Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 202 of 316
Found at i:65674272 original size:61 final size:61
Alignment explanation
Indices: 65674207--65674394 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
65674197 TTATAATTAA
65674207 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
65674268 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
65674327 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
65674388 AATATAT
1 AATATAT
65674395 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:65674320 original size:120 final size:120
Alignment explanation
Indices: 65674175--65674404 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
65674165 ATCATATTTA
65674175 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
65674240 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65674295 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
65674360 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
65674405 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:65674340 original size:14 final size:15
Alignment explanation
Indices: 65674291--65674342 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65674281 ATAAAATATA
65674291 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
65674306 TATTAAATATATTAT
1 AATTAAATATATTAT
65674321 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
65674334 AATTTAATA
1 AATTAAATA
65674343 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:65674393 original size:59 final size:59
Alignment explanation
Indices: 65674210--65674393 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
65674200 TAATTAAAAT
65674210 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
65674269 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
65674328 AT-
57 ATA
65674330 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
65674389 ATATA
1 ATATA
65674394 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:65679967 original size:23 final size:21
Alignment explanation
Indices: 65679924--65679967 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
65679914 TAAAACTAAT
* *
65679924 AATAATAAAAGGTTTACAATA
1 AATAATAAAAGATTTAAAATA
65679945 AATAATAAAAAGAATTTAAAATA
1 AATAAT-AAAAG-ATTTAAAATA
65679968 TTTAACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAATAAAAGATTTAAAATA
Found at i:65680032 original size:26 final size:25
Alignment explanation
Indices: 65679994--65680105 Score: 77
Period size: 27 Copynumber: 4.3 Consensus size: 25
65679984 GTATAACTAA
*
65679994 ATAACATAT-AAAAAATTTAAAATAG
1 ATAATATATAAAAAAATTTAAAA-AG
65680019 ATAATATATAAAAAAAGTTTAAAAA-
1 ATAATATATAAAAAAA-TTTAAAAAG
*
65680044 ATAA-ATGACGTAAAAAAATATTAAAAAA
1 ATAATAT-A--TAAAAAAAT-TTAAAAAG
* * * * *
65680072 AAAATATGTAAAACAGTTTAAAATG
1 ATAATATATAAAAAAATTTAAAAAG
65680097 ACTAATATA
1 A-TAATATA
65680106 GTAATATCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.03
25 20 0.29
26 20 0.29
27 22 0.32
28 3 0.04
29 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
ATAATATATAAAAAAATTTAAAAAG
Found at i:65680072 original size:14 final size:15
Alignment explanation
Indices: 65680055--65680084 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
65680045 TAAATGACGT
65680055 AAAAAAATAT-TAAA
1 AAAAAAATATGTAAA
65680069 AAAAAAATATGTAAA
1 AAAAAAATATGTAAA
65680084 A
1 A
65680085 CAGTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAAAAATATGTAAA
Found at i:65684748 original size:3 final size:3
Alignment explanation
Indices: 65684742--65684804 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
65684732 ATGGTGGTGG
* * * * * * *
65684742 TTA TTA TTA TTG TTA TTG TTA TTG TTA TTG TTG TTG TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65684790 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
65684805 CCTGAACATG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65684804 original size:12 final size:12
Alignment explanation
Indices: 65684741--65684800 Score: 75
Period size: 12 Copynumber: 5.0 Consensus size: 12
65684731 CATGGTGGTG
65684741 GTTATTATTATT
1 GTTATTATTATT
*
65684753 GTTATTGTTATT
1 GTTATTATTATT
* *
65684765 GTTATTGTTGTT
1 GTTATTATTATT
*
65684777 GTTGTTATTATT
1 GTTATTATTATT
*
65684789 ATTATTATTATT
1 GTTATTATTATT
65684801 ATTACCTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (12 bp):
GTTATTATTATT
Found at i:65690655 original size:18 final size:18
Alignment explanation
Indices: 65690629--65690697 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
65690619 CTGAATTTTT
65690629 TTTTA-CTTTTTTTTAAC
1 TTTTATCTTTTTTTTAAC
* *
65690646 TTTTGTCTTTTTCTTTAATT
1 TTTTATCTTTTT-TTTAA-C
* * *
65690666 TTTTTTCTTTCTTTTAAG
1 TTTTATCTTTTTTTTAAC
*
65690684 TTTTATATTTTTTT
1 TTTTATCTTTTTTT
65690698 CTTATTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.10
18 17 0.41
19 10 0.24
20 10 0.24
ACGTcount: A:0.13, C:0.09, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTATCTTTTTTTTAAC
Found at i:65690681 original size:19 final size:20
Alignment explanation
Indices: 65690625--65690687 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
65690615 GCTTCTGAAT
*
65690625 TTTTTTTTACTTTTTTTTAAC
1 TTTTTTTT-CTTTCTTTTAAC
*
65690646 TTTTGTCTT-TTTC-TTTAA-
1 TTTT-TTTTCTTTCTTTTAAC
*
65690664 TTTTTTTTCTTTCTTTTAAG
1 TTTTTTTTCTTTCTTTTAAC
65690684 TTTT
1 TTTT
65690688 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.09
18 8 0.23
19 10 0.29
20 7 0.20
21 4 0.11
22 3 0.09
ACGTcount: A:0.11, C:0.10, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCTTTCTTTTAAC
Found at i:65690752 original size:17 final size:17
Alignment explanation
Indices: 65690703--65690754 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
65690693 TTTTTCTTAT
* *
65690703 TTTATTTTGTTTATTTA
1 TTTATTTTATTTAATTA
*
65690720 TTTATTTTTATCTAATTA
1 TTTA-TTTTATTTAATTA
65690738 TTTATTTTATTTAATTA
1 TTTATTTTATTTAATTA
65690755 CTAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATTTTATTTAATTA
Found at i:65690823 original size:23 final size:22
Alignment explanation
Indices: 65690764--65690830 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 22
65690754 ACTAATTTAA
* * *
65690764 AAAAATTTAAA-ATGTATATTTG
1 AAAATTTTAAATAT-TATTTTTC
65690786 AAATATTTTATAATATATATTTTTC
1 AAA-ATTTTA-AATAT-TATTTTTC
65690811 AAAATTTTAAATATTATTTT
1 AAAATTTTAAATATTATTTT
65690831 AAAATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 9 0.24
23 10 0.26
24 8 0.21
25 11 0.29
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
AAAATTTTAAATATTATTTTTC
Found at i:65690831 original size:36 final size:35
Alignment explanation
Indices: 65690788--65690943 Score: 162
Period size: 36 Copynumber: 4.4 Consensus size: 35
65690778 TATATTTGAA
65690788 ATATTTTATAATATATATTTTTCA-AAATTTTAAATAT
1 ATATTTT-TAA-ATATATTTTT-ATAAATTTTAAATAT
* * *
65690825 -TATTTTAAAAT-TATTTTTTTAAATTTTCAATAT
1 ATATTTTTAAATATATTTTTATAAATTTTAAATAT
*
65690858 ATATTTTTGAAAT-TATTTCTTATAAATTTTAAAAAT
1 ATATTTTT-AAATATATTT-TTATAAATTTTAAATAT
65690894 ATATTTTTGAAACTAT-TTTTTATAAATTTTAAATAT
1 ATATTTTT-AAA-TATATTTTTATAAATTTTAAATAT
65690930 -TATTTTTTAAATAT
1 ATA-TTTTTAAATAT
65690944 TAAATATATT
Statistics
Matches: 104, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
33 19 0.18
34 11 0.11
35 16 0.15
36 53 0.51
37 4 0.04
38 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (35 bp):
ATATTTTTAAATATATTTTTATAAATTTTAAATAT
Found at i:65690840 original size:23 final size:25
Alignment explanation
Indices: 65690786--65690841 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
65690776 TGTATATTTG
*
65690786 AAATATTTTATAATATATATTTTTC
1 AAATATTTTATAATATATATTTTTA
65690811 AAA-ATTTTA-AATAT-TA-TTTTA
1 AAATATTTTATAATATATATTTTTA
65690832 AAATTATTTT
1 AAA-TATTTT
65690842 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.25
22 2 0.07
23 10 0.36
24 6 0.21
25 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATATTTTATAATATATATTTTTA
Found at i:65690871 original size:35 final size:34
Alignment explanation
Indices: 65690803--65690941 Score: 163
Period size: 36 Copynumber: 4.0 Consensus size: 34
65690793 TTATAATATA
** *
65690803 TATTTTTCAAAATTTTAAATATTA-TTTTAAAAT
1 TATTTTTTTAAATTTTAAATATTATTTTTGAAAT
*
65690836 TATTTTTTTAAATTTTCAATATATATTTTTGAAAT
1 TATTTTTTTAAATTTTAAATAT-TATTTTTGAAAT
* * *
65690871 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAC
1 TATTT-TTTTAAATTTTAAATAT-TATTTTTGAAAT
*
65690907 TATTTTTTATAAATTTTAAATATTATTTTTTAAAT
1 TATTTTTT-TAAATTTTAAATATTATTTTTGAAAT
65690942 ATTAAATATA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.21
34 2 0.02
35 25 0.28
36 44 0.49
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (34 bp):
TATTTTTTTAAATTTTAAATATTATTTTTGAAAT
