: 8542539--8542677 Score: 91
Period size: 28 Copynumber: 4.8 Consensus size: 28
8542529 CCCCTAAATT
* * *
8542539 ATAAACCCAAAACCCAAAACCCAAAACC
1 ATAAACACTAAACCCTAAACCCAAAACC
*
8542567 ATAAACACTAAACCATAAACCTACACTCTAAACC
1 ATAAACACTAAACCCTAAACC--CA----AAACC
* * * * *
8542601 ATAAACACTAAACTCTTAACACTAAATC
1 ATAAACACTAAACCCTAAACCCAAAACC
* * * *
8542629 ATAAACCCTAAATCTTAAACCCCAAACC
1 ATAAACACTAAACCCTAAACCCAAAACC
*
8542657 ATAAAC-CTACACCCTAAACCC
1 ATAAACACTAAACCCTAAACCC
8542678 TAAATATATA
Statistics
Matches: 84, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
27 12 0.14
28 47 0.56
30 2 0.02
32 1 0.01
34 22 0.26
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.16
Consensus pattern (28 bp):
ATAAACACTAAACCCTAAACCCAAAACC
Found at i:8542586 original size:21 final size:21
Alignment explanation
Indices: 8542562--8542649 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 21
8542552 CCAAAACCCA
*
8542562 AAACCATAAACACTAAACCAT
1 AAACCATAAACTCTAAACCAT
*
8542583 AAACC-TACACTCTAAACCAT
1 AAACCATAAACTCTAAACCAT
*
8542603 AAA-CACTAAACTCTTAA-CACT
1 AAACCA-TAAACTCTAAACCA-T
* * * *
8542624 AAATCATAAACCCTAAATCTT
1 AAACCATAAACTCTAAACCAT
8542645 AAACC
1 AAACC
8542650 CCAAACCATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 18 0.33
21 32 0.59
22 3 0.06
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCATAAACTCTAAACCAT
Found at i:8542599 original size:20 final size:21
Alignment explanation
Indices: 8542568--8542616 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
8542558 CCCAAAACCA
*
8542568 TAAACACTAAACCATAAAC-C
1 TAAACTCTAAACCATAAACAC
*
8542588 TACACTCTAAACCATAAACAC
1 TAAACTCTAAACCATAAACAC
8542609 TAAACTCT
1 TAAACTCT
8542617 TAACACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACTCTAAACCATAAACAC
Found at i:8542613 original size:14 final size:14
Alignment explanation
Indices: 8542562--8542681 Score: 73
Period size: 14 Copynumber: 8.2 Consensus size: 14
8542552 CCAAAACCCA
8542562 AAACCATAAACACT
1 AAACCATAAACACT
8542576 AAACCATAAACCTACACTCT
1 AAACCAT-AA---ACA--CT
8542596 AAACCATAAACACT
1 AAACCATAAACACT
*
8542610 AAACTC-TTAACACT
1 AAAC-CATAAACACT
* *
8542624 AAATCATAAACCCT
1 AAACCATAAACACT
* * * *
8542638 AAATCTTAAACCCC
1 AAACCATAAACACT
8542652 AAACCATAAAC-CT
1 AAACCATAAACACT
* * *
8542665 ACACCCTAAACCCT
1 AAACCATAAACACT
8542679 AAA
1 AAA
8542682 TATATATTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
13 11 0.13
14 54 0.64
15 3 0.04
16 3 0.04
18 3 0.04
19 2 0.02
20 9 0.11
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCATAAACACT
Found at i:8542736 original size:7 final size:7
Alignment explanation
Indices: 8542726--8542772 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
8542716 ATCTTAAATA
8542726 CTAAACC
1 CTAAACC
8542733 CTAAA-C
1 CTAAACC
8542739 CTAAACC
1 CTAAACC
* *
8542746 CCAAACT
1 CTAAACC
*
8542753 CTAAGCC
1 CTAAACC
*
8542760 ATAAACC
1 CTAAACC
8542767 CTAAAC
1 CTAAAC
8542773 TCAAAACTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:8542756 original size:14 final size:14
Alignment explanation
Indices: 8542726--8542784 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
8542716 ATCTTAAATA
8542726 CTAAACCCTAAAC-
1 CTAAACCCTAAACT
*
8542739 CTAAACCCCAAACT
1 CTAAACCCTAAACT
* * *
8542753 CTAAGCCATAAACC
1 CTAAACCCTAAACT
* *
8542767 CTAAACTCAAAACT
1 CTAAACCCTAAACT
8542781 CTAA
1 CTAA
8542785 TCCAAAAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
