Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 21
Found at i:2278874 original size:1 final size:1
Alignment explanation
Indices: 2278860--2278929 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
2278850 CAATTTCTTC
* * * * * * * * *
2278860 TTTTTTCTTCTTTTTTTTTCTTTTTTTCTTTTTTTCTTTCTTTTTTCTTTTTTTGTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2278925 TTTTT
1 TTTTT
2278930 CAAGTATAAT
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (1 bp):
T
Found at i:2278883 original size:8 final size:8
Alignment explanation
Indices: 2278872--2278930 Score: 66
Period size: 8 Copynumber: 7.0 Consensus size: 8
2278862 TTTTCTTCTT
2278872 TTTTTTTC
1 TTTTTTTC
2278880 TTTTTTTC
1 TTTTTTTC
2278888 TTTTTTTC
1 TTTTTTTC
2278896 TTTCTTTTTTC
1 --T-TTTTTTC
*
2278907 TTTTTTTG
1 TTTTTTTC
2278915 TTGTTTTT-
1 TT-TTTTTC
2278923 TTTTTTTC
1 TTTTTTTC
2278931 AAGTATAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
7 5 0.11
8 26 0.58
9 6 0.13
10 1 0.02
11 7 0.16
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2278892 original size:19 final size:20
Alignment explanation
Indices: 2278853--2278929 Score: 90
Period size: 19 Copynumber: 4.0 Consensus size: 20
2278843 CTTGATTCAA
2278853 TTTCTTCTTTTTTCTTCTTTT
1 TTTCTTCTTTTTT-TTCTTTT
2278874 TTT-TTC-TTTTTTTCTTTT
1 TTTCTTCTTTTTTTTCTTTT
*
2278892 TTTCTT-TCTTTTTTCTTTT
1 TTTCTTCTTTTTTTTCTTTT
* *
2278911 TTTGTTGTTTTTTTT-TTTT
1 TTTCTTCTTTTTTTTCTTTT
2278930 CAAGTATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.20
19 27 0.54
20 10 0.20
21 3 0.06
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.86
Consensus pattern (20 bp):
TTTCTTCTTTTTTTTCTTTT
Found at i:2283297 original size:14 final size:15
Alignment explanation
Indices: 2283278--2283313 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2283268 ATACTTGAAT
2283278 AAAATAAATAA-ATA
1 AAAATAAATAACATA
2283292 AAAAT-AATAACATA
1 AAAATAAATAACATA
2283306 AAAA-AAAT
1 AAAATAAAT
2283314 TGAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAATAACATA
Found at i:2283300 original size:17 final size:17
Alignment explanation
Indices: 2283280--2283313 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2283270 ACTTGAATAA
2283280 AATAA-ATAAATAAAAAT
1 AATAACATAAA-AAAAAT
2283297 AATAACATAAAAAAAAT
1 AATAACATAAAAAAAAT
2283314 TGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAACATAAAAAAAAT
Found at i:2284059 original size:115 final size:115
Alignment explanation
Indices: 2283827--2284035 Score: 332
Period size: 115 Copynumber: 1.8 Consensus size: 115
2283817 TATACATAAA
* * * *
2283827 TAAGATATTTACTTATTTAGAAATATCAGAAAAGTACTTCTAGGTGCTTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGTACTTCTAGGTACCTTAAGACAGCTCTTTTC
* *
2283892 TTTGATGTTTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTCGATGATTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
*
2283942 TAAGATATTTATTTATTCAAAAATATCAGAAAAG-AGCTTCTAGGTACCTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGTA-CTTCTAGGTACCTTAAGACAGCTCTTTT
2284006 CTTCGAT-ATTAAAAATAAATAAATATCAAA
65 CTTCGATGATTAAAAATAAATAAATATCAAA
2284036 TATGATTATT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 23 0.27
115 63 0.73
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (115 bp):
TAAGATATTTACTTATTCAAAAATATCAGAAAAGTACTTCTAGGTACCTTAAGACAGCTCTTTTC
TTCGATGATTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
Found at i:2285533 original size:3 final size:3
Alignment explanation
Indices: 2285527--2285597 Score: 76
Period size: 3 Copynumber: 23.7 Consensus size: 3
2285517 ATTATTTTTT
* *
2285527 TAA TAA TAA TAA T-A TATA TAA TAA TATA TAA T-A TAA TAA TTA TTA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
2285572 TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA
2285598 TTCAAATGAT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
2 6 0.10
3 46 0.77
4 8 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2286588 original size:11 final size:11
Alignment explanation
Indices: 2286574--2286676 Score: 52
Period size: 11 Copynumber: 8.7 Consensus size: 11
2286564 AAAAATTCAA
2286574 AAGCTCGATTG
1 AAGCTCGATTG
*
2286585 AAGCTCGAGACTCG
1 AAGCTC--GA-TTG
2286599 -AGCTCGATTG
1 AAGCTCGATTG
*
2286609 AAGCTCGAGACTCG
1 AAGCTC--GA-TTG
2286623 -AGCTCGATTG
1 AAGCTCGATTG
2286633 AAGCTCGATACTCG
1 AAGCTCGAT--T-G
2286647 -AGCTCGATTTTG
1 AAGCTCGA--TTG
*
2286659 -AGCTCGATTC
1 AAGCTCGATTG
2286669 AAGCTCGA
1 AAGCTCGA
2286677 CGGGTTAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
10 6 0.08
11 30 0.41
12 8 0.11
13 23 0.32
14 5 0.07
15 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (11 bp):
AAGCTCGATTG
Found at i:2286603 original size:24 final size:24
Alignment explanation
Indices: 2286575--2286655 Score: 153
Period size: 24 Copynumber: 3.4 Consensus size: 24
2286565 AAAATTCAAA
2286575 AGCTCGATTGAAGCTCGAGACTCG
1 AGCTCGATTGAAGCTCGAGACTCG
2286599 AGCTCGATTGAAGCTCGAGACTCG
1 AGCTCGATTGAAGCTCGAGACTCG
*
2286623 AGCTCGATTGAAGCTCGATACTCG
1 AGCTCGATTGAAGCTCGAGACTCG
2286647 AGCTCGATT
1 AGCTCGATT
2286656 TTGAGCTCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (24 bp):
AGCTCGATTGAAGCTCGAGACTCG
Found at i:2286652 original size:13 final size:13
Alignment explanation
Indices: 2286586--2286654 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 13
2286576 GCTCGATTGA
*
2286586 AGCTCGAGACTCG
1 AGCTCGATACTCG
2286599 AGCTCGAT--T-G
1 AGCTCGATACTCG
*
2286609 AAGCTCGAGACTCG
1 -AGCTCGATACTCG
2286623 AGCTCGAT--T-G
1 AGCTCGATACTCG
2286633 AAGCTCGATACTCG
1 -AGCTCGATACTCG
2286647 AGCTCGAT
1 AGCTCGAT
2286655 TTTGAGCTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
10 2 0.04
11 17 0.38
13 24 0.53
14 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (13 bp):
AGCTCGATACTCG
Found at i:2287787 original size:17 final size:17
Alignment explanation
Indices: 2287765--2287797 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2287755 TTAGTGTTCC
2287765 TTCAATT-TGTGCTTGTT
1 TTCAATTGTGT-CTTGTT
2287782 TTCAATTGTGTCTTGT
1 TTCAATTGTGTCTTGT
2287798 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (17 bp):
TTCAATTGTGTCTTGTT
Found at i:2291805 original size:21 final size:21
Alignment explanation
Indices: 2291788--2291861 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
2291778 CTCTAAACTG
*
2291788 TAAATCTTAAATAATAAACCC
1 TAAACCTTAAATAATAAACCC
* *
2291809 TAAACCTTAAATTATAGACCC
1 TAAACCTTAAATAATAAACCC
* * *
2291830 TAAACCCTAAATCATAGACCC
1 TAAACCTTAAATAATAAACCC
* *
2291851 TGAACATTAAA
1 TAAACCTTAAA
2291862 CCACGAATCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAACCTTAAATAATAAACCC
Found at i:2292008 original size:61 final size:63
Alignment explanation
Indices: 2291934--2292058 Score: 236
Period size: 61 Copynumber: 2.0 Consensus size: 63
2291924 ATATTTTTAA
2291934 AATTTTATAATTATCAATAATGTATTTTTAATAATGTAA-TTT-AAAAATCTAAAATTATAAT
1 AATTTTATAATTATCAATAATGTATTTTTAATAATGTAATTTTAAAAAATCTAAAATTATAAT
2291995 AATTTTATAATTATCAATAATGTATTTTTAATAATGTAATTTTAAAAAATCTAAAATTATAAT
1 AATTTTATAATTATCAATAATGTATTTTTAATAATGTAATTTTAAAAAATCTAAAATTATAAT
2292058 A
1 A
2292059 TTAATATATT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 39 0.63
62 3 0.05
63 20 0.32
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (63 bp):
AATTTTATAATTATCAATAATGTATTTTTAATAATGTAATTTTAAAAAATCTAAAATTATAAT
Found at i:2292029 original size:14 final size:14
Alignment explanation
Indices: 2292010--2292039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2292000 TATAATTATC
*
2292010 AATAATGTATTTTT
1 AATAATGTAATTTT
2292024 AATAATGTAATTTT
1 AATAATGTAATTTT
2292038 AA
1 AA
2292040 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:2292035 original size:37 final size:37
Alignment explanation
Indices: 2291994--2292117 Score: 119
Period size: 37 Copynumber: 3.2 Consensus size: 37
2291984 AAAATTATAA
2291994 TAATTTTATAATTATCAATAATGTATTTTTAATAATG
1 TAATTTTATAATTATCAATAATGTATTTTTAATAATG
** * *
2292031 TAATTTTA-AAAAATCTAA-AAT-TATAATATTAATATATTTT
1 TAATTTTATAATTATC-AATAATGTAT--TTTTAATA-A--TG
2292071 TAAAATTTTATAATTATCAATAATGTATTTTTAATAATG
1 T--AATTTTATAATTATCAATAATGTATTTTTAATAATG
2292110 TAATTTTA
1 TAATTTTA
2292118 AAAAATCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
35 3 0.04
36 8 0.12
37 24 0.35
38 1 0.01
39 2 0.03
40 2 0.03
41 1 0.01
42 16 0.24
43 8 0.12
44 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (37 bp):
TAATTTTATAATTATCAATAATGTATTTTTAATAATG
Found at i:2292103 original size:31 final size:31
Alignment explanation
Indices: 2292024--2292104 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 31
2292014 ATGTATTTTT
*
2292024 AATAATGTAATTTTAAAAAATCTAAAATTATA
1 AATAATGT-ATTTTTAAAAATCTAAAATTATA
* * * * *
2292056 ATATTAATATATTTTTAAAATTTTATAATTATC
1 A-A-TAATGTATTTTTAAAAATCTAAAATTATA
2292089 AATAATGTATTTTTAA
1 AATAATGTATTTTTAA
2292105 TAATGTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
31 13 0.32
32 2 0.05
33 20 0.50
34 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
AATAATGTATTTTTAAAAATCTAAAATTATA
Found at i:2292108 original size:14 final size:14
Alignment explanation
Indices: 2292089--2292118 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2292079 TATAATTATC
*
2292089 AATAATGTATTTTT
1 AATAATGTAATTTT
2292103 AATAATGTAATTTT
1 AATAATGTAATTTT
2292117 AA
1 AA
2292119 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:2292230 original size:15 final size:15
Alignment explanation
Indices: 2292210--2292241 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2292200 AATATATTTC
2292210 TTAATGTGACTCCTT
1 TTAATGTGACTCCTT
*
2292225 TTAATGTGACTTCTT
1 TTAATGTGACTCCTT
2292240 TT
1 TT
2292242 CGAGTGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (15 bp):
TTAATGTGACTCCTT
Found at i:2292293 original size:10 final size:10
Alignment explanation