Found at i:65690935 original size:21 final size:21
Alignment explanation
Indices: 65690898--65690955 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
65690888 AAAAATATAT
65690898 TTTTGAAACTATT-TTTTATAAA
1 TTTT-AAA-TATTATTTTATAAA
*
65690920 TTTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTATAAA
*
65690941 TATTAAATA-TATTTT
1 TTTTAAATATTATTTT
65690956 TAATAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.30
21 19 0.58
22 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATATTATTTTATAAA
Found at i:65690956 original size:21 final size:22
Alignment explanation
Indices: 65690907--65690965 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
65690897 TTTTTGAAAC
*
65690907 TATTTTTTATAAATTTTAAATA
1 TATTTTTTATAAATATTAAATA
65690929 T-TATTTTT-TAAATATTAAATA
1 TAT-TTTTTATAAATATTAAATA
*
65690950 TATTTTTAAT-AATATT
1 TATTTTTTATAAATATT
65690966 TAAACATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTTATAAATATTAAATA
Found at i:65690960 original size:18 final size:21
Alignment explanation
Indices: 65690910--65690974 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
65690900 TTGAAACTAT
*
65690910 TTTTTATAAATTTTAAATATTA
1 TTTTT-TAAATATTAAATATTA
65690932 TTTTTTAAATATTAAATA-TA
1 TTTTTTAAATATTAAATATTA
* *
65690952 TTTTTAATAATATTTAAACATTA
1 TTTTTTA-AATA-TTAAATATTA
65690975 AAATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.22
21 16 0.43
22 11 0.30
23 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTTAAATATTAAATATTA
Found at i:65690974 original size:29 final size:27
Alignment explanation
Indices: 65690935--65690993 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65690925 AATATTATTT
* * *
65690935 TTTAAATATTAAATATATTTTTAATAATA
1 TTTAAACATTAAA-AT-TTTTAAATAAAA
65690964 TTTAAACATTAAAATTTTTAAATAAAA
1 TTTAAACATTAAAATTTTTAAATAAAA
65690991 TTT
1 TTT
65690994 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAACATTAAAATTTTTAAATAAAA
Found at i:65690991 original size:13 final size:14
Alignment explanation
Indices: 65690973--65691007 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
65690963 ATTTAAACAT
65690973 TAAAATTTTTA-AA
1 TAAAATTTTTATAA
65690986 TAAAATTTTTATAA
1 TAAAATTTTTATAA
65691000 -AAAATTTT
1 TAAAATTTT
65691008 AAAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAAAATTTTTATAA
Found at i:65690996 original size:29 final size:29
Alignment explanation
Indices: 65690919--65690988 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
65690909 TTTTTTATAA
*
65690919 ATTTTAAATATTATTTTTTAAATATTAAATAT
1 ATTTTAAATA--A-TTTTTAAACATTAAATAT
* *
65690951 ATTTTTAATAATATTTAAACATTAAA-AT
1 ATTTTAAATAATTTTTAAACATTAAATAT
65690979 -TTTTAAATAA
1 ATTTTAAATAA
65690989 AATTTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 9 0.26
28 2 0.06
29 13 0.38
30 1 0.03
32 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTTAAATAATTTTTAAACATTAAATAT
Found at i:65691104 original size:12 final size:13
Alignment explanation
Indices: 65691084--65691121 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
65691074 ATTTTAAAGA
*
65691084 TATTTAAAATTTT
1 TATTTAAAAATTT
65691097 TA-TTAAAAATTT
1 TATTTAAAAATTT
65691109 TATTTAAAAATTT
1 TATTTAAAAATTT
65691122 CAAATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAAAAATTT
Found at i:65691255 original size:23 final size:22
Alignment explanation
Indices: 65691214--65691277 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
65691204 TTTCATATTA
*
65691214 TTAAAAAAT-ATATTT-AATTT
1 TTAAAAAATAATATTTAAAATT
65691234 TTAAAAAATAATATTTAAAATT
1 TTAAAAAATAATATTTAAAATT
65691256 TTAAAAAATATATATTATAAAA
1 TTAAAAAATA-ATATT-TAAAA
65691278 AATTTCAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 9 0.23
21 6 0.15
22 14 0.36
23 5 0.13
24 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAAATAATATTTAAAATT
Found at i:65691329 original size:9 final size:9
Alignment explanation
Indices: 65691304--65691348 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
65691294 TTCAAATTTT
*
65691304 TAAAATTAA
1 TAAAATAAA
65691313 TAACAATAAA
1 TAA-AATAAA
65691323 TAAAATAAA
1 TAAAATAAA
65691332 T-AAATAAA
1 TAAAATAAA
*
65691340 CAAAATAAA
1 TAAAATAAA
65691349 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:65691395 original size:19 final size:19
Alignment explanation
Indices: 65691369--65691423 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
65691359 TATAAAACTT
65691369 AAAAAAAGAAAAAAATTAA
1 AAAAAAAGAAAAAAATTAA
* * *
65691388 AGAAAAAGACAAAAGTTAA
1 AAAAAAAGAAAAAAATTAA
65691407 AAAAAAAGTAAAAAAAT
1 AAAAAAAG-AAAAAAAT
65691424 AAGAAGCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAAAAAGAAAAAAATTAA
Found at i:65692224 original size:23 final size:24
Alignment explanation
Indices: 65692190--65692243 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
65692180 CCCTACTGTT
* *
65692190 AGTCACCACCATCTGACGTCCACC-
1 AGTCA-CACCATCCGACGTACACCA
65692214 AGTCACACCATCCGACGTACACCA
1 AGTCACACCATCCGACGTACACCA
65692238 AGTCAC
1 AGTCAC
65692244 CATCATCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.30, C:0.43, G:0.13, T:0.15
Consensus pattern (24 bp):
AGTCACACCATCCGACGTACACCA
Found at i:65692677 original size:1 final size:1
Alignment explanation
Indices: 65692671--65692696 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
65692661 AACTTTGAAA
65692671 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
65692697 CAGACACTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:65694313 original size:40 final size:40
Alignment explanation
Indices: 65694010--65694299 Score: 474
Period size: 40 Copynumber: 7.3 Consensus size: 40
65694000 TCCTCGTTCA
* * * ** *
65694010 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65694049 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65694089 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65694129 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65694169 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65694209 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
65694249 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
65694289 AAGGCCTTCGG
1 AATGCCTTCGG
65694300 ATCTTAGTCC
Statistics
Matches: 239, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 33 0.14
40 206 0.86
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:65694361 original size:41 final size:41
Alignment explanation
Indices: 65694284--65694361 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65694274 TTAGTATCTC
* * *
65694284 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65694325 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65694362 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65700725 original size:1 final size:1
Alignment explanation
Indices: 65700719--65700745 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
65700709 AACTTTGAAA
65700719 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
65700746 CAGACACTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:65712335 original size:40 final size:40
Alignment explanation
Indices: 65712032--65712321 Score: 474
Period size: 40 Copynumber: 7.3 Consensus size: 40
65712022 TCCTCGTTCA
* * * ** *
65712032 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65712071 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65712111 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65712151 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65712191 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
65712231 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
65712271 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
65712311 AAGGCCTTCGG
1 AATGCCTTCGG
65712322 ATCTTAGTCC
Statistics
Matches: 239, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 33 0.14
40 206 0.86
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:65712383 original size:41 final size:41
Alignment explanation
Indices: 65712306--65712383 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65712296 TTAGTATCTC
* * *
65712306 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65712347 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65712384 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65716860 original size:42 final size:42
Alignment explanation
Indices: 65716754--65716861 Score: 108
Period size: 42 Copynumber: 2.6 Consensus size: 42
65716744 ACATTGATAT
* * ** * * *
65716754 CATATCCCATATATGGTCTTATACGAATTCTCATTTCGACGC
1 CATATCCCAGATATGGTCTTACATAAAATCTCATATCAACGC
* ** *
65716796 CATGTCCCAGACGTGGTCTTACATAAAATCTCATATCAACTC
1 CATATCCCAGATATGGTCTTACATAAAATCTCATATCAACGC
*
65716838 CATATCCCAGATATGGTTTTACAT
1 CATATCCCAGATATGGTCTTACAT
65716862 GATAACTCAT