13 12 0.34
14 23 0.66
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.17
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:8543015 original size:40 final size:40
Alignment explanation
Indices: 8542960--8543038 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
8542950 CAACTTTTTT
* *
8542960 GCGGAGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATA
1 GCGGAGTTTCTCAAAAAGCGCCACTAATGCTCGATCTATA
* * * *
8543000 GCGGCGTTTCTCAAAATGCGCCGCTAATTCTCGATCTAT
1 GCGGAGTTTCTCAAAAAGCGCCACTAATGCTCGATCTAT
8543039 TGCGACATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (40 bp):
GCGGAGTTTCTCAAAAAGCGCCACTAATGCTCGATCTATA
Found at i:8543175 original size:152 final size:152
Alignment explanation
Indices: 8542886--8543373 Score: 584
Period size: 152 Copynumber: 3.2 Consensus size: 152
8542876 TGATTTTTTA
* * * *
8542886 CGGCATTTGTTAAAAAGCGCCGCTAATGCCAATAAAACTCAGCAAAAAACGACGTCATTTTGCCC
1 CGGCATTTGTTAAAAAGCGCCGCTAATGCCACTAAAGCT-A--AAAAAACGACGTCGTTTTGCTC
* * * *
8542951 AACTTTTTTGCGGAGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAGCGGCGTTTCTCAAAA
63 AACTTTTTTGCGGCGTTTTCCAAAAAGCACCACTAATGCTTGATCTATAGCGGTGTTTCTCAAAA
*
8543016 TGCGCCGCTAATTCTCGATCTATTG
128 AGCGCCGCTAATTCTCGATCTATTG
* * * * * *
8543041 CGACATTTGTTAAAAAGCGCTGTTAATGCCACTAAAGCTAAAAAAACGAAGTCGTTTAGCTCAAT
1 CGGCATTTGTTAAAAAGCGCCGCTAATGCCACTAAAGCTAAAAAAACGACGTCGTTTTGCTCAAC
* * * *
8543106 TTTTTTACGTCGTGTTCCAAAAAGCACCACTAATGCTTGATCTATAGCGGTGTTTCTCAAAAAGT
66 TTTTTTGCGGCGTTTTCCAAAAAGCACCACTAATGCTTGATCTATAGCGGTGTTTCTCAAAAAGC
*
8543171 GCCGCTAATTCTCGATTTATTG
131 GCCGCTAATTCTCGATCTATTG
** * * ** * * * *
8543193 CGGTGTTTGTTAAAATGTGCCGCTAATGAAACTAAAGGTAAAAAAAAGACTTTGTTTTGCTCAAC
1 CGGCATTTGTTAAAAAGCGCCGCTAATGCCACTAAAGCTAAAAAAACGACGTCGTTTTGCTCAAC
* *
8543258 TTTTTTGCGGCGTTTTCCAAAAAGCACCGCTAATGCTTGATCTATAGTC-GTGTTAT-TCAGAAA
66 TTTTTTGCGGCGTTTTCCAAAAAGCACCACTAATGCTTGATCTATAG-CGGTGTT-TCTCAAAAA
* * *
8543321 GCACCGCTAATGCTCGAACTATTG
129 GCGCCGCTAATTCTCGATCTATTG
* *
8543345 CGGCATTTGTGAAAAAGTGCCGCTAATGC
1 CGGCATTTGTTAAAAAGCGCCGCTAATGC
8543374 TCGATCTATT
Statistics
Matches: 280, Mismatches: 51, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
152 243 0.87
153 2 0.01
154 1 0.00
155 34 0.12
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (152 bp):
CGGCATTTGTTAAAAAGCGCCGCTAATGCCACTAAAGCTAAAAAAACGACGTCGTTTTGCTCAAC
TTTTTTGCGGCGTTTTCCAAAAAGCACCACTAATGCTTGATCTATAGCGGTGTTTCTCAAAAAGC
GCCGCTAATTCTCGATCTATTG
Found at i:8543179 original size:40 final size:40
Alignment explanation
Indices: 8543135--8543220 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
8543125 AAAAGCACCA
*
8543135 CTAATGCTTGATCTATAGCGGTGTTTCTCAAAAAGTGCCG
1 CTAATGCTCGATCTATAGCGGTGTTTCTCAAAAAGTGCCG
* * * * * *
8543175 CTAATTCTCGATTTATTGCGGTGTTTGTTAAAATGTGCCG
1 CTAATGCTCGATCTATAGCGGTGTTTCTCAAAAAGTGCCG
8543215 CTAATG
1 CTAATG
8543221 AAACTAAAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (40 bp):
CTAATGCTCGATCTATAGCGGTGTTTCTCAAAAAGTGCCG
Found at i:8543368 original size:40 final size:40
Alignment explanation
Indices: 8543318--8543413 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
8543308 TGTTATTCAG
*
8543318 AAAGCACCGCTAATGCTCGAACTATTGCGGCATTTGTGAA
1 AAAGCGCCGCTAATGCTCGAACTATTGCGGCATTTGTGAA
* * *
8543358 AAAGTGCCGCTAATGCTCGATCTATTGCGGCGTTTGTGAA
1 AAAGCGCCGCTAATGCTCGAACTATTGCGGCATTTGTGAA
*