Indices: 2292278--2292315 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
2292268 CGATCAAGGC
2292278 TCAATAATTA
1 TCAATAATTA
2292288 TCAATAATTA
1 TCAATAATTA
2292298 TCAATAATTA
1 TCAATAATTA
2292308 TCAATAAT
1 TCAATAAT
2292316 ATATTTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
TCAATAATTA
Found at i:2293471 original size:25 final size:25
Alignment explanation
Indices: 2293437--2293484 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
2293427 TTTGCTGAAT
*
2293437 GTTGTCATCTTTATATGTATGTTTG
1 GTTGTCATCTTTATATGGATGTTTG
2293462 GTTGTCATCTTTATATGGATGTT
1 GTTGTCATCTTTATATGGATGTT
2293485 GATGGTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (25 bp):
GTTGTCATCTTTATATGGATGTTTG
Found at i:2296168 original size:13 final size:13
Alignment explanation
Indices: 2296152--2296209 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
2296142 ATAATAAAAT
*
2296152 ATTAATTATGATA
1 ATTAATTATAATA
*
2296165 ATTAAAT-TAATA
1 ATTAATTATAATA
*
2296177 AATATATT-TAATA
1 ATTA-ATTATAATA
2296190 TATTAATTATAATA
1 -ATTAATTATAATA
2296204 ATTAAT
1 ATTAAT
2296210 ATACTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 7 0.19
13 22 0.59
14 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATA
Found at i:2296195 original size:21 final size:21
Alignment explanation
Indices: 2296142--2296212 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
2296132 TTTAAATGTT
* *
2296142 ATAA-TAAAATATTAATTATG
1 ATAATTAATATATTAATTATA
2296162 ATAATT-A-A-ATTAA-TA-A
1 ATAATTAATATATTAATTATA
2296178 ATATATTTAATATATTAATTATA
1 ATA-A-TTAATATATTAATTATA
2296201 ATAATTAATATA
1 ATAATTAATATA
2296213 CTTTATAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
16 3 0.07
17 3 0.07
18 7 0.17
19 2 0.05
20 6 0.14
21 14 0.33
22 3 0.07
23 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (21 bp):
ATAATTAATATATTAATTATA
Found at i:2296197 original size:30 final size:30
Alignment explanation
Indices: 2296142--2296225 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
2296132 TTTAAATGTT
2296142 ATAATAAA-ATA-TTAAT-TATGATAATTA-A
1 ATAATAAATATATTTAATATAT--TAATTATA
2296170 ATTAATAAATATATTTAATATATTAATTATA
1 A-TAATAAATATATTTAATATATTAATTATA
*
2296201 ATAATTAATATACTTT-ATA-ATTAAT
1 ATAATAAATATA-TTTAATATATTAAT
2296226 ACTTATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
28 1 0.02
29 13 0.27
30 22 0.45
31 10 0.20
32 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
ATAATAAATATATTTAATATATTAATTATA
Found at i:2296251 original size:36 final size:36
Alignment explanation
Indices: 2296210--2296352 Score: 149
Period size: 36 Copynumber: 4.2 Consensus size: 36
2296200 AATAATTAAT
*
2296210 ATACTTTATAATTAATACTTATATTTATGTACTTTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
* *
2296246 ATACTTTATATTTAATACTTATA-TTATATAGTTTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
* * *
2296281 GTACTTTAT-ATT-ATA--TA-CTTTA-GTAC-TTA
1 ATACTTTATAATTAATACTTATATTTATATACTTTA
* *
2296310 TATACTTTATATTTAATACTTATATTAATATACTTTA
1 -ATACTTTATAATTAATACTTATATTTATATACTTTA
2296347 ATACTT
1 ATACTT
2296353 ATATTCAAAC
Statistics
Matches: 85, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
29 3 0.04
30 10 0.12
31 7 0.08
32 3 0.04
33 3 0.04
34 4 0.05
35 21 0.25
36 31 0.36
37 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (36 bp):
ATACTTTATAATTAATACTTATATTTATATACTTTA
Found at i:2296286 original size:43 final size:43
Alignment explanation
Indices: 2296208--2296400 Score: 161
Period size: 43 Copynumber: 4.5 Consensus size: 43
2296198 ATAATAATTA
* *
2296208 ATATACTTT-ATAATTAATACT-TATATTTATGTACTTTAATACTT
1 ATATACTTTAATACTT-ATATTATATATTTATGTACTTT-ATA-TT
2296252 -TATA-TTTAATACTTATATTATATAGTTTA-GTACTTTATATT
1 ATATACTTTAATACTTATATTATATA-TTTATGTACTTTATATT
* * *
2296293 ATATACTTTAGTACTTATATACTTTATATTTA-ATAC-TTATATT
1 ATATACTTTAATACTTATAT--TATATATTTATGTACTTTATATT
* *
2296336 AATATACTTTAATACTTATATTCAAACATTTTAT-TACTTTATATT
1 -ATATACTTTAATACTTATATT-ATATA-TTTATGTACTTTATATT
*
2296381 ATATA-TTTTATACTCTATAT
1 ATATACTTTAATACT-TATAT
2296401 ATAAAGTATC
Statistics
Matches: 126, Mismatches: 10, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 15 0.12
43 50 0.40
44 47 0.37
45 12 0.10
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (43 bp):
ATATACTTTAATACTTATATTATATATTTATGTACTTTATATT
Found at i:2296308 original size:65 final size:65
Alignment explanation
Indices: 2296204--2296400 Score: 201
Period size: 65 Copynumber: 3.0 Consensus size: 65
2296194 AATTATAATA
* * *
2296204 ATTAATATACTTT-ATAATTA-ATACTTATATTTATGTACTTTAATACTTTATATTTAATACTTA
1 ATTAATATACTTTAATACTTATATTCATATATTTA-GTACTTTAATACTTTATATTTAATACTTA
2296267 T
65 T
* *
2296268 ATT-ATATAGTTTAGTACTTTATATT-ATATACTTTAGTAC-TTATATACTTTATATTTAATACT
1 ATTAATATACTTTAATAC-TTATATTCATATA-TTTAGTACTTTA-ATACTTTATATTTAATACT
2296330 TAT
63 TAT
* * * *
2296333 ATTAATATACTTTAATACTTATATTCAAACATTTTATTACTTT-ATA-TTATATATTTTATACTC
1 ATTAATATACTTTAATACTTATATTCATATA-TTTAGTACTTTAATACTT-TATATTTAATACT-
2296396 TAT
63 TAT
2296399 AT
1 AT
2296401 ATAAAGTATC
Statistics
Matches: 111, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
63 8 0.07
64 10 0.09
65 58 0.52
66 33 0.30
67 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (65 bp):
ATTAATATACTTTAATACTTATATTCATATATTTAGTACTTTAATACTTTATATTTAATACTTAT
Found at i:2296342 original size:14 final size:14
Alignment explanation
Indices: 2296208--2296392 Score: 93
Period size: 14 Copynumber: 12.9 Consensus size: 14
2296198 ATAATAATTA
2296208 ATATACTTTATAATT
1 ATATACTTTAT-ATT
2296223 A-ATAC-TTATATTT
1 ATATACTTTATA-TT
*
2296236 ATGTACTTTAATACTT
1 ATATACTTT-ATA-TT
2296252 -TATA-TTTAATACTT
1 ATATACTTT-ATA-TT
*
2296266 ATAT--TATATAGTT
1 ATATACTTTATA-TT
2296279 -TAGTACTTTATATT
1 ATA-TACTTTATATT
2296293 ATATACTTTAGTACTT
1 ATATACTTTA-TA-TT
2296309 ATATACTTTATATT
1 ATATACTTTATATT
2296323 -TAATAC-TTATATT
1 AT-ATACTTTATATT
2296336 AATATACTTTAATACTT
1 -ATATACTTT-ATA-TT
* ** *
2296353 ATATTC-AAACATT
1 ATATACTTTATATT
*
2296366 TTATTACTTTATATT
1 ATA-TACTTTATATT
*
2296381 ATATATTTTATA
1 ATATACTTTATA
2296393 CTCTATATAT
Statistics
Matches: 134, Mismatches: 17, Indels: 39
0.71 0.09 0.21
Matches are distributed among these distances:
12 3 0.02
13 25 0.19
14 50 0.37
15 29 0.22
16 25 0.19
17 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (14 bp):
ATATACTTTATATT
Found at i:2296374 original size:44 final size:43
Alignment explanation
Indices: 2296239--2296400 Score: 152
Period size: 44 Copynumber: 3.7 Consensus size: 43
2296229 TATATTTATG
* *
2296239 TACTTTAATACTT-TATATTTAATACTTATATT-ATATAGTTTAG
1 TACTTT-ATA-TTATATATTTAATACTTATATTCATATATTTTAA
* * *
2296282 TACTTTATATTATATACTTTAGTACTTATATAC-TTTATATTTAA
1 TACTTTATATTATATA-TTTAATACTTATATTCATATAT-TTTAA
* * *
2296326 TAC-TTATATTAATATACTTTAATACTTATATTCAAACATTTTAT
1 TACTTTATATT-ATATA-TTTAATACTTATATTCATATATTTTAA
*
2296370 TACTTTATATTATATATTTTATACTCTATAT
1 TACTTTATATTATATATTTAATACT-TATAT
2296401 ATAAAGTATC
Statistics
Matches: 99, Mismatches: 12, Indels: 15
0.79 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 37 0.37
44 44 0.44
45 9 0.09
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (43 bp):
TACTTTATATTATATATTTAATACTTATATTCATATATTTTAA
Found at i:2296388 original size:22 final size:21
Alignment explanation
Indices: 2296229--2296400 Score: 138
Period size: 22 Copynumber: 7.9 Consensus size: 21
2296219 AATTAATACT
*
2296229 TATATTTATGTACTTTAATACTT-
1 TATATTTA-ATACTTT-ATA-TTA
2296252 TATATTTAATAC-TTATATTA
1 TATATTTAATACTTTATATTA
*
2296272 TATAGTTTAGTACTTTATATTA
1 TATA-TTTAATACTTTATATTA
*
2296294 TATACTTTAGTACTTATATACTT-
1 TATA-TTTAATACTT-TATA-TTA
2296317 TATATTTAATAC-TTATATTAA
1 TATATTTAATACTTTATATT-A
2296338 TATACTTTAATAC-TTATATTCA
1 TATA-TTTAATACTTTATATT-A
* * *
2296360 AACATTTTATTACTTTATATTA
1 TATA-TTTAATACTTTATATTA
* *
2296382 TATATTTTATACTCTATAT
1 TATATTTAATACTTTATAT
2296401 ATAAAGTATC
Statistics
Matches: 126, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.03
20 11 0.09
21 26 0.21
22 60 0.48
23 23 0.18
24 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATTTAATACTTTATATTA
Found at i:2296508 original size:17 final size:17
Alignment explanation
Indices: 2296460--2296509 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
2296450 AAATGAATAA
2296460 ATTAAACAACACTTTAT
1 ATTAAACAACACTTTAT
*
2296477 A-T--ACTATATACTTTAT
1 ATTAAAC-A-ACACTTTAT
2296493 ATTAAACAACACTTTAT
1 ATTAAACAACACTTTAT
2296510 TATTTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
14 2 0.08
15 1 0.04
16 10 0.38
17 10 0.38
18 1 0.04
19 2 0.08
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAACAACACTTTAT
Found at i:2298447 original size:29 final size:28
Alignment explanation
Indices: 2298402--2298481 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 28
2298392 AAAAAAAATG
*
2298402 GGGGTTTGACCTCGTATATTTATTAAGT
1 GGGGTTTGACCTGGTATATTTATTAAGT
*
2298430 GAGGGTTTGACTTGGTATATTTATTAAGT
1 G-GGGTTTGACCTGGTATATTTATTAAGT
2298459 GGAGGTTTGACCTGGTATATTTA
1 GG-GGTTTGACCTGGTATATTTA
2298482 AAAAATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (28 bp):
GGGGTTTGACCTGGTATATTTATTAAGT
Found at i:2298971 original size:21 final size:21
Alignment explanation
Indices: 2298934--2298973 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2298924 TATATTAGGG
**
2298934 CTTATAGTTTAGGGTTTAGTA
1 CTTATAGTTTAAAGTTTAGTA
2298955 CTTATAGTTTAAAGTTTAG
1 CTTATAGTTTAAAGTTTAG
2298974 GGTTTAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
CTTATAGTTTAAAGTTTAGTA
Found at i:2298992 original size:21 final size:21
Alignment explanation
Indices: 2298941--2299012 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
2298931 GGGCTTATAG
* *
2298941 TTTAGGGTTTAGTACTTATAG-
1 TTTAGGGTTTAGGATTTA-AGA
** * *
2298962 TTTAAAGTTTAGGGTTTAAGG
1 TTTAGGGTTTAGGATTTAAGA
* *
2298983 TTTATGGTTTATGATTTAAGA
1 TTTAGGGTTTAGGATTTAAGA