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATAAAATCTCATATCAACGC
Found at i:65738590 original size:43 final size:43
Alignment explanation
Indices: 65738542--65738628 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
65738532 CATGGCCACG
65738542 ACCACCTCGAATGGTTCTAGGGAATTCATCGTAAACATGTGTT
1 ACCACCTCGAATGGTTCTAGGGAATTCATCGTAAACATGTGTT
65738585 ACCACCTCGAATGGTTCTAGGGAATTCATCGTAAACATGTGTT
1 ACCACCTCGAATGGTTCTAGGGAATTCATCGTAAACATGTGTT
65738628 A
1 A
65738629 TACTAATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
ACCACCTCGAATGGTTCTAGGGAATTCATCGTAAACATGTGTT
Found at i:65744896 original size:49 final size:47
Alignment explanation
Indices: 65744738--65744956 Score: 146
Period size: 47 Copynumber: 4.6 Consensus size: 47
65744728 TTTGTGTGCT
* ** * * *
65744738 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGACTTGATCGATGAGCC
* * *
65744782 AGTGTAAGACCATATCTGGGACATGGCATCTGCACGAATATG-T-GA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATAGCATC-G-AC---T-TGATCGATGAGCC
* * * * *
65744832 AATGTAAGACCATGTCTGGGACATAGCGTCGGCCTTGGTTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATC-GACTT-G-ATCGATGAGCC
* * *
65744881 AGTGTAAGACAATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGACTTGATCGATGAGCC
*
65744928 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATAGCAT
65744957 TGGCATTATA
Statistics
Matches: 136, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
44 9 0.07
45 14 0.10
46 11 0.08
47 33 0.24
48 6 0.04
49 31 0.23
50 29 0.21
51 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGACTTGATCGATGAGCC
Found at i:65747585 original size:29 final size:29
Alignment explanation
Indices: 65747551--65747624 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65747541 TCATCAACCA
*
65747551 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
65747580 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
65747609 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
65747625 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:65755641 original size:29 final size:29
Alignment explanation
Indices: 65755607--65755680 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65755597 TCATCAACCA
*
65755607 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
65755636 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
65755665 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
65755681 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:65757424 original size:21 final size:20
Alignment explanation
Indices: 65757400--65757439 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
65757390 ATGTTGAAAT
*
65757400 TCCACAGGGGCGTGTTGCCTA
1 TCCACACGGGCGTG-TGCCTA
65757421 TCCACACGGGCGTGTGCCT
1 TCCACACGGGCGTGTGCCT
65757440 TGTTTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.23
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCTA
Found at i:65769778 original size:30 final size:30
Alignment explanation
Indices: 65769744--65769804 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
65769734 TTCCCGAGCC
65769744 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
65769774 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
65769804 T
1 T
65769805 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:65778390 original size:13 final size:13
Alignment explanation
Indices: 65778372--65778396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65778362 TGTGGGTGTA
65778372 CACAGCCGTGTCG
1 CACAGCCGTGTCG
65778385 CACAGCCGTGTC
1 CACAGCCGTGTC
65778397 TGACGTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACAGCCGTGTCG
Found at i:65783814 original size:92 final size:91
Alignment explanation
Indices: 65783694--65783880 Score: 347
Period size: 92 Copynumber: 2.0 Consensus size: 91
65783684 ACAAGTATGC
*
65783694 ACACACATTACCTATTATATCAATTTCTCAATCCACTTCTCGACATTCATTAAATGTAATTTCAC
1 ACACACATTACCTATTATATCAACTTCTCAATCCACTTCTCGACATTCATTAAATGT-ATTTCAC
65783759 AACAAAGCAACAGTATAAGAAAGGCTT
65 AACAAAGCAACAGTATAAGAAAGGCTT
65783786 ACACACATTACCTATTATATCAACTTCTCAATCCACTTCTCGACATTCATTAAATGTATTTCACA
1 ACACACATTACCTATTATATCAACTTCTCAATCCACTTCTCGACATTCATTAAATGTATTTCACA
*
65783851 ACAAAGCAATAGTATAAGAAAGGCTT
66 ACAAAGCAACAGTATAAGAAAGGCTT
65783877 ACAC
1 ACAC
65783881 TCGGAACATA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 37 0.40
92 56 0.60
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (91 bp):
ACACACATTACCTATTATATCAACTTCTCAATCCACTTCTCGACATTCATTAAATGTATTTCACA
ACAAAGCAACAGTATAAGAAAGGCTT
Found at i:65787215 original size:28 final size:27
Alignment explanation
Indices: 65787151--65787302 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
65787141 TTATTAAGTC
* *
65787151 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
65787178 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
65787206 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
65787233 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
65787261 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
65787288 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65787303 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65787235 original size:55 final size:55
Alignment explanation
Indices: 65787151--65787327 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
65787141 TTATTAAGTC
* * *
65787151 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
65787206 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
65787261 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
65787317 CGCACACTTAG
1 CGCACACTTAG
65787328 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:65812301 original size:40 final size:40
Alignment explanation
Indices: 65812210--65812379 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
65812200 TCCTCGTTCA
* * * * *
65812210 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65812249 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65812289 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
65812329 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65812369 AAGGCCTTCGG
1 AATGCCTTCGG
65812380 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65820149 original size:40 final size:40
Alignment explanation
Indices: 65820058--65820227 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
65820048 TCCTCGTTCA
* * * * *
65820058 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65820097 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65820137 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
65820177 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65820217 AAGGCCTTCGG
1 AATGCCTTCGG
65820228 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65827990 original size:40 final size:40
Alignment explanation
Indices: 65827899--65828067 Score: 198
Period size: 39 Copynumber: 4.3 Consensus size: 40
65827889 TCCTCGTTCA
* * * * *
65827899 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65827938 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65827978 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
65828018 AATGCC-TCGGGACTTAACCCAGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65828057 AAGGCCTTCGG
1 AATGCCTTCGG
65828068 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 65 0.59
40 46 0.41
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65828000 original size:79 final size:79
Alignment explanation
Indices: 65827897--65828067 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 79
65827887 GCTCCTCGTT
* * * * *
65827897 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCC-TCGGGACGTAACCCAG
65827961 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * * *
65827976 CGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTCGGGACTTAACCCAGA
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCTCGGGACGTAACCCAGA
** *
65828041 TTTAGTATCTCGCA
66 TTTAACAACTCGCA
*
65828055 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
65828068 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 72 0.94
80 5 0.06
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCTCGGGACGTAACCCAGA
TTTAACAACTCGCA
Found at i:65841201 original size:28 final size:27
Alignment explanation
Indices: 65841137--65841288 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
65841127 TTATTAAGTC
* *
65841137 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
65841164 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
65841192 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
65841219 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
65841247 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