8543398 AAAGCGCCGCTGATGC
1 AAAGCGCCGCTAATGC
8543414 CAATAAAGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGAACTATTGCGGCATTTGTGAA
Found at i:8543386 original size:192 final size:194
Alignment explanation
Indices: 8543126--8543583 Score: 514
Period size: 192 Copynumber: 2.4 Consensus size: 194
8543116 CGTGTTCCAA
* * * * *
8543126 AAAGCACCACTAATGCTTGATCTATAGCGGTGTTTCTCAAAAAGTGCCGCTAATTCTCGATTTAT
1 AAAGCACCGCTAATGC-TGAACTATTGCGGTGTTTGTCAAAAAGTGCCGCTAATGCTCGATTTAT
* * * * * **
8543191 TGCGGTGTTTGTTAAAATGTGCCGCTAATG-AAACTAAAGGT-A-AAAAAAAGACTTTGTTTTGC
65 TGCGGCGTTTGTGAAAAAGCGCCGCTAATGCAAA-TAAAGCTCACAAAAAAAGAAGTTGTTTTGC
* *
8543253 TCAAC-TTTTTTGCGGCGTTTTCCAAAAAGCACCGCTAATGCTTGATCTATAGTC-GTGTTAT-T
129 TCAACTTTTTTTGCGGCATTTTCCAAAAAGCACCGCTAATGCTTGATCGATAG-CGGTGTT-TCT
8543315 CAG
192 CAG
** * *
8543318 AAAGCACCGCTAATGCTCGAACTATTGCGGCATTTGTGAAAAAGTGCCGCTAATGCTCGATCTAT
1 AAAGCACCGCTAATGCT-GAACTATTGCGGTGTTTGTCAAAAAGTGCCGCTAATGCTCGATTTAT
* * * *
8543383 TGCGGCGTTTGTGAAAAAGCGCCGCTGATGCCAATAAAGCTCACCAATAAACGAAGTTGTTTTGC
65 TGCGGCGTTTGTGAAAAAGCGCCGCTAATGCAAATAAAGCTCA-CAAAAAAAGAAGTTGTTTTGC
* * * *
8543448 TCAACTTTTTTTGCGGCATTTTTCGAGAAGCACCGGTAATGCTTGATCGATAGCGGTGTTTCTCA
129 TCAACTTTTTTTGCGGCATTTTCCAAAAAGCACCGCTAATGCTTGATCGATAGCGGTGTTTCTCA
8543513 G
194 G
* * * * * * * *
8543514 ATAGCACTGCTATTGCTTACCTATTGCGGTGTTTGTTAAAAAGCGCCGCTAATGCCCGATTTATT
1 AAAGCACCGCTAATGCTGAACTATTGCGGTGTTTGTCAAAAAGTGCCGCTAATGCTCGATTTATT
8543579 GCGGC
66 GCGGC
8543584 ATTTTTTATT
Statistics
Matches: 221, Mismatches: 37, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
191 1 0.00
192 85 0.38
193 3 0.01
195 68 0.31
196 64 0.29
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (194 bp):
AAAGCACCGCTAATGCTGAACTATTGCGGTGTTTGTCAAAAAGTGCCGCTAATGCTCGATTTATT
GCGGCGTTTGTGAAAAAGCGCCGCTAATGCAAATAAAGCTCACAAAAAAAGAAGTTGTTTTGCTC
AACTTTTTTTGCGGCATTTTCCAAAAAGCACCGCTAATGCTTGATCGATAGCGGTGTTTCTCAG
Found at i:8547925 original size:126 final size:125
Alignment explanation
Indices: 8547673--8548239 Score: 699
Period size: 126 Copynumber: 4.5 Consensus size: 125
8547663 GATAAAATCA
* * * * * * * **
8547673 AAGCAGGATGATTTATGAGAAGGATTTTTGAAGTCACGCCCACGTGTACAAGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
* * *
8547738 AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
8547798 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCTCTCATGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
* * * *
8547863 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
8547924 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAG-TTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGC-GCTTTTGCTACAG
* * * * *
8547988 TAGGTCTTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * * * *
8548050 AAGCAGCATG-TTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGATGCGCTTTTGTTACAG
1 AAGCAGGATGCTT-TATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAG
* * * **
8548114 TTGGTCCTGGAAAAATAATATCGACTTGACGTTTCTGAGAAAATAGTAT-AAAATTGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
8548174 TAGCACGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
8548239 A
66 A
8548240 ACATGTTTGG
Statistics
Matches: 376, Mismatches: 60, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
124 58 0.15
125 108 0.29
126 209 0.56
127 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:8548132 original size:251 final size:251