2299004 TTTAGGGTT
1 TTTAGGGTT
2299013 CCTATAAACT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAAGA
Found at i:2299107 original size:15 final size:15
Alignment explanation
Indices: 2299087--2299140 Score: 81
Period size: 15 Copynumber: 3.4 Consensus size: 15
2299077 TAATTTACTT
2299087 TATATAGTTTATATA
1 TATATAGTTTATATA
2299102 TATATAGGTTATATATA
1 TATATA-GTT-TATATA
2299119 TATATAGTTTATATA
1 TATATAGTTTATATA
2299134 TACTATA
1 TA-TATA
2299141 CATGGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.39
16 10 0.28
17 12 0.33
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:2299116 original size:17 final size:17
Alignment explanation
Indices: 2299087--2299140 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
2299077 TAATTTACTT
2299087 TATATA-GTT-TATATA
1 TATATAGGTTATATATA
2299102 TATATAGGTTATATATA
1 TATATAGGTTATATATA
*
2299119 TATATAGTTTATATATA
1 TATATAGGTTATATATA
2299136 CTATA
1 -TATA
2299141 CATGGTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
15 6 0.17
16 3 0.09
17 22 0.63
18 4 0.11
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
TATATAGGTTATATATA
Found at i:2299148 original size:20 final size:20
Alignment explanation
Indices: 2299111--2299156 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2299101 ATATATAGGT
*
2299111 TATATA-TATATATAGTTTA
1 TATATACTATACATAGTTTA
*
2299130 TATATACTATACATGGTTTA
1 TATATACTATACATAGTTTA
*
2299150 TACATAC
1 TATATAC
2299157 ATATTATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (20 bp):
TATATACTATACATAGTTTA
Found at i:2299661 original size:2 final size:2
Alignment explanation
Indices: 2299656--2299767 Score: 133
Period size: 2 Copynumber: 57.0 Consensus size: 2
2299646 TTATATAGTT
* *
2299656 TA TA TA TA TA TA TA TG T- TA TA TA TA TA T- TCA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* *
2299697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
*
2299740 TA TA TA TA TA -A CA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2299768 CATGGTTTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
1 4 0.04
2 89 0.93
3 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2299957 original size:2 final size:2
Alignment explanation
Indices: 2299950--2299991 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2299940 GTATTTCTAT
*
2299950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2299992 GATTACTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2300265 original size:95 final size:96
Alignment explanation
Indices: 2300086--2300276 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 96
2300076 TAATTAAACC
2300086 ATGACTAAAATGAAAGAAATCAAAAATCAAATACAAGTGGAAAAATGATGATTGTTGGAGGAGCA
1 ATGACTAAAATGAAAGAAATCAAAAATCAAATACAAGTGGAAAAATGATGATTGTTGGAGGAGCA
2300151 TGAGCCTAATTAACCCAAAATATCTTTTCAA
66 TGAGCCTAATTAACCCAAAATATCTTTTCAA
2300182 ATGACTAAAATGAAAGAAATCAAAAATCAAATACAAGTGG-AAAATGATGATTGTTGGAGGAGCA
1 ATGACTAAAATGAAAGAAATCAAAAATCAAATACAAGTGGAAAAATGATGATTGTTGGAGGAGCA
2300246 TGAGCCTAATTAACCCAAAATATCTTTTCAA
66 TGAGCCTAATTAACCCAAAATATCTTTTCAA
2300277 TAAAATCTCA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 55 0.58
96 40 0.42
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.24
Consensus pattern (96 bp):
ATGACTAAAATGAAAGAAATCAAAAATCAAATACAAGTGGAAAAATGATGATTGTTGGAGGAGCA
TGAGCCTAATTAACCCAAAATATCTTTTCAA
Found at i:2300351 original size:19 final size:20
Alignment explanation
Indices: 2300288--2300356 Score: 88
Period size: 19 Copynumber: 3.5 Consensus size: 20
2300278 AAAATCTCAA
*
2300288 TTCTCAATTTCCCTCCAAAT
1 TTCTCAATTTCCCTCTAAAT
* *
2300308 TTTTCTA-TTCCCTCTAAAT
1 TTCTCAATTTCCCTCTAAAT
*
2300327 TTCTCAATTTTCCTCTAAA-
1 TTCTCAATTTCCCTCTAAAT
2300346 TTCTCAATTTC
1 TTCTCAATTTC
2300357 TTTATATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
TTCTCAATTTCCCTCTAAAT
Found at i:2300354 original size:27 final size:27
Alignment explanation
Indices: 2300324--2300383 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2300314 ATTCCCTCTA
* *
2300324 AATTTCTCAATTTTCCTCTAAA-TTCTC
1 AATTTCTCAATATT-CTCAAAATTTCTC
**
2300351 AATTTCTTTATATTCTCAAAATTTCTC
1 AATTTCTCAATATTCTCAAAATTTCTC
2300378 AATTTC
1 AATTTC
2300384 CCTCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (27 bp):
AATTTCTCAATATTCTCAAAATTTCTC
Found at i:2300472 original size:2 final size:2
Alignment explanation
Indices: 2300465--2300671 Score: 79
Period size: 2 Copynumber: 107.0 Consensus size: 2
2300455 ACTTTTAATA
*
2300465 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A- AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * * * * *
2300506 -T AT AGT -T TT AA ACT AT AT AT -T TT TT AT AGT TT AT AC AT AT
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
2300546 AGT TT AC AT -T AT AT AGT TT ACT AT AT AGT -T AT AT AT A- AT A-
1 A-T AT AT AT AT AT AT A-T AT A-T AT AT A-T AT AT AT AT AT AT AT
* *
2300586 AC A- AT AT TT AT AT AT A- ACT -T AT A- AT A- AT -T AT AT -T A-
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
2300621 AT AT AA AT AT AGT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2300664 AT AT AT AT
1 AT AT AT AT
2300672 TTTCAATTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 54
0.67 0.09 0.23
Matches are distributed among these distances:
1 17 0.11
2 127 0.81
3 12 0.08
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2300548 original size:13 final size:14
Alignment explanation
Indices: 2300530--2300575 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
2300520 ATATATTTTT
*
2300530 TATAGTTTATA-CA
1 TATAGTTTACATCA
*
2300543 TATAGTTTACATTA
1 TATAGTTTACATCA
2300557 TATAGTTTAC-T-A
1 TATAGTTTACATCA
2300569 TATAGTT
1 TATAGTT
2300576 ATATATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 8 0.27
13 11 0.37
14 11 0.37
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (14 bp):
TATAGTTTACATCA
Found at i:2303366 original size:30 final size:31
Alignment explanation
Indices: 2303331--2303409 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
2303321 TTTTTTCAGT
*
2303331 GGCTAAGA-TAAAACCACTTTAGTTTTT-TAA
1 GGCTAA-ACTAAAACCACTTCAGTTTTTCTAA
* *
2303361 GGCTAAACTAGAATCACTTCAGTTTTTCTAA
1 GGCTAAACTAAAACCACTTCAGTTTTTCTAA
*
2303392 GGCTAAACTAGAACCACT
1 GGCTAAACTAAAACCACT
2303410 CCCCTTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 22 0.51
31 20 0.47
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (31 bp):
GGCTAAACTAAAACCACTTCAGTTTTTCTAA
Found at i:2303396 original size:31 final size:30
Alignment explanation
Indices: 2303342--2303409 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
2303332 GCTAAGATAA
*
2303342 AACCACTTTAGTTTTTTAAGGCTAAACTAG
1 AACCACTTCAGTTTTTTAAGGCTAAACTAG
*
2303372 AATCACTTCAGTTTTTCTAAGGCTAAACTAG
1 AACCACTTCAGTTTTT-TAAGGCTAAACTAG
2303403 AACCACT
1 AACCACT
2303410 CCCCTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.34
Consensus pattern (30 bp):
AACCACTTCAGTTTTTTAAGGCTAAACTAG
Found at i:2303826 original size:16 final size:16
Alignment explanation
Indices: 2303805--2303863 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
2303795 GGAAACCAAG
2303805 TAAGGGGTTTAGAAAC
1 TAAGGGGTTTAGAAAC
*
2303821 TAA-GGGTTTAGACAC
1 TAAGGGGTTTAGAAAC
* *
2303836 GTCAGGGTTTTCA-AAAC
1 -TAAGGGGTTT-AGAAAC
2303853 T-AGGGGTTTAG
1 TAAGGGGTTTAG
2303864 GAATCAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
14 1 0.03
15 18 0.53
16 6 0.18
17 8 0.24
18 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (16 bp):
TAAGGGGTTTAGAAAC
Found at i:2307812 original size:11 final size:11
Alignment explanation
Indices: 2307796--2307835 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2307786 ATATATATTT
2307796 TTTTAAAAATA
1 TTTTAAAAATA
2307807 TTTTAAAAA-A
1 TTTTAAAAATA
2307817 TATTT-AAAATA
1 T-TTTAAAAATA
2307828 -TTTAAAAA
1 TTTTAAAAA
2307836 AAATCCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.12
10 10 0.38
11 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:2307837 original size:12 final size:11
Alignment explanation
Indices: 2307800--2307836 Score: 51
Period size: 9 Copynumber: 3.5 Consensus size: 11
2307790 ATATTTTTTT
2307800 AAAAATATTTTA
1 AAAAATA-TTTA
2307812 AAAAATATTT-
1 AAAAATATTTA
2307822 -AAAATATTTA
1 AAAAATATTTA
2307832 AAAAA
1 AAAAA
2307837 AATCCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:2317275 original size:49 final size:49
Alignment explanation
Indices: 2317203--2317300 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
2317193 ATATTAGTAC
*
2317203 AATGAAATTTAATAGAATAAAGTGAACAAAAATGATGTTCATTCAACTT
1 AATGAAATTTAATAGAATAAAGTGAACAAAAATGACGTTCATTCAACTT
2317252 AATGAAATTTAATAGAATAAAGTGAACAAAAATGACGTTCATTCAACTT
1 AATGAAATTTAATAGAATAAAGTGAACAAAAATGACGTTCATTCAACTT
2317301 TTTTTTCCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (49 bp):
AATGAAATTTAATAGAATAAAGTGAACAAAAATGACGTTCATTCAACTT
Found at i:2319060 original size:24 final size:25
Alignment explanation
Indices: 2319008--2319061 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
2318998 GGTAATTTTA
*
2319008 AAAAATCTATATAATTTTAAACAAT
1 AAAAATCTATATAATTTTAAACAAG
*
2319033 AAAAAT-TATATATTTTTAAA-AACG
1 AAAAATCTATATAATTTTAAACAA-G
2319057 AAAAA
1 AAAAA
2319062 ACACAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.08
24 18 0.69
25 6 0.23
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATCTATATAATTTTAAACAAG
Found at i:2319803 original size:23 final size:22
Alignment explanation
Indices: 2319774--2319827 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
2319764 ATAGTATTTA
2319774 TAATTATAATATAATTAAATTAT
1 TAATTATAATATAA-TAAATTAT
* *
2319797 TAATTATTTATTTAATAAATTAT
1 TAATTA-TAATATAATAAATTAT
2319820 TAA-TATAA
1 TAATTATAA
2319828 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 17 0.63
24 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTATAATATAATAAATTAT
Found at i:2321305 original size:22 final size:21