65841274 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65841289 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65841221 original size:55 final size:55
Alignment explanation
Indices: 65841137--65841313 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
65841127 TTATTAAGTC
* * *
65841137 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
65841192 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
65841247 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
65841303 CGCACACTTAG
1 CGCACACTTAG
65841314 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:65847880 original size:23 final size:23
Alignment explanation
Indices: 65847850--65847894 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
65847840 GACCATAATA
65847850 AGTATAAATAACAACTCATTTCG
1 AGTATAAATAACAACTCATTTCG
65847873 AGTATAAATAACAACTCATTTC
1 AGTATAAATAACAACTCATTTC
65847895 ATATCTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (23 bp):
AGTATAAATAACAACTCATTTCG
Found at i:65857103 original size:16 final size:15
Alignment explanation
Indices: 65857078--65857107 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65857068 TGAGATATTT
65857078 TTCCATTTTTTTTGG
1 TTCCATTTTTTTTGG
65857093 TTCCAATTTTTTTTG
1 TTCC-ATTTTTTTTG
65857108 TTGGGGAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (15 bp):
TTCCATTTTTTTTGG
Found at i:65861888 original size:43 final size:42
Alignment explanation
Indices: 65861795--65861945 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 42
65861785 GATTACCGAG
* * * *
65861795 ATATGATTACATGTAAGACCATGTCTAAGACATTGGCATTGA
1 ATATGATTACATGTAAGACCATGTCTAGGACATTTGCATCGT
* * *
65861837 ATTGTGATTACGTGTAAGACCATGTCTTGGACATTTGCATCGTT
1 A-TATGATTACATGTAAGACCATGTCTAGGACATTTGCATCG-T
*** * * * *
65861881 ATATGATTTTGTTTAAGACCCTGTCTGGGACA-GTGACATCGAT
1 ATATGATTACATGTAAGACCATGTCTAGGACATTTG-CATCG-T
* *
65861924 ATGTGATAACATGTAAGACCAT
1 ATATGATTACATGTAAGACCAT
65861946 ATCTGGGATA
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
42 3 0.04
43 80 0.95
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (42 bp):
ATATGATTACATGTAAGACCATGTCTAGGACATTTGCATCGT
Found at i:65863860 original size:25 final size:25
Alignment explanation
Indices: 65863749--65863866 Score: 109
Period size: 25 Copynumber: 4.7 Consensus size: 25
65863739 CATAAACATG
** *
65863749 TATGCTCATACAAGCTATGAATC-A
1 TATGCTCATATGAGCTATAAATCGA
* *
65863773 GTATGCTCACT-CGAGCTATAGATCGA
1 -TATGCTCA-TATGAGCTATAAATCGA
* *
65863799 TATGCTCTTACGAGCTATAAATCTG-
1 TATGCTCATATGAGCTATAAATC-GA
65863824 TATGCTCATATGAGCTATAAATCGA
1 TATGCTCATATGAGCTATAAATCGA
65863849 TATGCTTC-TATGAGCTAT
1 TATGC-TCATATGAGCTAT
65863867 GGGTCAGAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
24 2 0.03
25 73 0.91
26 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
TATGCTCATATGAGCTATAAATCGA
Found at i:65863866 original size:50 final size:50
Alignment explanation
Indices: 65863749--65863854 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
65863739 CATAAACATG
* * * *
65863749 TATGCTCATACAAGCTATGAATCAGTATGCTCACTCGAGCTATAGATCGA
1 TATGCTCTTACGAGCTATAAATCAGTATGCTCACTCGAGCTATAAATCGA
* *
65863799 TATGCTCTTACGAGCTATAAATCTGTATGCTCA-TATGAGCTATAAATCGA
1 TATGCTCTTACGAGCTATAAATCAGTATGCTCACT-CGAGCTATAAATCGA
65863849 TATGCT
1 TATGCT
65863855 TCTATGAGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (50 bp):
TATGCTCTTACGAGCTATAAATCAGTATGCTCACTCGAGCTATAAATCGA
Found at i:65869000 original size:19 final size:19
Alignment explanation
Indices: 65868976--65869015 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
65868966 ATTAATTTTG
65868976 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
65868995 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
65869014 AT
1 AT
65869016 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:65869437 original size:37 final size:36
Alignment explanation
Indices: 65869384--65869499 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 36
65869374 ATTCCAAAAA
*
65869384 TAATATTAT-TTTATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
65869419 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
* *
65869456 TAAAATGATTATCTTAATA-TTAAAT-TTAATTTAATGT
1 T--AAT-ATTATCTTAATAGTTTAATATTAATTTAATAT
*
65869493 TTATATT
1 TAATATT
65869500 GTAGGTAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
34 3 0.04
35 7 0.10
36 12 0.18
37 26 0.39
38 4 0.06
39 14 0.21
40 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:65871723 original size:45 final size:44
Alignment explanation
Indices: 65871584--65871796 Score: 146
Period size: 45 Copynumber: 4.7 Consensus size: 44
65871574 AGGAAATGAT
* * *
65871584 TAAGACCATAGTTGAAAGACACTATGGCA-C-CATACCAAAAACGAG
1 TAAGACCATA-TTGAAAGACACTATGGCATCACAAATC--AAACGAA
* * *** * * * * *
65871629 TAAGAACATAGCTGAAAGATGTTATGGCATCACGATTCTATCGAG
1 TAAGACCATA-TTGAAAGACACTATGGCATCACAAATCAAACGAA
65871674 TAAGACCATATCTGAAAGACACTATGGCATCACAAATCAAACGAA
1 TAAGACCATAT-TGAAAGACACTATGGCATCACAAATCAAACGAA
* * * *
65871719 TAAGACTATAGTTGAAAGACATTATGGCAACATGACAAA--AAATGAA
1 TAAGACCATA-TTGAAAGACACTATGG---CATCACAAATCAAACGAA
*
65871765 TAAGACCATGGTTGAAAGACACTATGGCATCA
1 TAAGACCAT-ATTGAAAGACACTATGGCATCA
65871797 AGTCGAGAAT
Statistics
Matches: 131, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
43 4 0.03
45 86 0.66
46 31 0.24
47 2 0.02
48 8 0.06
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (44 bp):
TAAGACCATATTGAAAGACACTATGGCATCACAAATCAAACGAA
Found at i:65871737 original size:90 final size:89
Alignment explanation
Indices: 65871584--65871747 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 89
65871574 AGGAAATGAT
* * *
65871584 TAAGACCATAGTTGAAAGACACTATGGCACCATACCAAAAACGAGTAAGAACATAGCTGAAAGAT
1 TAAGACCATAGTTGAAAGACACTATGGCACCAAACC-AAAACGAATAAGAACATAGCTGAAAGAC
*
65871649 GTTATGGCATCACGATTCTATCGAG
65 ATTATGGCATCACGATTCTATCGAG
* *
65871674 TAAGACCATA-TCTGAAAGACACTATGGCATCACAAATC-AAACGAATAAG-ACTATAGTTGAAA
1 TAAGACCATAGT-TGAAAGACACTATGGCA-C-CAAACCAAAACGAATAAGAAC-ATAGCTGAAA
65871736 GACATTATGGCA
62 GACATTATGGCA
65871748 ACATGACAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
89 3 0.05
90 56 0.88
91 1 0.02
92 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (89 bp):
TAAGACCATAGTTGAAAGACACTATGGCACCAAACCAAAACGAATAAGAACATAGCTGAAAGACA
TTATGGCATCACGATTCTATCGAG
Found at i:65871825 original size:45 final size:43
Alignment explanation
Indices: 65871686--65871840 Score: 148
Period size: 45 Copynumber: 3.4 Consensus size: 43
65871676 AGACCATATC
* * * *
65871686 TGAAAGACACTATGGCATCACAAATCAAACGAATAAGACTATAGT
1 TGAAAGACACTATGGCAT--CAAGTCAAATGAATAAGACCATGGT
* * * *
65871731 TGAAAGACATTATGGCAACATGACAAAAAATGAATAAGACCATGGT
1 TGAAAGACACTATGGCATCAAGTC---AAATGAATAAGACCATGGT
*
65871777 TGAAAGACACTATGGCATCAAGTCGAGAATAAATAAGACCATGGT
1 TGAAAGACACTATGGCATCAAGTC-A-AATGAATAAGACCATGGT
* *
65871822 TGAAAGACACCATGACATC
1 TGAAAGACACTATGGCATC
65871841 CTCCACTCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 50 0.56
46 36 0.40
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (43 bp):
TGAAAGACACTATGGCATCAAGTCAAATGAATAAGACCATGGT
Found at i:65875020 original size:41 final size:41
Alignment explanation
Indices: 65874954--65875049 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
65874944 CTGTTACATT
* *
65874954 GTGCATAGCAGGCTTCGTACAGGTGTATTATATCAGGCTTC
1 GTGCATAGTAGGCTTCGTACAGGTGTATCATATCAGGCTTC
* * * * *
65874995 GTGCTTAGTAGGCTTCGTGCTGGTGTGTCATATCAGGCTTT
1 GTGCATAGTAGGCTTCGTACAGGTGTATCATATCAGGCTTC
* *
65875036 GAGCCTAGTAGGCT
1 GTGCATAGTAGGCT
65875050 ATGTGCCAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (41 bp):
GTGCATAGTAGGCTTCGTACAGGTGTATCATATCAGGCTTC
Found at i:65877183 original size:25 final size:25
Alignment explanation
Indices: 65877155--65877209 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
65877145 TTTGGCCTCT
65877155 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATGGTTCTTG
65877180 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATGGTTCTTG
65877205 CGAGC
1 CGAGC
65877210 ATCCGTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.36
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATGGTTCTTG
Found at i:65880640 original size:25 final size:25
Alignment explanation
Indices: 65880525--65880642 Score: 132
Period size: 25 Copynumber: 4.8 Consensus size: 25
65880515 GGGCTCTTCA
* *
65880525 GAGCTACCCATTAT-TGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* **
65880549 GAGCTTCCTGTT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
65880573 GAGCTTCCCGTTATATAGCCCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
65880598 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
65880623 GAGCTTCCCGTTATATGGCT
1 GAGCTTCCCGTTATATGGCT
65880643 TAAGAGAGAG