Alignment explanation
Indices: 8547673--8548239 Score: 802
Period size: 251 Copynumber: 2.3 Consensus size: 251
8547663 GATAAAATCA
* * * * * *
8547673 AAGCAGGATGATTTATGAGAAGGATTTTTGAAGTCACGCCCACGTGTAC-AAGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAGCTTTTGCTACAG
* * *
8547737 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTCAAGC
66 TAGGTCCTGAAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGC
* *
8547802 AGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCTCTCATGGACGCGCTTTTACTACAGTTGGT
131 AGCATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTACTACAGTTGGT
* * * * *
8547867 CCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
196 CCTGGAAGAAATAATATCGACTTGACGTTTCTGAGAAAATAGTAT-AAAAACGCTTC
*
8547924 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAG-TTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAGCTTTTGCTACAG
* * *
8547988 TAGGTCTTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAG
66 TAGGTCCTGAAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACACTGCAAG
* * **
8548053 CAGCATG-TTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGATGCGCTTTTGTTACAGTTG
130 CAGCATGCTT-TGTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTACTACAGTTG
**
8548117 GTCCTGGAA-AAATAATATCGACTTGACGTTTCTGAGAAAATAGTATAAAATTGCTTC
194 GTCCTGGAAGAAATAATATCGACTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC
* * * *
8548174 TAGCACGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACGC-GCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAGCTTTTGCTACAG
8548238 TA
66 TA
8548240 ACATGTTTGG
Statistics
Matches: 281, Mismatches: 31, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
249 1 0.00
250 68 0.24
251 137 0.49
252 75 0.27
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (251 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCAGCTTTTGCTACAG
TAGGTCCTGAAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGC
AGCATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTACTACAGTTGGT
CCTGGAAGAAATAATATCGACTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC
Found at i:8551455 original size:22 final size:22
Alignment explanation
Indices: 8551404--8552736 Score: 799
Period size: 21 Copynumber: 62.0 Consensus size: 22
8551394 TCAAATTATA
8551404 TTTAAGTTAAGGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
8551424 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * **
8551446 TTAAAGTTAAGAGTCTAAAG--
1 TTTAAGTTAAGGGTTTAGGGTT
**
8551466 TTT---TT-AGGGTTTTTGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8551484 TTTAGGTTAAGGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* **
8551504 TTTAAGGTTAATGGTTTAAAGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
*
8551527 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
8551548 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8551570 TTAAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8551592 TTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8551613 TTTAGGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8551634 TTTAAAGTTTGAGGTTTTAAGG-T
1 TTT-AAG-TTAAGGGTTTAGGGTT
* * *
8551657 TTTAAGGTTTAGGTTTTAAGG-T
1 TTTAA-GTTAAGGGTTTAGGGTT
* * **
8551679 TTTAAGGTTTTAGAGTTTTAAAG-T
1 TTTAA-G-TTAAG-GGTTTAGGGTT
* * ** * *
8551703 TTTAGGGTTTAAGGTTTAAGGTT
1 TTTAAGTTAA-GGGTTTAGGGTT
* *
8551726 TTAAAGTTTAGGGTTTAGGG--
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