Alignment explanation
Indices: 2321265--2321305 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2321255 AACACTTGGT
**
2321265 AATTTTAAAAATTTTATATAA
1 AATTTTAAAAATTAAATATAA
2321286 AATTTTAAAAAATTAAATAT
1 AATTTT-AAAAATTAAATAT
2321306 TTTTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTTAAAAATTAAATATAA
Found at i:2325000 original size:30 final size:30
Alignment explanation
Indices: 2324944--2325032 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
2324934 GGATTTGATT
*
2324944 AGTGGCCAAAATGTAAATTTTTAAAAGTTA
1 AGTGGCCAAAATGTAAATTTTAAAAAGTTA
*
2324974 AGTGGCC-AAAT-TATAATTTTGAAAAAGTTT
1 AGTGGCCAAAATGTA-AATTTT-AAAAAGTTA
* * *
2325004 A-TAGACTAAAGTGT-AATTTTAAAAAGTTA
1 AGT-GGCCAAAATGTAAATTTTAAAAAGTTA
2325033 TGTAATTCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.04
29 19 0.40
30 23 0.48
31 3 0.06
32 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.35
Consensus pattern (30 bp):
AGTGGCCAAAATGTAAATTTTAAAAAGTTA
Found at i:2329863 original size:40 final size:39
Alignment explanation
Indices: 2329805--2329902 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 39
2329795 GCATATCAAT
*
2329805 TAAGCACTTCGGTGCATATGGTGGGCAGGACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
2329844 TAATGCACTTTGGTGCATATGGTGGGTACGACCTTATGTG
1 TAA-GCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
2329884 TAAGCACTACGGTGTATAT
1 TAAGCACTTCGGTGCATAT
2329903 ATTTGAATCG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.31
40 36 0.69
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
Found at i:2345788 original size:33 final size:33
Alignment explanation
Indices: 2345751--2345815 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2345741 CCTATTAAGT
2345751 GATAAGAGTTATA-GAATATCTAAACTACTTAGA
1 GATAAGAGTTATATG-ATATCTAAACTACTTAGA
2345784 GATAAGAGTTATATGATATCTAAACTACTTAG
1 GATAAGAGTTATATGATATCTAAACTACTTAG
2345816 TTATTAACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (33 bp):
GATAAGAGTTATATGATATCTAAACTACTTAGA
Found at i:2349824 original size:17 final size:18
Alignment explanation
Indices: 2349785--2349823 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2349775 CCTCTACTCC
*
2349785 TTTTCATGTGGTTTTGAT
1 TTTTCATGTGGTTATGAT
2349803 TTTTCATGTGGTTATGAT
1 TTTTCATGTGGTTATGAT
2349821 TTT
1 TTT
2349824 CTATATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.05, G:0.21, T:0.62
Consensus pattern (18 bp):
TTTTCATGTGGTTATGAT
Found at i:2350243 original size:27 final size:26
Alignment explanation
Indices: 2350212--2350271 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
2350202 TAAAACTATT
* *
2350212 TTTTTAAATT-ATAAATTTATAATTAA
1 TTTTTAAATTCATAAAATAATAA-TAA
2350238 TCTTTT-AATTCATAAAATAATAATAA
1 T-TTTTAAATTCATAAAATAATAATAA
2350264 TTTTTAAA
1 TTTTTAAA
2350272 AAAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 4 0.14
26 11 0.38
27 14 0.48
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTTAAATTCATAAAATAATAATAA
Found at i:2350487 original size:18 final size:18
Alignment explanation
Indices: 2350441--2350487 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2350431 TTAATAGTTT
2350441 TAAA-TATAACTTTAAAAA
1 TAAATTATAA-TTTAAAAA
*
2350459 TATATTATAATTTAAAAA
1 TAAATTATAATTTAAAAA
*
2350477 TAAATTTTAAT
1 TAAATTATAAT
2350488 ATTTATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTATAATTTAAAAA
Found at i:2351528 original size:27 final size:26
Alignment explanation
Indices: 2351498--2351552 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
2351488 AGTGTGGTTG
2351498 AATTGGAATAATAAAAATATTATCTTA
1 AATTGGAATAAT-AAAATATTATCTTA
** * *
2351525 AATTTTAATTATTAAATATTATCTTA
1 AATTGGAATAATAAAATATTATCTTA
2351551 AA
1 AA
2351553 ATTTAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTGGAATAATAAAATATTATCTTA
Found at i:2351539 original size:14 final size:14
Alignment explanation
Indices: 2351522--2351567 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2351512 AAATATTATC
2351522 TTAAATTTTAATTA
1 TTAAATTTTAATTA
* *
2351536 TTAAATATT-A-TC
1 TTAAATTTTAATTA
*
2351548 TTAAAATTTAATTA
1 TTAAATTTTAATTA
2351562 TTAAAT
1 TTAAAT
2351568 GAGTTATCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
12 8 0.33
13 2 0.08
14 14 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAAATTTTAATTA
Found at i:2351541 original size:26 final size:26
Alignment explanation
Indices: 2351512--2351582 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
2351502 GGAATAATAA
*
2351512 AAATATTATCTTAAATTTTAATTATT
1 AAATATTATCTTAAAATTTAATTATT
2351538 AAATATTATCTTAAAATTTAATTATT
1 AAATATTATCTTAAAATTTAATTATT
2351564 AAATGAGTTATCTTAAAAT
1 AAAT-A-TTATCTTAAAAT
2351583 ATTTTTCATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 29 0.69
27 1 0.02
28 12 0.29
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (26 bp):
AAATATTATCTTAAAATTTAATTATT
Found at i:2351815 original size:14 final size:14
Alignment explanation
Indices: 2351796--2351846 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
2351786 AATAGTTAAA
*
2351796 TTTTAAAATTATAC
1 TTTTAAAATTACAC
*
2351810 TTTTAAACATCACAC
1 TTTTAAA-ATTACAC
2351825 TTTTAAAATT-CAC
1 TTTTAAAATTACAC
2351838 TTTTCAAAA
1 TTTT-AAAA
2351847 GCTTTACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 7 0.22
14 13 0.41
15 12 0.38
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTAAAATTACAC
Found at i:2351837 original size:15 final size:15
Alignment explanation
Indices: 2351796--2351837 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2351786 AATAGTTAAA
*
2351796 TTTTAAAATT-ATAC
1 TTTTAAAATTCACAC
2351810 TTTTAAACA-TCACAC
1 TTTTAAA-ATTCACAC
2351825 TTTTAAAATTCAC
1 TTTTAAAATTCAC
2351838 TTTTCAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTAAAATTCACAC
Found at i:2352275 original size:18 final size:19
Alignment explanation
Indices: 2352233--2352281 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2352223 AGTTATAAAA
2352233 ATATATTTTTATTTATGATT
1 ATAT-TTTTTATTTATGATT
*
2352253 ATATTTTTTATTTAT-TTT
1 ATATTTTTTATTTATGATT
*
2352271 TTATTTTTTAT
1 ATATTTTTTAT
2352282 AGTTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 11 0.41
20 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATATTTTTTATTTATGATT
Found at i:2354655 original size:141 final size:139
Alignment explanation
Indices: 2354392--2354675 Score: 432
Period size: 141 Copynumber: 2.0 Consensus size: 139
2354382 TCCAGAAATT
* *
2354392 TAAAAATTATACTTCTTGTCACACCCTAGGTTGGGGTATTTTTTTTAATTGGTTAATTTGGTACT
1 TAAAAACTATACTTCTTGTCACACCCTAGGTTGGGGTATCTTTTTTAATTGGTTAATTTGGTACT
2354457 GAATTTTTTTTATTAACTTTAGTGTCTGTTTGTGAATTTCTAGAAACCTAAGGACTAATGGTATA
66 GAATTTTTTTTATTAACTTTAGTGTCTGTTTGTGAATTTCTAGAAACCTAAGGACTAATGGTATA
2354522 A-TAGCCCA
131 ATTAGCCCA
* *
2354530 TAAAAACTATACTTCTTGTCGCACCCTAGGTTGGGG-GTCTTTTTTAATTGGTTAATTTGGTACT
1 TAAAAACTATACTTCTTGTCACACCCTAGGTTGGGGTATCTTTTTTAATTGGTTAATTTGGTAC-
* *
2354594 GAATGAATTTTTTTTATTAACTTTAGTGTCTGTTTGTG-ATTTTTTGAAAACC-AAGGTACTAAT
65 ---TGAATTTTTTTTATTAACTTTAGTGTCTGTTTGTGAATTTCTAG-AAACCTAAGG-ACTAAT
2354657 GGTATAATTAGCCCA
125 GGTATAATTAGCCCA
2354672 TAAA
1 TAAA
2354676 TGTTAGGGTA
Statistics
Matches: 133, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
137 25 0.19
138 34 0.26
140 10 0.08
141 53 0.40
142 11 0.08
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (139 bp):
TAAAAACTATACTTCTTGTCACACCCTAGGTTGGGGTATCTTTTTTAATTGGTTAATTTGGTACT
GAATTTTTTTTATTAACTTTAGTGTCTGTTTGTGAATTTCTAGAAACCTAAGGACTAATGGTATA
ATTAGCCCA
Found at i:2355213 original size:20 final size:20
Alignment explanation
Indices: 2355190--2355241 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2355180 AACGCGATCC
2355190 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2355210 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2355230 CCAAAATCGCAA
1 CCAGAATCGCAA
2355242 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2355322 original size:20 final size:20
Alignment explanation
Indices: 2355297--2355490 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
2355287 GATTTTCCAT
* *
2355297 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
2355317 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
2355337 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
2355357 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
2355377 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
2355397 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
2355417 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
2355437 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
2355458 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
2355478 AATCGCAACGCGA
1 AATCGCAACGCGA
2355491 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:2355342 original size:40 final size:39
Alignment explanation
Indices: 2355293--2355490 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
2355283 TTGCGATTTT
* ** *
2355293 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
2355331 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
2355372 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
2355412 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
2355451 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
2355491 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:2355380 original size:60 final size:60
Alignment explanation
Indices: 2355297--2355489 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
2355287 GATTTTCCAT
* ** * *
2355297 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
2355357 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
2355417 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
2355478 AATCGCAACGCG
1 AATCGCAACGCG
2355490 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:2355908 original size:33 final size:33
Alignment explanation