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
23 1 0.01
24 28 0.37
25 46 0.61
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:65882121 original size:40 final size:40
Alignment explanation
Indices: 65882066--65882141 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
65882056 GGAGTGTTAC
* *
65882066 ATTTATTGGTATCAGAGCTATAGTTTAGCTGATTCTTCAT
1 ATTTATTGGTATCAGAGCTACAGTTTAGCCGATTCTTCAT
65882106 ATTTATTGGTATCAGAGCTACAGTTTAGCCGATTCT
1 ATTTATTGGTATCAGAGCTACAGTTTAGCCGATTCT
65882142 CGTACTAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (40 bp):
ATTTATTGGTATCAGAGCTACAGTTTAGCCGATTCTTCAT
Found at i:65889542 original size:25 final size:25
Alignment explanation
Indices: 65889514--65889593 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 25
65889504 CTTATGAGTG
65889514 TCCCG-TTATATGGCTCTTCAGAGCT
1 TCCCGATTA-ATGGCTCTTCAGAGCT
* **
65889539 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTC-TTCAGAGCT
* * *
65889565 TCCTGATTAATGGCTTTTCGGAGCT
1 TCCCGATTAATGGCTCTTCAGAGCT
65889590 TCCC
1 TCCC
65889594 AATATGGCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 21 0.48
26 23 0.52
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCAGAGCT
Found at i:65889661 original size:25 final size:25
Alignment explanation
Indices: 65889523--65889715 Score: 98
Period size: 25 Copynumber: 7.8 Consensus size: 25
65889513 GTCCCGTTAT
* *
65889523 ATGGCTCTTCAGAGCTTCCCGATTA
1 ATGGCTCTTTAGAGCTTCCTGATTA
* *
65889548 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTT-AGAGCTTCCTGATTA
* * *
65889574 ATGGCT-TTTCGGAGCTTCC-CAAT-
1 ATGGCTCTTT-AGAGCTTCCTGATTA
* *
65889597 ATGGCTCGCTT-GAACTTCCTGA-TA
1 ATGGCTC-TTTAGAGCTTCCTGATTA
* * * *
65889621 TATGGCTATCTGGAGCTTTCTGATTA
1 -ATGGCTCTTTAGAGCTTCCTGATTA
* *
65889647 ATGGCTCTTTAGAGCTACCCG-TTA
1 ATGGCTCTTTAGAGCTTCCTGATTA
* **
65889671 TTGGCTC-ACACGAGCTTCCTGATT-
1 ATGGCTCTTTA-GAGCTTCCTGATTA
*
65889695 ATTGCTC-TTATGAGCTTCCTG
1 ATGGCTCTTTA-GAGCTTCCTG
65889716 TTATACAGCC
Statistics
Matches: 125, Mismatches: 33, Indels: 21
0.70 0.18 0.12
Matches are distributed among these distances:
23 15 0.12
24 37 0.30
25 53 0.42
26 20 0.16
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTTAGAGCTTCCTGATTA
Found at i:65889701 original size:24 final size:24
Alignment explanation
Indices: 65889658--65889719 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
65889648 TGGCTCTTTA
* *
65889658 GAGCTACCCGTTATTGGCTCACAC
1 GAGCTTCCTGTTATTGGCTCACAC
** *
65889682 GAGCTTCCTGATTATT-GCTCTTAT
1 GAGCTTCCTG-TTATTGGCTCACAC
65889706 GAGCTTCCTGTTAT
1 GAGCTTCCTGTTAT
65889720 ACAGCCCGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 4 0.12
24 23 0.72
25 5 0.16
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (24 bp):
GAGCTTCCTGTTATTGGCTCACAC
Found at i:65902926 original size:40 final size:40
Alignment explanation
Indices: 65902871--65903179 Score: 537
Period size: 40 Copynumber: 7.7 Consensus size: 40
65902861 TGAGCATTGG
65902871 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65902911 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65902951 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65902991 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
65903031 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65903071 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
65903111 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65903151 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
65903180 ATGTGTTTGC
Statistics
Matches: 257, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:65911447 original size:40 final size:40
Alignment explanation
Indices: 65911392--65911699 Score: 526
Period size: 40 Copynumber: 7.7 Consensus size: 40
65911382 TGAGCATTGG
65911392 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65911432 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
65911472 AATATATCCGGGCTAAGACCCGAATGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65911512 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
65911552 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65911592 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
65911632 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65911672 GATATGTCCGGGTTAAGACCCGAAGGCA
1 AATATATCCGGGCTAAGACCCGAAGGCA
65911700 CATGTGTTTG
Statistics
Matches: 254, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:65932600 original size:40 final size:40
Alignment explanation
Indices: 65932556--65932778 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
65932546 GCTCCTCGTT
*
65932556 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
65932596 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
65932636 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
65932676 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
65932715 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
65932756 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
65932779 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:65932740 original size:79 final size:80
Alignment explanation
Indices: 65932556--65932779 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
65932546 GCTCCTCGTT
* * *
65932556 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
65932620 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
65932636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
65932700 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
65932715 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
65932776 CGGA
63 CGGA
65932780 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:65936249 original size:44 final size:43
Alignment explanation
Indices: 65936193--65936280 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
65936183 ACTCAATTGA
* * **
65936193 AGGGTGGTTACATCAAAGACATTTCCAACCACAATGTTTGAAAG
1 AGGGTGGTTACATC-AAGACATTGCCAAACACAACATTTGAAAG
*
65936237 AGGGTGGTTACATCAAGGCATTGCCAAACACAACATTTGAAAG
1 AGGGTGGTTACATCAAGACATTGCCAAACACAACATTTGAAAG
65936280 A
1 A
65936281 CTAGTATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 25 0.64
44 14 0.36
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (43 bp):
AGGGTGGTTACATCAAGACATTGCCAAACACAACATTTGAAAG
Found at i:65936865 original size:19 final size:21
Alignment explanation
Indices: 65936813--65936872 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
65936803 TTATTGTGAA
**
65936813 TATAA-AAAATTATTTTTACAT
1 TATAATAAAATTAAATTTA-AT
65936834 TATAATAAAATTAAATTTAAT
1 TATAATAAAATTAAATTTAAT
*
65936855 TAT-AT-AAATTAAAATTAA
1 TATAATAAAATTAAATTTAA
65936873 AATTTTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 10 0.29
22 11 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATAAAATTAAATTTAAT
Found at i:65941960 original size:16 final size:16
Alignment explanation
Indices: 65941939--65942006 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
65941929 TTTGGTTCGC
65941939 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
65941955 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
65941971 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65941987 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65942003 TGTA
1 TGTA
65942007 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65942330 original size:157 final size:157
Alignment explanation
Indices: 65942129--65942445 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
65942119 TAGAATACCC
*
65942129 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
65942194 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATCTATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
65942259 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
65942286 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
65942351 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
65942416 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
65942443 TTA
1 TTA
65942446 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:65942416 original size:16 final size:16
Alignment explanation
Indices: 65942379--65942420 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65942369 TTAATCATAT
*
65942379 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
65942395 TT-AAATATATTATAA
1 TTAAAATATATTATAA
65942410 TTAAAATATAT
1 TTAAAATATAT
65942421 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:65942427 original size:14 final size:15
Alignment explanation
Indices: 65942388--65942429 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65942378 TTTAAACATA
*
65942388 ATTATTATTAAATAT
1 ATTATAATTAAATAT
65942403 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
65942417 A-TATAATTTAATA
1 ATTATAATTAAATA