8551746 TTTAGGGTTTAA-AGTTTAATGTT
1 TTTA-AG-TTAAGGGTTTAGGGTT
* *
8551769 TTTAATTTAAGGG-TTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
* ***
8551790 TTTAGGTTAAGGGTTTATCATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8551812 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
8551833 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
8551855 TTTAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8551876 TTTAGGTTAAGGG-TTAGGG-C
1 TTTAAGTTAAGGGTTTAGGGTT
8551896 TTTAAGGTTAAGGGTTT-GGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
* *
8551918 TTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8551940 TTAAATTTAAAGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8551961 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8551983 TTTATGTTAAAGG-TTA--GTG
1 TTTAAGTTAAGGGTTTAGGGTT
*
8552002 TTT---TT-AGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8552020 TTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8552041 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8552063 TTTAAATTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552085 TTAAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552106 TTTAGGGGTTAAGGTTTTA-GG--
1 TTTA--AGTTAAGGGTTTAGGGTT
*
8552127 -TTAAGGGTT-AGTGTTT----TT
1 TTTAA--GTTAAGGGTTTAGGGTT
8552145 AATTTAAGGGTT-AGGG-TT------
1 --TTTAA--GTTAAGGGTTTAGGGTT
*
8552163 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
8552185 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552207 TTAAAGTTAA-CGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8552228 TTTAGGTTAA-AG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8552248 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552269 TTTAATTTAAGGGTTTAAGGTTT
1 TTTAAGTTAAGGGTTT-AGGGTT
* *
8552292 TTTAAGTTAAGGGCTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552314 TTAAAGTT-ATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552335 TTCAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552356 TTT-AGATTAAGGTTTTAGGATTT
1 TTTAAG-TTAAGGGTTTAGG-GTT
* * *
8552379 TTTATGTTAAGAGTTTAAGGTTT
1 TTTAAGTTAAGGGTTT-AGGGTT
8552402 AGGGTTTAAAGTTAA-GGTTTAGGG-T
1 ----TTT-AAGTTAAGGGTTTAGGGTT
*
8552427 TTTATGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
8552448 TTTAAGTTAAGGGTTTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8552470 TTTAA-TAGAAAGG-TTATGGTT
1 TTTAAGT-TAAGGGTTTAGGGTT
* *
8552491 TTTAA-TCTAAGGGTTTAAGGAT
1 TTTAAGT-TAAGGGTTTAGGGTT
* *
8552513 TTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552535 TTAAAGTTATGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
8552556 TTTAATTTAAGGGTTTATGATTT
1 TTTAAGTTAAGGGTTTA-GGGTT
*
8552579 TTTAGGTTTAA-GGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
* **
8552601 TTAAAGTTAAAAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552622 TTTAAGTTTAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
8552644 TTAAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
8552665 TTTAGGTTAAGGGGTTAGTAG-T
1 TTTAAGTTAAGGGTTTAG-GGTT
8552687 TTTAAGTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
* *
8552714 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
8552736 T
1 T
8552737 GTCAATTAAA
Statistics
Matches: 1027, Mismatches: 193, Indels: 184
0.73 0.14 0.13
Matches are distributed among these distances:
14 2 0.00
15 7 0.01
16 18 0.02
17 2 0.00
18 8 0.01