Indices: 2355869--2355939 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2355859 TTCACTTAGA
*
2355869 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2355902 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2355935 TTTCA
1 TTTCA
2355940 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2356079 original size:14 final size:14
Alignment explanation
Indices: 2356060--2356114 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2356050 AGAATGACTG
2356060 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2356074 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
2356093 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2356107 TCGCAACG
1 TCGCAACG
2356115 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:2356097 original size:33 final size:33
Alignment explanation
Indices: 2356060--2356130 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2356050 AGAATGACTG
**
2356060 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2356093 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2356126 TCGCA
1 TCGCA
2356131 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:2356148 original size:19 final size:19
Alignment explanation
Indices: 2356126--2356223 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2356116 GAAACCAAAA
*
2356126 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2356145 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2356159 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2356178 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
2356192 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2356211 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2356224 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2356167 original size:14 final size:14
Alignment explanation
Indices: 2356148--2356237 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2356138 TTTCATTTCG
2356148 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2356162 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2356181 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2356195 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2356212 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2356228 CGTTGCGATT
1 CGTTGCGATT
2356238 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2356173 original size:33 final size:33
Alignment explanation
Indices: 2356131--2356245 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2356121 CAAAATCGCA
2356131 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2356164 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2356197 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2356230 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2356246 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2358173 original size:185 final size:185
Alignment explanation
Indices: 2357942--2358413 Score: 917
Period size: 185 Copynumber: 2.6 Consensus size: 185
2357932 TAGATTGCTT
*
2357942 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358007 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2358072 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2358127 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358192 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
2358257 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2358312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358377 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
2358414 ATCATTCAAG
Statistics
Matches: 283, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 283 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2358253 original size:93 final size:93
Alignment explanation
Indices: 2357942--2358413 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
2357932 TAGATTGCTT
*
2357942 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358007 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2358035 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358099 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2358127 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358192 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2358220 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358284 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2358312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2358377 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2358405 AGTAAATTT
1 AGTAAATTT
2358414 ATCATTCAAG
Statistics
Matches: 372, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 182 0.49
93 190 0.51
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2358496 original size:19 final size:19
Alignment explanation
Indices: 2358456--2358584 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2358446 TAGTTTACTT
* *
2358456 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2358476 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2358495 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2358514 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2358528 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2358547 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2358561 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2358580 TCGCA
1 TCGCA
2358585 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2358535 original size:33 final size:32
Alignment explanation
Indices: 2358492--2358584 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2358482 CGCGAAACCA
**
2358492 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2358524 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2358557 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2358585 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2358582 original size:52 final size:52
Alignment explanation
Indices: 2358456--2358584 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2358446 TAGTTTACTT
**
2358456 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2358508 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2358561 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2358585 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2358602 original size:19 final size:19
Alignment explanation
Indices: 2358580--2358714 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2358570 GAAACCAAAA
*
2358580 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2358599 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2358615 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2358632 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2358648 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2358665 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2358684 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2358704 TCGTGTTGCGA
1 TCGCGTTGCGA
2358715 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2358621 original size:14 final size:14
Alignment explanation
Indices: 2358602--2358658 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2358592 TTTCATTTCG
2358602 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2358616 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2358633 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2358649 CGTTGCGATT
1 CGTTGCGATT
2358659 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2358627 original size:33 final size:33
Alignment explanation
Indices: 2358585--2358677 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2358575 CAAAATCGCA
*
2358585 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
2358618 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2358651 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2358678 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2360639 original size:14 final size:14
Alignment explanation
Indices: 2360620--2360655 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2360610 ATTGTTTAAT
2360620 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2360634 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2360648 TGATTTGT
1 TGATTTGT
2360656 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2360778 original size:19 final size:19
Alignment explanation
Indices: 2360762--2360863 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2360752 AAAAATGACT
2360762 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2360781 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2360800 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2360814 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2360833 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2360853 ATCGCAATGCG
1 ATCGCAATGCG
2360864 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2360916 original size:19 final size:19
Alignment explanation
Indices: 2360892--2361146 Score: 316
Period size: 19 Copynumber: 14.4 Consensus size: 19
2360882 GATTATCTCG
2360892 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2360911 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2360930 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
2360944 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2360963 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2360982 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2361001 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2361020 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
2361034 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2361053 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2361072 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2361086 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2361106 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
2361120 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
2361139 TTGCGATT
1 TTGCGATT
2361147 GTATTTTCCG