65942430 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:65942505 original size:107 final size:109
Alignment explanation
Indices: 65942377--65942592 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
65942367 ATTTAATCAT
65942377 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
65942442 ATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
65942485 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
65942549 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
65942593 CTATAAAATA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 97 0.92
108 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (109 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
Found at i:65942525 original size:16 final size:16
Alignment explanation
Indices: 65942482--65942527 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
65942472 CATAATATAG
*
65942482 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
65942498 ATTATT-AAATATATT
1 ATAATTAAAATATATT
65942513 ATAATTAAAATATAT
1 ATAATTAAAATATAT
65942528 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:65942534 original size:14 final size:15
Alignment explanation
Indices: 65942482--65942536 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
65942472 CATAATATAG
65942482 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
65942498 ATTATTAAATATATT
1 ATAATTAAATATATT
65942513 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
65942526 ATAATTTAATA
1 ATAATTAAATA
65942537 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:65942585 original size:37 final size:35
Alignment explanation
Indices: 65942416--65942585 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
65942406 ATAATTAAAA
*
65942416 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
65942453 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
65942489 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
65942523 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
65942560 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
65942586 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:65942915 original size:120 final size:120
Alignment explanation
Indices: 65942780--65943082 Score: 554
Period size: 120 Copynumber: 2.5 Consensus size: 120
65942770 TAGAAAAAAA
** *
65942780 CTTAATATTAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACTATAAAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
*
65942845 TTAACATAATTATTATTAAATATAATTTAA-AAAATATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAA-ATATATAATTTAATAAAATT
65942900 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
65942965 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
65943020 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
65943083 GATTAATAAT
Statistics
Matches: 178, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 174 0.98
121 4 0.02
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
Found at i:65942928 original size:38 final size:37
Alignment explanation
Indices: 65942881--65943064 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
65942871 TTAAAAAATA
*
65942881 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
65942918 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
65942957 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
65943001 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
65943038 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
65943065 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:65946877 original size:20 final size:21
Alignment explanation
Indices: 65946832--65946878 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
65946822 GGTTGATCCT
65946832 AAATTTATTATAAAAAATATA
1 AAATTTATTATAAAAAATATA
* * *
65946853 TAATTTA-TATAAATAATTTA
1 AAATTTATTATAAAAAATATA
65946873 AAATTT
1 AAATTT
65946879 TTACTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTTATTATAAAAAATATA
Found at i:65952173 original size:30 final size:29
Alignment explanation
Indices: 65952130--65952190 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
65952120 CAAGTAGCCG
65952130 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
65952159 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
65952189 AA
1 AA
65952191 ACTTCCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:65964288 original size:14 final size:14
Alignment explanation
Indices: 65964252--65964295 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
65964242 TTACAATATA
65964252 TATATGTTATAATAAT
1 TATATG-TAT-ATAAT
* *
65964268 AAAATGTATATAAT
1 TATATGTATATAAT
65964282 TATATGTATATAAT
1 TATATGTATATAAT
65964296 ATAAGTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TATATGTATATAAT
Found at i:65967236 original size:23 final size:23
Alignment explanation
Indices: 65967208--65967255 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
65967198 AAATGCTACT
65967208 AAACTTGGGTCACGATGTTAATA
1 AAACTTGGGTCACGATGTTAATA
65967231 AAACTTGGGTCACGATGTTAATA
1 AAACTTGGGTCACGATGTTAATA
65967254 AA
1 AA
65967256 TGATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (23 bp):
AAACTTGGGTCACGATGTTAATA
Found at i:65974882 original size:14 final size:14
Alignment explanation
Indices: 65974846--65974889 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
65974836 GTACAATATA
65974846 TATATGTTATAATAAT
1 TATATG-TAT-ATAAT
* *
65974862 AAAATGTATATAAT
1 TATATGTATATAAT
65974876 TATATGTATATAAT
1 TATATGTATATAAT
65974890 ATAAGTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TATATGTATATAAT
Found at i:65975087 original size:45 final size:45
Alignment explanation
Indices: 65975036--65975127 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
65975026 AATAAGCCTC
65975036 AGTGCTCTTATAATATCACCATAGCCAATTATAAACAAAAGAAGA
1 AGTGCTCTTATAATATCACCATAGCCAATTATAAACAAAAGAAGA
*
65975081 AGTGCTCTTATAATATCACCATAGCCAATTATAATCAAAAGAAGA
1 AGTGCTCTTATAATATCACCATAGCCAATTATAAACAAAAGAAGA
65975126 AG
1 AG
65975128 AAAATAGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (45 bp):
AGTGCTCTTATAATATCACCATAGCCAATTATAAACAAAAGAAGA
Found at i:65975934 original size:20 final size:20
Alignment explanation
Indices: 65975909--65975948 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
65975899 AGTGTGCGAT
65975909 AGGTTACAAGGAATTGGCAC
1 AGGTTACAAGGAATTGGCAC
65975929 AGGTTACAAGGAATTGGCAC
1 AGGTTACAAGGAATTGGCAC
65975949 TGAGTGTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (20 bp):
AGGTTACAAGGAATTGGCAC
Found at i:65982339 original size:42 final size:43
Alignment explanation
Indices: 65982179--65982375 Score: 299
Period size: 43 Copynumber: 4.6 Consensus size: 43
65982169 TCGAGCCTTT
65982179 GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
* **
65982222 GAGCCTAGTAGGCTATAATGCCGGTGAGTTAATATTGGGCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
*
65982265 GAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCAGGCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
* *
65982308 GAGCCTAGCAGGC-GTAATGCCGGTGAGTTAATATCAGGCTTT
1 GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
* * *
65982350 GAGCCTAGAAGGC-GTAATACCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
65982376 ATGAGTTCAG
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 50 0.35
43 92 0.65
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTC
Found at i:65986139 original size:27 final size:27
Alignment explanation
Indices: 65986109--65986286 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65986099 ATATTGAGTC
* * * *
65986109 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65986136 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65986163 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65986191 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65986218 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65986245 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65986272 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65986287 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65986248 original size:82 final size:81
Alignment explanation
Indices: 65986130--65986285 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65986120 TGCTATATAA
* *
65986130 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65986195 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65986212 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65986276 CACTTAGTGC
65 CACTTAGTGC
65986286 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65994310 original size:27 final size:27
Alignment explanation
Indices: 65994280--65994457 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65994270 ATATTGAGTC
* * * *