19 10 0.01
20 65 0.06
21 381 0.37
22 378 0.37
23 91 0.09
24 29 0.03
25 1 0.00
26 5 0.00
27 24 0.02
28 6 0.01
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:8551528 original size:43 final size:41
Alignment explanation
Indices: 8551480--8552707 Score: 707
Period size: 43 Copynumber: 28.6 Consensus size: 41
8551470 TAGGGTTTTT
*
8551480 GGTTTTTAGGTTAAGGGTTAGGGTTTTAAGGTTAATGGTTTAA
1 GGTTTTTAGGTTAAGGGTTAGGGTTTTAA-GTTAA-GGTTTAG
* **
8551523 AGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTTAG
* *
8551566 GGTTTTAAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGTTTAG
1 GGTTTTTAGGTTAAGGGT-TAGGGTTTT-AAGTTAAGGTTTAG
* * *
8551609 GGTTTTTAGGTTAATGGTTAGGGTTTTTAAAGTTTGAGGTTTTAA
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTT-AAG-TTAAGG-TTTAG
* * * * * *
8551654 GGTTTTAAGGTTTAGGTTTTAAGGTTTTAAGGTTTTAGAGTTTTAA
1 GGTTTTTAGGTTAAGG-GTTAGGGTTTTAA-G--TTA-AGGTTTAG
* * * *
8551700 AG-TTTTAGGGTTTAAGGTTTAAGGTTTTAAAGTTTAGGGTTTAG
1 GGTTTTTA-GG-TTAAGGGTTAGGGTTTT-AAG-TTAAGGTTTAG
* * * * * *
8551744 GG--TTTAGGGTTTAAAGTTTAATGTTTTTAATTTAAGGGTTAG
1 GGTTTTTA-GG-TTAAGGGTT-AGGGTTTTAAGTTAAGGTTTAG
* *** * *
8551786 GGGTTTTAGGTTAAGGGTTTATCATTTTTAATTTAAGGGTTAG
1 GGTTTTTAGGTTAAGGG-TTA-GGGTTTTAAGTTAAGGTTTAG
*
8551829 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAGGTTAAGGG-TTAGGG-TTTTAAGTTAAGGTTTAG
*
8551872 GGTTTTTAGGTTAAGGGTTAGGGCTTTAAGGTTAAGGGTTT-G
1 GGTTTTTAGGTTAAGGGTTAGGGTTTTAA-GTTAA-GGTTTAG
* *
8551914 GGTTTTTAGGTTAAGGGTTTAGTGTTTTAAATTTAAAGG-TTAG
1 GGTTTTTAGGTTAAGGG-TTAGGGTTTT-AAGTT-AAGGTTTAG
* * *
8551957 GGTTTTTAAGTTAAGGGTTTAAGGTTTTTATGTTAAAGG-TTAG
1 GGTTTTTAGGTTAAGGG-TT-AGGGTTTTAAGTT-AAGGTTTAG
* * * *
8552000 TGTTTTTA-G----GGTTTAGAGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAGGTTAAGGGTTAG-GGTTTTAAGTTAAGGTTTAG
* * *
8552037 TGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAATTAAAGGTCTAG
1 GGTTTTTAGGTTAAGGG-TTAGGG-TTTTAAGTT-AAGGTTTAG
* * * * * *
8552081 GGTTTTAAAGTTAAGGGTTAAGG-TTT---TTAGGGGTTAA
1 GGTTTTTAGGTTAAGGGTTAGGGTTTTAAGTTAAGGTTTAG
* * *
8552118 GG-TTTTAGGTTAAGGGTTAGTGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAGGTTAAGGGTTAG-GGTTTTAAGTTAAGGTTTAG
**
8552159 GGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAGGTTAAGGG-TTAGGG-TTTTAAGTTAA-GGTTTAG
* * * * * *
8552203 GGTTTTAAAGTTAACGTTTAGGGTTTTTAGGTTAAAG-TTAG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAGTTAAGGTTTAG
* *
8552244 AGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAAG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTT-AG
* * * *
8552288 GTTTTTTAAGTTAAGGGCTTAGTGTTTTAAAGTTATGGTTTAG
1 GGTTTTTAGGTTAAGGG-TTAGGGTTTT-AAGTTAAGGTTTAG
* *
8552331 GGTTTTCAGGTTAAGGGTTAGGGTTTTTAGATTAAGGTTTTAG
1 GGTTTTTAGGTTAAGGGTTAGGGTTTTAAG-TTAAGG-TTTAG
* * *
8552374 GATTTTTTATGTTAAGAGTTTAAGGTTTAGGGTTTAAAGTTAAGGTTTAG
1 G----GTT-T-TT-AG-G-TTAAGGGTTAGGGTTTTAAGTTAAGGTTTAG
* *
8552424 GG-TTTTATGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTGG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTTAG
* * * * *
8552466 GGTTTTTA-ATAGAAAGGTTATGGTTTTTAA-TCTAAGGGTTTAA
1 GGTTTTTAGGT-TAAGGGTTA-GGGTTTTAAGT-TAA-GGTTTAG
* * * *
8552509 GGATTTTAGGTTAAAGGTTTAGGGTTTTAAAGTTATGGGTTAG
1 GGTTTTTAGGTT-AAGGGTTAGGGTTTT-AAGTTAAGGTTTAG
** ** *
8552552 GGTTTTTAATTTAAGGGTTTATGATTTTTTAGGTTTAAGGTTTAG
1 GGTTTTTAGGTTAAGGG-TTA-G-GGTTTTAAG-TTAAGGTTTAG
* * ** *