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.14
16 24 0.12
17 20 0.10
18 3 0.01
19 119 0.57
20 12 0.06
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2360932 original size:52 final size:52
Alignment explanation
Indices: 2360870--2361079 Score: 246
Period size: 52 Copynumber: 3.9 Consensus size: 52
2360860 TGCGTTTATA
2360870 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
2360922 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
2360974 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
2361033 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
2361080 CTCTCGTTGC
Statistics
Matches: 139, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
52 90 0.65
54 4 0.03
55 5 0.04
56 2 0.01
57 26 0.19
58 3 0.02
59 9 0.06
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:2360997 original size:90 final size:90
Alignment explanation
Indices: 2360870--2361146 Score: 389
Period size: 90 Copynumber: 3.2 Consensus size: 90
2360860 TGCGTTTATA
*
2360870 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
2360930 TTGCGATTCTTTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
2360955 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
2361020 TTGCGATTCTGTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
2361045 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGC
*
2361105 ATTGCGA-T-TTTCATGTTGGGATTTTC
65 ATTGCGATTCTTTC--GTTGCGATTTTC
*
2361131 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
2361147 GTATTTTCCG
Statistics
Matches: 176, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
84 3 0.02
85 29 0.16
86 36 0.20
87 6 0.03
88 8 0.05
90 94 0.53
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTTTCGTTGCGATTTTC
Found at i:2361042 original size:142 final size:139
Alignment explanation
Indices: 2360854--2361146 Score: 466
Period size: 142 Copynumber: 2.1 Consensus size: 139
2360844 GAAATGAAAA
*
2360854 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
2360918 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCA
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--
2360982 TTGCGATTTTCATT
126 TTGCGATTTTCATT
* *
2360996 TCGCATTGCGATTT-TAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
2361060 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGG
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCG
2361125 ATTTTCATT
131 ATTTTCATT
*
2361134 TCGCGTTGCGATT
1 TCGCATTGCGATT
2361147 GTATTTTCCG
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
138 25 0.17
140 1 0.01
141 1 0.01
142 97 0.68
143 19 0.13
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (139 bp):
TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCG
ATTTTCATT
Found at i:2361080 original size:52 final size:55
Alignment explanation
Indices: 2360892--2361118 Score: 305
Period size: 52 Copynumber: 4.2 Consensus size: 55
2360882 GATTATCTCG
2360892 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
2360944 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
* *
2361001 TTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
*
2361053 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTT-CGCA
2361106 TTGCGATTTTCAT
1 TTGCGATTTTCAT
2361119 GTTGGGATTT
Statistics
Matches: 165, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
52 109 0.66
53 17 0.10
54 7 0.04
55 8 0.05
57 24 0.15
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (55 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
Found at i:2361090 original size:33 final size:33
Alignment explanation
Indices: 2360911--2361146 Score: 201
Period size: 33 Copynumber: 6.8 Consensus size: 33
2360901 TCATTTCGCA
*
2360911 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
2360944 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
2360980 CATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
* * * * *
2361018 CATTGCGATTCTGTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
2361053 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
2361086 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
2361120 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
2361147 GTATTTTCCG
Statistics
Matches: 174, Mismatches: 15, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 62 0.36
34 29 0.17
35 6 0.03
36 5 0.03
37 2 0.01
38 44 0.25
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:2363447 original size:12 final size:12
Alignment explanation
Indices: 2363430--2363454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2363420 TCTTCGGGGA
2363430 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2363442 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2363454 C
1 C
2363455 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2363663 original size:24 final size:24
Alignment explanation
Indices: 2363629--2363675 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2363619 CTGAAACATC
2363629 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2363653 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2363676 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2364386 original size:20 final size:20
Alignment explanation
Indices: 2364358--2364726 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
2364348 AAATTTAAGT
* * * *
2364358 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2364378 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2364398 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2364418 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2364438 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2364458 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2364478 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2364498 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2364518 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2364538 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2364558 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
2364578 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2364598 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2364618 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2364638 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2364658 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2364678 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2364698 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2364718 GTTGCGATT
1 GTTGCGATT
2364727 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2367278 original size:20 final size:21
Alignment explanation
Indices: 2367255--2367295 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2367245 TTTATTATAT
**
2367255 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
2367275 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
2367296 TAAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:2368192 original size:19 final size:20
Alignment explanation
Indices: 2368163--2368201 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2368153 GTTTAGTTGT
2368163 TGTTGTTTTTT-TTCTTTCTC
1 TGTTGTTTTTTCTT-TTTCTC
2368183 TGTT-TTTTTTCTTTTTCTC
1 TGTTGTTTTTTCTTTTTCTC
2368202 CGGTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (20 bp):
TGTTGTTTTTTCTTTTTCTC
Found at i:2368718 original size:3 final size:3
Alignment explanation
Indices: 2368710--2368813 Score: 190
Period size: 3 Copynumber: 34.7 Consensus size: 3
2368700 AATGTATATT
* *
2368710 TAA TAA TAA TAA TAA CAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2368758 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2368806 TAA TAA TA
1 TAA TAA TA
2368814 TGGATAAAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2369313 original size:113 final size:112
Alignment explanation
Indices: 2369067--2369837 Score: 1224
Period size: 113 Copynumber: 6.8 Consensus size: 112
2369057 TTTTGATGAG
*
2369067 TTCTTCTCATTATGAAC-TCTCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCT
* * * * * * * *
2369131 GAAAAAAAAATAACCCATCAAGTAATAGATTTGAGCA-AAAAGGTTGAACAAA
64 G--GAAAAGATAATCCATCAATTGAT-GAATTCA-AATAAAAGGTTGAACAAA
*
2369183 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTG
* * *
2369248 GCAAAA-ATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
65 G-AAAAGATAATCCATCAATTGATGAATTCAAATAAAAGGTTGAACAAA
2369296 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAA-CTTCT
*
2369361 CTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAA
62 CTGGAAAAGATAATCCATCAA-TTGATGAATTCAAATAAAAGGTTGAACAAA
2369413 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
2369478 AAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAA
66 AAAAGATAATCCATCAA-TTGATGAATTCAAATAAAAGGTTGAACAAA
*
2369526 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
2369591 AAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAA
66 AAAAGATAATCCATCAA-TTGATGAATTCAAATAAAAGGTTGAACAAA
2369639 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
* *
2369704 AAAAGATAATCCATCAAATGATGAATTCAGATAAAAGGTTGAACAAA
66 AAAAGATAATCCATCAATTGATGAATTCAAATAAAAGGTTGAACAAA
2369751 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
*
2369816 AAAAGATAATCCATCAAATGAT
66 AAAAGATAATCCATCAATTGAT
2369838 AGATTTGAAT
Statistics
Matches: 628, Mismatches: 18, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
112 116 0.18
113 301 0.48
114 37 0.06
115 10 0.02
116 100 0.16
117 64 0.10
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
AAAAGATAATCCATCAATTGATGAATTCAAATAAAAGGTTGAACAAA
Found at i:2369673 original size:226 final size:225
Alignment explanation
Indices: 2369067--2369832 Score: 1243
Period size: 230 Copynumber: 3.4 Consensus size: 225
2369057 TTTTGATGAG
*
2369067 TTCTTCTCATTATGAAC-TCTCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCT
* * * * * * * *
2369131 GAAAAAAAAATAACCCATCAA-GTAATAGATTTGAGCA-AAAAGGTTGAACAAATTCTTCTCATT