65994280 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65994307 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65994334 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65994362 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65994389 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65994416 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65994443 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65994458 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65994419 original size:82 final size:81
Alignment explanation
Indices: 65994301--65994456 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65994291 TGCTATATAA
* *
65994301 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65994366 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65994383 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65994447 CACTTAGTGC
65 CACTTAGTGC
65994457 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66003059 original size:28 final size:28
Alignment explanation
Indices: 66003021--66003202 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
66003011 TAAATTGTAC
*
66003021 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
66003049 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
66003077 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
66003105 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
66003133 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
66003161 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
66003188 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66003203 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:66012425 original size:28 final size:27
Alignment explanation
Indices: 66012393--66012494 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 27
66012383 TCAAGCTTTA
*
66012393 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATTAAT
* *
66012421 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTAT--TA--AT
66012453 ACTGGGCCTAGCCCATATCAGTATTAAT
1 -CTGGGCCTAGCCCATATCAGTATTAAT
66012481 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
66012495 TATACAAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 8 0.13
28 27 0.45
30 2 0.03
32 15 0.25
33 8 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATTAAT
Found at i:66012465 original size:60 final size:59
Alignment explanation
Indices: 66012391--66012531 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
66012381 GTTCAAGCTT
66012391 TACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTATC-AGAGTA
1 TACTGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAG-CCCTATACAAG--TCGAGA-TA
* *
66012452 TACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATACAAGTCGAGATA
1 TACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATA
* *
66012511 TATTGGGCCTTGCCCATATCA
1 TACTGGGCCTAGCCCATATCA
66012532 GCACAGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
59 27 0.37
60 35 0.48
61 11 0.15
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (59 bp):
TACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATA
Found at i:66012895 original size:26 final size:26
Alignment explanation
Indices: 66012847--66012896 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
66012837 TCAAAATTAA
* * * *
66012847 CCCTAGGGGTATAATGGTCATTTTGC
1 CCCTAGGGGCAAAATGCTAATTTTGC
66012873 CCCTAGGGGCAAAATGCTAATTTT
1 CCCTAGGGGCAAAATGCTAATTTT
66012897 CATACTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (26 bp):
CCCTAGGGGCAAAATGCTAATTTTGC
Found at i:66013924 original size:43 final size:45
Alignment explanation
Indices: 66013822--66013924 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 45
66013812 GCCCTAGATG
* * *
66013822 TGGTCTTACATG-AA-AACATATAACGATGCCAATGTCCCTGACA
1 TGGTCTTACATGTAATCACATATAACAATGCCAATGTCCCAGACA
**
66013865 TGGTCTTACACATAATCACA-AT-ACAATGCCAATGTCCCAGACA
1 TGGTCTTACATGTAATCACATATAACAATGCCAATGTCCCAGACA
66013908 TGGTCTTACATGTAATC
1 TGGTCTTACATGTAATC
66013925 CCATCTCGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
43 44 0.86
44 4 0.08
45 3 0.06
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
TGGTCTTACATGTAATCACATATAACAATGCCAATGTCCCAGACA
Found at i:66015255 original size:19 final size:19
Alignment explanation
Indices: 66015231--66015269 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
66015221 GATTTTCACA
66015231 TAGTCTCTTCAATCTTGTG
1 TAGTCTCTTCAATCTTGTG
66015250 TAGTCTCTTCAATCTTGTG
1 TAGTCTCTTCAATCTTGTG
66015269 T
1 T
66015270 TGATACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (19 bp):
TAGTCTCTTCAATCTTGTG
Found at i:66018262 original size:53 final size:53
Alignment explanation
Indices: 66018080--66018285 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
66018070 ATTAGGGTTT
* * ** *
66018080 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TCCATAAGGC
* * * * * * * *
66018134 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-CCATAAGGC
* * * *
66018189 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTCCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTCCATAAGGC
* * *
66018242 AAGGATATCACGTAAGACCATGTCAAGACATGGCAATGGTAAGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGT
66018286 TTAAAAAGGA
Statistics
Matches: 118, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 45 0.38
54 33 0.28
55 40 0.34
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTCCATAAGGC
Found at i:66019502 original size:37 final size:37
Alignment explanation
Indices: 66019396--66019504 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
66019386 AGCTCAGATG
* * *
66019396 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
66019433 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
66019470 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
66019505 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:66019705 original size:48 final size:48
Alignment explanation
Indices: 66019651--66019785 Score: 243
Period size: 48 Copynumber: 2.8 Consensus size: 48
66019641 GCACATCGCC
66019651 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
66019699 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
66019747 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
66019786 TGCATGTTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:66019827 original size:22 final size:22
Alignment explanation
Indices: 66019801--66019876 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
66019791 GTTCATATTC
66019801 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
66019823 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
66019847 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
66019870 ATCACAT
1 ATCACAT
66019877 ACATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:66019834 original size:47 final size:47
Alignment explanation
Indices: 66019755--66019948 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
66019745 CATACATATT
* * * *
66019755 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
66019802 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
66019849 TCACATTGGCCATTCGGCCTTATCACATACATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
66019896 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
66019943 TCACAT
1 TCACAT
66019949 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:66019883 original size:94 final size:93
Alignment explanation
Indices: 66019715--66019948 Score: 301
Period size: 94 Copynumber: 2.5 Consensus size: 93
66019705 TTTCACACTA
* * *
66019715 GCCATTCGGCTTTA-CCACATATGCATGTCTCATACATAT-TTCACATTAGCCATTCGGCTTTAC
1 GCCATTCGGCCTTATCCACATATGCATG-CTC--ACAT-TCATCACATTAGCCATTCGGCCTTAC
* *
66019778 CACATATATGCATGTTCATATTCATCACATTG
62 CACATACATGCATGTTCACATTCATCACATTG
* *
66019810 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATC-CACATATGCATGCTCACATTCATCACATTAGCCATTCGGCCTTACCAC
66019875 ATACATGCATGTTCACATTCATCACATTG
65 ATACATGCATGTTCACATTCATCACATTG
* ***
66019904 GCCATTCGGCCTTATCTCATATATGCACATTCACATTCATCACAT
1 GCCATTCGGCCTTATC-CACATATGCATGCTCACATTCATCACAT
66019949 AAAATCCTAA
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
93 1 0.01
94 94 0.76
95 13 0.10
96 4 0.03
97 12 0.10
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (93 bp):
GCCATTCGGCCTTATCCACATATGCATGCTCACATTCATCACATTAGCCATTCGGCCTTACCACA
TACATGCATGTTCACATTCATCACATTG
Found at i:66019949 original size:25 final size:25
Alignment explanation
Indices: 66019870--66019949 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
66019860 ATTCGGCCTT
* **
66019870 ATCACATACATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
66019895 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