8552597 GGTTTTAAAGTTAAAAGTTAGGGTTTTTAAGTTTAGGGTTTAG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAG-TTAAGGTTTAG
* * * * * *
8552640 TGTTTTAAAGTTAAGAGTTAGGGTTTTTAGGTTAAGGGGTTAG
1 GGTTTTTAGGTTAAGGGTTAGGG-TTTTAAGTTAA-GGTTTAG
* *
8552683 TAG-TTTTAAGTTAAGGGTTAGGGTT
1 -GGTTTTTAGGTTAAGGGTTAGGGTT
8552708 AGGGTTTTTA
Statistics
Matches: 950, Mismatches: 157, Indels: 157
0.75 0.12 0.12
Matches are distributed among these distances:
36 21 0.02
37 32 0.03
38 8 0.01
40 12 0.01
41 64 0.07
42 106 0.11
43 429 0.45
44 137 0.14
45 68 0.07
46 28 0.03
47 11 0.01
48 1 0.00
49 1 0.00
50 8 0.01
51 7 0.01
52 17 0.02
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (41 bp):
GGTTTTTAGGTTAAGGGTTAGGGTTTTAAGTTAAGGTTTAG
Found at i:8551658 original size:8 final size:8
Alignment explanation
Indices: 8551645--8551734 Score: 109
Period size: 8 Copynumber: 11.8 Consensus size: 8
8551635 TTAAAGTTTG
8551645 AGGTTTTA
1 AGGTTTTA
8551653 AGGTTTTA
1 AGGTTTTA
8551661 AGG-TTT-
1 AGGTTTTA
8551667 AGGTTTTA
1 AGGTTTTA
8551675 AGGTTTTA
1 AGGTTTTA
8551683 AGGTTTT-
1 AGGTTTTA
8551690 AGAGTTTTA
1 AG-GTTTTA
*
8551699 AAGTTTT-
1 AGGTTTTA
*
8551706 AGGGTTTA
1 AGGTTTTA
8551714 AGG-TTTA
1 AGGTTTTA
8551721 AGGTTTTA
1 AGGTTTTA
*
8551729 AAGTTT
1 AGGTTT
8551735 AGGGTTTAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
6 3 0.04
7 20 0.28
8 48 0.67
9 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (8 bp):
AGGTTTTA
Found at i:8551667 original size:7 final size:7
Alignment explanation
Indices: 8551634--8551769 Score: 94
Period size: 7 Copynumber: 18.4 Consensus size: 7
8551624 GGTTAGGGTT
*
8551634 TTTAAAG
1 TTTAAGG
*
8551641 TTTGAGG
1 TTTAAGG
8551648 TTTTAAGG
1 -TTTAAGG
8551656 TTTTAAGG
1 -TTTAAGG
8551664 TTT-AGG
1 TTTAAGG
8551670 TTTTAAGG
1 -TTTAAGG
8551678 TTTTAAGG
1 -TTTAAGG
*
8551686 TTTTAGAGT
1 -TTTA-AGG
*
8551695 TTTAAAGT
1 TTT-AAGG
*
8551703 TTTAGGG
1 TTTAAGG
8551710 TTTAAGG
1 TTTAAGG
8551717 TTTAAGG
1 TTTAAGG
*
8551724 TTTTAAAG
1 -TTTAAGG
*
8551732 TTTAGGG
1 TTTAAGG
*
8551739 TTTAGGG
1 TTTAAGG
*
8551746 TTTAGGG
1 TTTAAGG
*
8551753 TTTAAAG
1 TTTAAGG
*
8551760 TTTAATG
1 TTTAAGG
8551767 TTT
1 TTT
8551770 TTAATTTAAG
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
6 3 0.03
7 59 0.54
8 45 0.41
9 3 0.03
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:8552734 original size:14 final size:14
Alignment explanation
Indices: 8552687--8552735 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8552677 GGTTAGTAGT
8552687 TTTAA-GTTAAGGG
1 TTTAAGGTTAAGGG
*
8552700 -TTAGGGTT-AGGG
1 TTTAAGGTTAAGGG
*
8552712 TTTTTAGGTTAAGGG
1 -TTTAAGGTTAAGGG
8552727 TTTAAGGTT
1 TTTAAGGTT
8552736 TGTCAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 14 0.50
15 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:8553308 original size:18 final size:18
Alignment explanation
Indices: 8553282--8553323 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8553272 GACTCGAAAA
*
8553282 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGTT
*
8553300 AGGATACATAAAAGGGTT
1 AGGAAACATAAAAGGGTT
8553318 AGGAAA
1 AGGAAA
8553324 TGCACCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGAAACATAAAAGGGTT
Found at i:8554135 original size:20 final size:20
Alignment explanation
Indices: 8554110--8554147 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8554100 TTTATTTTTA
8554110 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