64 G--GAAAAGATAATCCATCAATTTGAT-GAATTCA-AATAAAAGGTTGAACAAATTCTTCTCATT
*
2369194 ATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAA-ATAA
125 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGG-AAAAGATAA
* *
2369258 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAA
188 TCCATCAAATGATGAATTCAGATAAAAGGTTGAACAAA
2369296 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAA-CTTCT
*
2369361 CTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTAT
62 CTGGAAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTAT
2369426 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCA
127 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCA
* *
2369491 TCAATTTGATGAATTCAAATAAAAGGTTGAACAAA
192 TCAA-ATGATGAATTCAGATAAAAGGTTGAACAAA
*
2369526 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
2369591 AAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 AAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
2369656 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATCAA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATCAA
2369721 ATGATGAATTCAGATAAAAGGTTGAACAAA
196 ATGATGAATTCAGATAAAAGGTTGAACAAA
2369751 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
2369816 AAAAGATAATCCATCAA
66 AAAAGATAATCCATCAA
2369833 ATGATAGATT
Statistics
Matches: 509, Mismatches: 19, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
225 109 0.21
226 138 0.27
227 22 0.04
228 5 0.01
229 49 0.10
230 152 0.30
231 4 0.01
232 29 0.06
233 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (225 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
AAAAGATAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATCAA
ATGATGAATTCAGATAAAAGGTTGAACAAA
Found at i:2370771 original size:81 final size:82
Alignment explanation
Indices: 2370571--2371194 Score: 981
Period size: 81 Copynumber: 7.6 Consensus size: 82
2370561 CCTACTGAAT
** *
2370571 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-ACACATTCATCTTCCAAATTCAA
*
2370636 TGATT-GTTTTGTCAAAT
65 TGATTGGTTTTGTCAAAC
2370653 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA-ACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
*
2370717 GATTGGTTTTATCAAAC
66 GATTGGTTTTGTCAAAC
2370734 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GA-CACATTCATCTTCCAAATTCA
2370799 ATGATTGGTTTTGTCAAAC
64 ATGATTGGTTTTGTCAAAC
2370818 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA-ACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
*
2370882 GATTGGTTTAGTCAAAC
66 GATTGGTTTTGTCAAAC
2370899 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA-ACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
* *
2370963 GATTGGTTCTGTCTAAC
66 GATTGGTTTTGTCAAAC
*
2370980 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGC-CATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-CACATTCATCTTCCAAATTCA
* * *
2371044 ATGCTTGGTTCTGTCCAAC
64 ATGATTGGTTTTGTCAAAC
*
2371063 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGATC-CATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-CACATTCATCTTCCAAATTCA
* * *
2371127 ATGCTTGGTTCTGTCCAAC
64 ATGATTGGTTTTGTCAAAC
2371146 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-CACAT
2371195 ATAAAAGGTT
Statistics
Matches: 519, Mismatches: 15, Indels: 14
0.95 0.03 0.03
Matches are distributed among these distances:
80 23 0.04
81 206 0.40
82 46 0.09
83 163 0.31
84 81 0.16
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (82 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
GATTGGTTTTGTCAAAC
Found at i:2370847 original size:165 final size:163
Alignment explanation
Indices: 2370571--2371185 Score: 986
Period size: 165 Copynumber: 3.7 Consensus size: 163
2370561 CCTACTGAAT
** *
2370571 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-ACACATTCATCTTCCAAATTCAA
* *
2370636 TGATT-GTTTTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATT
65 TGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATT
2370700 CATCTTCCAAATTCAATGATTGGTTTTATCAAAC
130 CATCTTCCAAATTCAATGATTGGTTTTATCAAAC
2370734 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GA-CACATTCATCTTCCAAATTCA
*
2370799 ATGATTGGTTTTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAT
64 ATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAT
2370864 TCATCTTCCAAATTCAATGATTGG-TTTAGTCAAAC
129 TCATCTTCCAAATTCAATGATTGGTTTTA-TCAAAC
2370899 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA-ACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
* *
2370963 GATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCAT
66 GATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-ACAT
* * * * *
2371028 TCATCTTCTAAATTCAATGCTTGGTTCTGTCCAAC
129 TCATCTTCCAAATTCAATGATTGGTTTTATCAAAC
*
2371063 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGATC-CATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-CACATTCATCTTCCAAATTCA
* *
2371127 ATGCTTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
64 ATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
2371186 TGAGCACATA
Statistics
Matches: 427, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
162 76 0.18
163 44 0.10
164 100 0.23
165 133 0.31
166 74 0.17
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (163 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGACACATTCATCTTCCAAATTCAAT
GATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTC
ATCTTCCAAATTCAATGATTGGTTTTATCAAAC
Found at i:2371778 original size:19 final size:20
Alignment explanation
Indices: 2371754--2371795 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
2371744 AATAGAAAAG
*
2371754 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
2371773 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
2371793 AAT
1 AAT
2371796 TGAACTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:2372158 original size:10 final size:10
Alignment explanation
Indices: 2372123--2372195 Score: 101
Period size: 10 Copynumber: 7.1 Consensus size: 10
2372113 CTTGACCCTC
2372123 TTTTTTCTTT
1 TTTTTTCTTT
*
2372133 TTCTTTTCTCT
1 TT-TTTTCTTT
*
2372144 TTTTTCCTTTT
1 TTTTTTC-TTT
2372155 TTTTTTCTTT
1 TTTTTTCTTT
2372165 TTTTTTCTTT
1 TTTTTTCTTT
2372175 TTTTTTCTTT
1 TTTTTTCTTT
*
2372185 TTCTTTCTTT
1 TTTTTTCTTT
2372195 T
1 T
2372196 CTTCAAGCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
10 39 0.70
11 17 0.30
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2379532 original size:15 final size:15
Alignment explanation
Indices: 2379512--2379542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2379502 GAAATGAATG
2379512 ATGCATGTATGCAAA
1 ATGCATGTATGCAAA
*
2379527 ATGCATGTATGTAAA
1 ATGCATGTATGCAAA
2379542 A
1 A
2379543 ACATTGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
ATGCATGTATGCAAA
Found at i:2383583 original size:20 final size:21
Alignment explanation
Indices: 2383560--2383600 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2383550 TTTATTATAT
**
2383560 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
2383580 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
2383601 TAAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:2384499 original size:19 final size:20
Alignment explanation
Indices: 2384470--2384508 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2384460 GTTTAGTTGT
2384470 TGTTGTTTTTT-TTCTTTCTC
1 TGTTGTTTTTTCTT-TTTCTC
2384490 TGTT-TTTTTTCTTTTTCTC
1 TGTTGTTTTTTCTTTTTCTC
2384509 CGGTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (20 bp):
TGTTGTTTTTTCTTTTTCTC
Found at i:2385024 original size:3 final size:3
Alignment explanation
Indices: 2385016--2385120 Score: 183
Period size: 3 Copynumber: 34.7 Consensus size: 3
2385006 AATGTATATT
* *
2385016 TAA TAA TAA TAA TAA TAA CAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2385064 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
2385110 TAA TAA TAA TA
1 TAA TAA TAA TA
2385121 TGGATAAAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
3 94 0.97
4 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2386892 original size:1 final size:1
Alignment explanation
Indices: 2386888--2386921 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
2386878 TAAGAGCCGC
2386888 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2386922 CTACTGGCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2387209 original size:43 final size:42
Alignment explanation
Indices: 2387035--2387217 Score: 104
Period size: 44 Copynumber: 4.2 Consensus size: 42
2387025 TTCTTTCAAG
* * * *
2387035 CGCCGCTATATGTTGTGATTTGTAGTGGCGTATTTTT-TCACAAA
1 CGCCGCTATATATTTTG-TTTGTAGTGGC--ATTTTTACCAAAAA
*** * *
2387079 CGCCGCTA-ATTATCCCGTCTT-TAGTGGCATTTTTTTGCCACAAA
1 CGCCGCTATA-TATTTTGT-TTGTAGTGGCA--TTTTTACCAAAAA
* * * * **
2387123 TGCCGCTA-ATACTATTGTTTATAGTGGCGTTTTTAATACAAAA
1 CGCCGCTATATA-TTTTGTTTGTAGTGGCATTTTTACCA-AAAA
2387166 CGCCGCTATATATTTTGATTTGTAGTGGCATTTTTACCAAAAA
1 CGCCGCTATATATTTTG-TTTGTAGTGGCATTTTTACCAAAAA
*
2387209 CGTCGCTAT
1 CGCCGCTAT
2387218 TTGAAAAAGG
Statistics
Matches: 108, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 44 0.41
44 57 0.53
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (42 bp):
CGCCGCTATATATTTTGTTTGTAGTGGCATTTTTACCAAAAA
Found at i:2389925 original size:42 final size:42
Alignment explanation
Indices: 2389829--2390079 Score: 247
Period size: 42 Copynumber: 5.9 Consensus size: 42
2389819 TGAGAACAAA
* * * * * *
2389829 AAACGTCGCAATAGTTCAAGATCTATAGCGGCGTTTTTCGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGC-ATTTTGGAAC
* *
2389872 AAATGCCGCAAAAGGTCGATATCTATAGCGGCATTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTGGAAC
* *
2389914 AAACGCCGCAAAAGGTCGAGATATATAGCGGCATTTTTTAGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCA--TTTTGGA-AC
* *
2389959 AAATGCCGCAAAAGGTC-AGATCTATAGCGGCATTTTCGGAAT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTT-GGAAC