66019917 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
66019942 ATCACATA
1 ATCACATA
66019950 AAATCCTAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
22 9 0.23
23 6 0.15
24 5 0.13
25 19 0.49
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:66023422 original size:16 final size:16
Alignment explanation
Indices: 66023396--66023428 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
66023386 TGAATGTGAG
66023396 AAAATTAAAATGTTTTT
1 AAAATTAAAAT-TTTTT
66023413 AAAATT-AAATTTTTT
1 AAAATTAAAATTTTTT
66023428 A
1 A
66023429 TGCCCCGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAATTAAAATTTTTT
Found at i:66025711 original size:26 final size:24
Alignment explanation
Indices: 66025674--66025723 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
66025664 TAACTCATAA
66025674 ATTTAACATTCA-CAAATTAGTCCCT
1 ATTTAACATTCATCAAA--AGTCCCT
*
66025699 ATTTCACATTTCATCAAAAGTCCCT
1 ATTTAACA-TTCATCAAAAGTCCCT
66025724 TAACAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 14 0.64
26 4 0.18
27 4 0.18
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (24 bp):
ATTTAACATTCATCAAAAGTCCCT
Found at i:66028713 original size:16 final size:16
Alignment explanation
Indices: 66028692--66028723 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
66028682 ATACCAAAAT
66028692 GACCATATTCTATACA
1 GACCATATTCTATACA
66028708 GACCATATTCTATACA
1 GACCATATTCTATACA
66028724 TCATTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
GACCATATTCTATACA
Found at i:66029307 original size:43 final size:42
Alignment explanation
Indices: 66029251--66029405 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
66029241 CAATGCCATA
* * *
66029251 TCCCAGATATGGTC-TAGCATGTTATCATATATCATTACCAATG
1 TCCCAGACATGGTCTTA-CACGTAATCATATATCA-TACCAATG
* * * * *
66029294 TCCCAGACGTGGTCTTACACGAAAACATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATATC-ATACCAATG
* *
66029337 TCCCAGACTTGGTCTTACACATAATCATA-ATACAATACCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATAT-C-ATACCAATG
*
66029380 TCCCAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
66029406 CCATCTCGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 87 0.96
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCATATATCATACCAATG
Found at i:66030371 original size:61 final size:61
Alignment explanation
Indices: 66030295--66030433 Score: 217
Period size: 61 Copynumber: 2.3 Consensus size: 61
66030285 AACCAGAATG
** *
66030295 AGAATCAGAATCAGAATCAGTATTAGTAA-CAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAGAATCAGAATTACGTGAC
*
66030356 AGAATCAGAATCAGAATCGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
*
66030417 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
66030434 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 2 0.03
61 70 0.97
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (61 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
Found at i:66030427 original size:6 final size:6
Alignment explanation
Indices: 66030274--66030408 Score: 132
Period size: 6 Copynumber: 22.3 Consensus size: 6
66030264 AAGAAACATG
** * * * *
66030274 ATCAGA ATTGGA ACCAGA ATGAGA ATCAGA ATCAGA ATCAGT ATTAGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A
* *
66030323 A-CAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
66030371 ATCGGTA A-CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
66030409 TACGTGACAG
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
5 5 0.05
6 93 0.89
7 5 0.05
8 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:66030616 original size:27 final size:27
Alignment explanation
Indices: 66030551--66030608 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
66030541 AGCATGGCTG
* * *
66030551 CCAGA-ACAGATATCGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
66030577 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
66030604 CCAGA
1 CCAGA
66030609 ATTAGATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:66033566 original size:50 final size:49
Alignment explanation
Indices: 66033491--66033780 Score: 232
Period size: 50 Copynumber: 6.0 Consensus size: 49
66033481 TGATGCTAGG
* * * * *
66033491 GAGATATTAAAGCTAGTGTAAGACCATGCCTAGGACATGGCATTGGCCT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * *
66033540 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGTCATTGG-CT
1 -GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * *
66033589 -TGATATGTG-TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CT
* * * * *
66033636 GATAGATGAGAGCTAGCGTAAGACCATGTCTAGGACATGGCATCAGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-T
* * * * *
66033686 GATATACGAAAG-TCAATGTAAGACCATGTCTGGGACATGGCATC-GACT
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * * ** *
66033734 TTGATGTGTGAGCCAGTGTAAGACCATGTCCAGGACATGGCGTCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
66033781 ACCTTACCCT
Statistics
Matches: 189, Mismatches: 42, Indels: 19
0.76 0.17 0.08
Matches are distributed among these distances:
45 28 0.15
46 1 0.01
47 9 0.05
48 37 0.20
49 8 0.04
50 106 0.56
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:66033672 original size:95 final size:97
Alignment explanation
Indices: 66033505--66033774 Score: 289
Period size: 95 Copynumber: 2.8 Consensus size: 97
66033495 TATTAAAGCT
* * * * * *
66033505 AGTGTAAGACCATGCCTAGGACATGGCATTGGCCTCGAGATATGAGAGCTAGTGTAAGACCATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GATAGATGAGAGCTAGTGTAAGACCATGT
* * * * *
66033570 CTGGGACATGTCAT-TGGCTTGATAT-G-TGTC
65 CTAGGACATGGCATCAGCCTTGATATAGAAGTC
* *
66033600 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGCGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGATAGATGAGAGCTAGTGTAAGACCATGT
66033665 CTAGGACATGGCATCAGCCTTGATATACGAAAGTC
65 CTAGGACATGGCATCAGCCTTGATATA-G-AAGTC
* * * * *
66033700 AATGTAAGACCATGTCTGGGACATGGCATCGACTTTGAT-G-TGTGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGATAGATGAGAGCTAGTGTAAGACCATGT
*
66033763 CCAGGACATGGC
65 CTAGGACATGGC
66033775 GTCGGCACCT
Statistics
Matches: 147, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
95 66 0.45
96 11 0.07
98 32 0.22
99 1 0.01
100 37 0.25
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATAGATGAGAGCTAGTGTAAGACCATGTC
TAGGACATGGCATCAGCCTTGATATAGAAGTC
Found at i:66043559 original size:28 final size:28
Alignment explanation
Indices: 66043518--66043677 Score: 146
Period size: 28 Copynumber: 5.7 Consensus size: 28
66043508 TCTCAAAGTT
* * *
66043518 TCGCACACTCAGTGCCTTCAC-GGATGTA
1 TCGCACACTAAGTGCCATC-CTGGATGTC
66043546 TCGCACACTAAGTGCCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATGTC
*
66043574 TCGCACACTAAGTACCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATGTC
* * ** *
66043602 TTGCACACTAAGTGCCATCTTCAATAAT-
1 TCGCACACTAAGTGCCATCCTGGAT-GTC
* * * * *
66043630 TTGCACACTAAGT-CTATTTCTGGATATT
1 TCGCACACTAAGTGCCA-TCCTGGATGTC
66043658 TCGCACACTAAGTGCCATCC
1 TCGCACACTAAGTGCCATCC
66043678 CCAATAATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
27 5 0.05
28 101 0.93
29 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTGGATGTC
Found at i:66043636 original size:56 final size:56
Alignment explanation
Indices: 66043546--66043698 Score: 168
Period size: 56 Copynumber: 2.7 Consensus size: 56
66043536 CACGGATGTA
*** * *
66043546 TCGCACACTAAGTGCCATCCTGGAT-GTCTCGCACACTAAGTACCA-TCCTGGATGTCT
1 TCGCACACTAAGTGCCATCCCCAATAAT-TCGCACACTAAGT-CCATTCCTGGATAT-T
** * * *
66043603 T-GCACACTAAGTGCCATCTTCAATAATTTGCACACTAAGTCTATTTCTGGATATT
1 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGTCCATTCCTGGATATT
66043658 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGT
1 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGT
66043699 GCCTTTTTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
55 4 0.05
56 76 0.93
57 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGTCCATTCCTGGATATT
Found at i:66043688 original size:28 final size:28
Alignment explanation
Indices: 66043546--66043701 Score: 120
Period size: 28 Copynumber: 5.6 Consensus size: 28
66043536 CACGGATGTA
** *
66043546 TCGCACACTAAGTGCCATCCTGGAT-GT
1 TCGCACACTAAGTGCCATCCTCAATAAT
* ** *
66043573 CTCGCACACTAAGTACCATCCTGGAT-GT
1 -TCGCACACTAAGTGCCATCCTCAATAAT
* *
66043601 CTTGCACACTAAGTGCCATCTTCAATAAT
1 -TCGCACACTAAGTGCCATCCTCAATAAT
* * * ** *
66043630 TTGCACACTAAGT-CTATTTCTGGATATT
1 TCGCACACTAAGTGCCA-TCCTCAATAAT
*
66043658 TCGCACACTAAGTGCCATCCCCAATAAT
1 TCGCACACTAAGTGCCATCCTCAATAAT
66043686 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
66043702 TTTTTCACAA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 2 0.02
28 100 0.95
29 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTCAATAAT
Done.