8554130 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
8554148 TATCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:8555213 original size:51 final size:51
Alignment explanation
Indices: 8555158--8555255 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
8555148 AATTATTTAA
8555158 AAATAAGGATTT-ATGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAAGGATTTGA-GAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * *
8555209 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAAGGATTTGAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
8555256 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.95
52 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAAGGATTTGAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:8555231 original size:11 final size:11
Alignment explanation
Indices: 8555217--8555293 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
8555207 ATAAATATGG
8555217 ATTTGAGAGAA
1 ATTTGAGAGAA
*
8555228 ATTTTGA-AGGA
1 A-TTTGAGAGAA
8555239 ATTTGAGAGCAA
1 ATTTGAGAG-AA
8555251 A-TTGAGAGGAA
1 ATTTGAGA-GAA
8555262 ATTT-AGAAGAA
1 ATTTGAG-AGAA
*
8555273 A-TTGAGAGGGA
1 ATTTGAGA-GAA
8555284 ATTTGAGAGA
1 ATTTGAGAGA
8555294 GGATTAGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
10 8 0.15
11 28 0.53
12 17 0.32
ACGTcount: A:0.43, C:0.01, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:8555242 original size:22 final size:22
Alignment explanation
Indices: 8555217--8555293 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
8555207 ATAAATATGG
8555217 ATTTGAGAGAAATTTTGAAGGA
1 ATTTGAGAGAAATTTTGAAGGA
8555239 ATTTGAGAGCAAA--TTGAGAGGAA
1 ATTTGAGAG-AAATTTTGA-AGG-A
** *
8555262 ATTT-AGAAGAAATTGAGAGGGA
1 ATTTGAG-AGAAATTTTGAAGGA
8555284 ATTTGAGAGA
1 ATTTGAGAGA
8555294 GGATTAGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
21 4 0.09
22 25 0.56
23 14 0.31
24 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.30, T:0.26
Consensus pattern (22 bp):
ATTTGAGAGAAATTTTGAAGGA
Found at i:8563735 original size:7 final size:7
Alignment explanation
Indices: 8563723--8563751 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8563713 TCAAATCTGT
8563723 TTCATCC
1 TTCATCC
8563730 TTCATCC
1 TTCATCC
8563737 TTCATCC
1 TTCATCC
8563744 TTCATCC
1 TTCATCC
8563751 T
1 T
8563752 CTCCTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (7 bp):
TTCATCC
Found at i:8574525 original size:22 final size:22
Alignment explanation
Indices: 8574500--8574561 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
8574490 AAAGCTGTAT
8574500 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
* * *
8574522 ACAATTAAAAGT-T--G--TAT
1 ACAATTAGAACTCTAAGATTAC
8574539 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
8574561 A
1 A
8574562 TAATCATATC
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
17 12 0.41
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 13 0.45
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.29
Consensus pattern (22 bp):
ACAATTAGAACTCTAAGATTAC
Found at i:8574526 original size:39 final size:39
Alignment explanation
Indices: 8574483--8574561 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
8574473 ATCAATGGCT
8574483 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
*
8574522 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
8574561 A
1 A
8574562 TAATCATATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Done.