* * * *
2390001 AGACGCCACAAAAGGTCGAGATCTATAGCGGC-GTTTGCAGAAT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTG--GAAC
* * *
2390044 AAACGCCACAAAAGGT-TAGATCTATAGTGGCATTTT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTT
2390080 TTGTCATAAA
Statistics
Matches: 176, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 73 0.41
43 64 0.36
44 20 0.11
45 18 0.10
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTGGAAC
Found at i:2390007 original size:87 final size:84
Alignment explanation
Indices: 2389847--2390079 Score: 304
Period size: 87 Copynumber: 2.7 Consensus size: 84
2389837 CAATAGTTCA
* *
2389847 AGATCTATAGCGGCGTTTTTCGAACAAATGCCGCAAAAGGTCGATATCTATAGCGGCATTTTGGA
1 AGATCTATAGCGGCGTTTTTAGAACAAATGCCGCAAAAGGTC-AGATCTATAGCGGCATTTTGGA
*
2389912 ACAAACGCCGCAAAAGGTCG
65 ACAAACGCCACAAAAGGTCG
* *
2389932 AGATATATAGCGGCATTTTTTAGATACAAATGCCGCAAAAGGTCAGATCTATAGCGGCATTTTCG
1 AGATCTATAGCGGC-GTTTTTAGA-ACAAATGCCGCAAAAGGTCAGATCTATAGCGGCATTTT-G
* *
2389997 GAATAGACGCCACAAAAGGTCG
63 GAACAAACGCCACAAAAGGTCG
** * * * * *
2390019 AGATCTATAGCGGCGTTTGCAGAATAAACGCCACAAAAGGTTAGATCTATAGTGGCATTTT
1 AGATCTATAGCGGCGTTTTTAGAACAAATGCCGCAAAAGGTCAGATCTATAGCGGCATTTT
2390080 TTGTCATAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
85 46 0.36
86 31 0.24
87 52 0.40
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (84 bp):
AGATCTATAGCGGCGTTTTTAGAACAAATGCCGCAAAAGGTCAGATCTATAGCGGCATTTTGGAA
CAAACGCCACAAAAGGTCG
Found at i:2390015 original size:129 final size:128
Alignment explanation
Indices: 2389847--2390081 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 128
2389837 CAATAGTTCA
* * * * *
2389847 AGATCTATAGCGGCGTTTTTCGAACAAATGCCGCAAAAGGTCGATATCTATAGCGGCATTTTG-G
1 AGATCTATAGCGGCGATTTTCGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGC-GTTTGAG
*
2389911 AACAAACGCCGCAAAAGGTCGAGATATATAGCGGCATTTTTTAGATACAAATGCCGCAAAAGGTC
65 AACAAACGCCACAAAAGGT-GAGATATATAGCGGCATTTTTTAGATACAAATGCCGCAAAAGGTC
* *
2389976 AGATCTATAGCGGC-ATTTTCGGAATAGACGCCACAAAAGGTCGAGATCTATAGCGGCGTTTGCA
1 AGATCTATAGCGGCGATTTTC-GAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCGTTTG-A
* * * *
2390040 GAATAAACGCCACAAAAGGTTAGATCTATAGTGGCATTTTTT
64 GAACAAACGCCACAAAAGGTGAGATATATAGCGGCATTTTTT
2390082 GTCATAAACG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
128 9 0.10
129 64 0.70
130 18 0.20
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (128 bp):
AGATCTATAGCGGCGATTTTCGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCGTTTGAGA
ACAAACGCCACAAAAGGTGAGATATATAGCGGCATTTTTTAGATACAAATGCCGCAAAAGGTC
Found at i:2391526 original size:22 final size:21
Alignment explanation
Indices: 2391485--2391526 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2391475 TCAAAGTAAG
2391485 TATAAATTACTATTAAAATGT
1 TATAAATTACTATTAAAATGT
* *
2391506 TATAGATTATCTATTATAATG
1 TATAAATTA-CTATTAAAATG
2391527 ACATTATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
TATAAATTACTATTAAAATGT
Found at i:2394581 original size:84 final size:82
Alignment explanation
Indices: 2394493--2394683 Score: 215
Period size: 83 Copynumber: 2.3 Consensus size: 82
2394483 GCATTTTTTA
* * * * **
2394493 GAAAATATGCCACTATAGATTAACCCTATTGCAACATTTTTTATAAAAGAATTG-C-TAAAGTAC
1 GAAAAAATGCCACCATAGATGAACCCTATTACAACA-TTTGAAT-AAA-AA-TGCCATAAAGTAC
*
2394556 TATTATATTACGGCGTTTGTT
62 TACTATATTACGGCGTTTGTT
* **
2394577 GAAAAAATGCCACCATATATGAACCCTATTATGACATTTGAATAAAAATGCCAATAAAGTACTAC
1 GAAAAAATGCCACCATAGATGAACCCTATTACAACATTTGAATAAAAATGCC-ATAAAGTACTAC
*
2394642 TATATTGCGGCGTTTGTT
65 TATATTACGGCGTTTGTT
*
2394660 GAAAAAACGCCACCATAGATGAAC
1 GAAAAAATGCCACCATAGATGAAC
2394684 ACTCTTACGG
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.02
81 3 0.03
82 3 0.03
83 54 0.59
84 29 0.32
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (82 bp):
GAAAAAATGCCACCATAGATGAACCCTATTACAACATTTGAATAAAAATGCCATAAAGTACTACT
ATATTACGGCGTTTGTT
Found at i:2394810 original size:135 final size:135
Alignment explanation
Indices: 2394568--2394818 Score: 314
Period size: 135 Copynumber: 1.9 Consensus size: 135
2394558 TTATATTACG
**
2394568 GCGTTTGTTGAAAAAATGCCACCATATATGAACCCTATTATGACATTTGAATAAAAATGCCAATA
1 GCGTTTGTTGAAAAAATGCCACCATATATGAACCCTATTATGACATTTGAATAAAAACACCAATA
* *
2394633 AAGTACTACTATATTGCGGCGTTTGTTGAAAAAACGCCACCATAGATGAACACTCTTACGGCGTT
66 AAGTACTACTATATTACAGCGTTTGTTGAAAAAACGCCACCATAGATGAACACTCTTACGGCGTT
2394698 TTTAT
131 TTTAT
* *
2394703 GCGTTTGTT-AAAAAA-G-CACCACTATAGATGAACCTTATTATGAC-TTTTATATAAAAACACC
1 GCGTTTGTTGAAAAAATGCCACCA-TAT--ATGAACCCTATTATGACATTTGA-ATAAAAACACC
* * * * * *
2394764 ACTAATGTACTACTTTATTATAGCGTTT-TATTAAAAAATGCCACCATAGATGAAC
62 AATAAAGTACTACTATATTACAGCGTTTGT-TGAAAAAACGCCACCATAGATGAAC
2394819 CATATTATGA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
132 5 0.05
133 4 0.04
134 11 0.11
135 79 0.80
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (135 bp):
GCGTTTGTTGAAAAAATGCCACCATATATGAACCCTATTATGACATTTGAATAAAAACACCAATA
AAGTACTACTATATTACAGCGTTTGTTGAAAAAACGCCACCATAGATGAACACTCTTACGGCGTT
TTTAT
Found at i:2394907 original size:41 final size:41
Alignment explanation
Indices: 2394797--2394924 Score: 111
Period size: 41 Copynumber: 3.1 Consensus size: 41
2394787 CGTTTTATTA
*
2394797 AAAAATGCCACCATAGATGAACCATATTATGATGTTTGTAT
1 AAAAATGCCACCATAGATGAACCATATTACGATGTTTGTAT
* * * **
2394838 AAAAAT-ACAGC-TAACAT-ACTACTTTATTACGATGTTTGT-T
1 AAAAATGCCACCAT-AGATGA--ACCATATTACGATGTTTGTAT
* **
2394878 GAAAAATGCCACCATAGATGAACCCTATTACGACATTTGTAT
1 -AAAAATGCCACCATAGATGAACCATATTACGATGTTTGTAT
2394920 AAAAA
1 AAAAA
2394925 CACCGCTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
39 2 0.03
40 7 0.11
41 48 0.73
42 7 0.11
43 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (41 bp):
AAAAATGCCACCATAGATGAACCATATTACGATGTTTGTAT
Found at i:2394917 original size:82 final size:83
Alignment explanation
Indices: 2394721--2394933 Score: 245
Period size: 82 Copynumber: 2.6 Consensus size: 83
2394711 TAAAAAAGCA
* * * * **
2394721 CCACTATAGATGAACCTTATTATGACTTTTATATAAAAACACCA-CTAATGTACTACTTTATTAT
1 CCACCATAGATGAACCATATTATGACATTTGTATAAAAACA-CAGCTAACATACTACTTTATTAT
2394785 AGCGTTTTATTAAAAAATG
65 AGCGTTTTATTAAAAAATG
** *
2394804 CCACCATAGATGAACCATATTATGATGTTTGTATAAAAATACAGCTAACATACTACTTTA-T-TA
1 CCACCATAGATGAACCATATTATGACATTTGTATAAAAACACAGCTAACATACTACTTTATTATA
* *
2394867 -CGATGTTTGTTGAAAAATG
66 GCG-T-TTTATTAAAAAATG
* * *
2394886 CCACCATAGATGAACCCTATTACGACATTTGTATAAAAACACCGCTAA
1 CCACCATAGATGAACCATATTATGACATTTGTATAAAAACACAGCTAA
2394934 AGTTACCATT
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.02
81 3 0.03
82 57 0.51
83 49 0.44
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (83 bp):
CCACCATAGATGAACCATATTATGACATTTGTATAAAAACACAGCTAACATACTACTTTATTATA
GCGTTTTATTAAAAAATG
Found at i:2395925 original size:83 final size:82
Alignment explanation
Indices: 2395765--2396093 Score: 322
Period size: 83 Copynumber: 4.0 Consensus size: 82
2395755 AAAAAAGCCA
* * *
2395765 CTAAAGTACTACTCTATTGCGACGTTTATTG-AAAAATGCCACTATAGATGAACCCTATTGCAGC
1 CTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTATAGATGAA-CCTATTGCAGC
*
2395829 ATTTGCATAAAAAATGATG
65 ATTTGTATAAAAAA-GATG
* * *
2395848 CTAAACTACTACTCTATTACGGCGTTTGTTGAAAATATGCCACTATAGATGAATCCTATTTCAGC
1 CTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTATAGATGAA-CCTATTGCAGC
* **
2395913 ATTTGTATAAAAACGCCG
65 ATTTGTATAAAAAAGATG
* * * * *
2395931 CTAAAGTGCTGCTCTGA-TATGGCGTTTGTTGAAAAAATGCCATTATAGATGAACCTATTAC-GA
1 CTAAAGTACTACTCT-ATTACGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTGCAG-
* *
2395994 CGTTTGTATAAAAAAAATACCG
64 CATTTGTATAAAAAAGAT---G
** ** * * * * * *
2396016 CTAAAGTGTTGTTCTGTCATGGCGTTTGTTGAAAAAATGCCACTATGGATGAACCTATTGCGGCG
1 CTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTGCAGCA
2396081 TTTGTATAAAAAA
66 TTTGTATAAAAAA
2396094 TTCCACTAAA
Statistics
Matches: 208, Mismatches: 30, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
81 1 0.00
82 20 0.10
83 74 0.36
84 43 0.21
85 69 0.33
86 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (82 bp):
CTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTGCAGCA
TTTGTATAAAAAAGATG
Found at i:2396043 original size:85 final size:85
Alignment explanation
Indices: 2395787--2396093 Score: 292
Period size: 85 Copynumber: 3.7 Consensus size: 85
2395777 TCTATTGCGA
* * * * ** *
2395787 CGTTTATTG-AAAAATGCCACTATAGATGAACCCTATTGC-AGCATTTGCAT-AAAAAATGA-TG
1 CGTTTGTTGAAAAAATGCCACTATAGATGAA-CCTATTACGA-CGTTTGTATAAAAAAAACACCG
* * * *
2395848 CTAAACTACTACTCT-ATTACGG
64 CTAAAGTGCTGCTCTGA-TATGG
* * * *
2395870 CGTTTGTTGAAAATATGCCACTATAGATGAATCCTATTTC-AGCATTTGTAT---AAAAACGCCG
1 CGTTTGTTGAAAAAATGCCACTATAGATGAA-CCTATTACGA-CGTTTGTATAAAAAAAACACCG
2395931 CTAAAGTGCTGCTCTGATATGG
64 CTAAAGTGCTGCTCTGATATGG
* *
2395953 CGTTTGTTGAAAAAATGCCATTATAGATGAACCTATTACGACGTTTGTATAAAAAAAATACCGCT
1 CGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTACGACGTTTGTATAAAAAAAACACCGCT
* *
2396018 AAAGTGTTGTTCTG-TCATGG
66 AAAGTGCTGCTCTGAT-ATGG
* * *
2396038 CGTTTGTTGAAAAAATGCCACTATGGATGAACCTATTGCGGCGTTTGTATAAAAAA
1 CGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTACGACGTTTGTATAAAAAA
2396094 TTCCACTAAA
Statistics
Matches: 191, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
82 19 0.10
83 55 0.29
84 39 0.20
85 78 0.41
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (85 bp):
CGTTTGTTGAAAAAATGCCACTATAGATGAACCTATTACGACGTTTGTATAAAAAAAACACCGCT
AAAGTGCTGCTCTGATATGG
Found at i:2398108 original size:16 final size:16
Alignment explanation
Indices: 2398083--2398113 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2398073 TGAGTATAAT
*
2398083 AACAATATAATTTATA
1 AACAAAATAATTTATA
2398099 AACAAAATAATTTAT
1 AACAAAATAATTTAT
2398114 TTTTATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AACAAAATAATTTATA
Done.