Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009221.1 Hibiscus syriacus cultivar Beakdansim tig00112812_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: 265395
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:6884 original size:24 final size:24
Alignment explanation
Indices: 6833--6884 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
6823 ATAAAACATA
* * * * *
6833 AATAATGATGATGATGATGATGAT
1 AATAATAATGATGACGACGACGAC
6857 AATAATAATGATGACGACGACGAC
1 AATAATAATGATGACGACGACGAC
6881 AATA
1 AATA
6885 TGAGAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
AATAATAATGATGACGACGACGAC
Found at i:10931 original size:16 final size:17
Alignment explanation
Indices: 10910--10951 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10900 TAAAAATATT
*
10910 AAAATATAT-TTTTATC
1 AAAATATATATTTGATC
*
10926 AAAATAT-TATTTGATT
1 AAAATATATATTTGATC
10942 AAAATATATA
1 AAAATATATA
10952 AAGAACATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 19 0.86
17 2 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATATATATTTGATC
Found at i:14276 original size:17 final size:17
Alignment explanation
Indices: 14254--14286 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14244 CTGAGAGAGT
14254 TTTGGT-TTTGTCTTGTG
1 TTTGGTGTTTGT-TTGTG
14271 TTTGGTGTTTGTTTGT
1 TTTGGTGTTTGTTTGT
14287 TTGTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.03, G:0.30, T:0.67
Consensus pattern (17 bp):
TTTGGTGTTTGTTTGTG
Found at i:20964 original size:15 final size:16
Alignment explanation
Indices: 20944--20974 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20934 AACAGCAAAA
20944 TACATAG-TGCAACAG
1 TACATAGCTGCAACAG
20959 TACATAGCTGCAACAG
1 TACATAGCTGCAACAG
20975 GCGGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (16 bp):
TACATAGCTGCAACAG
Found at i:24934 original size:6 final size:6
Alignment explanation
Indices: 24915--24946 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
24905 CCGTCTCGTC
*
24915 TCGTGG TCGGGG TCGTGG TCGTGG TCGTGG TC
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TC
24947 ATACGTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.50, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:25048 original size:19 final size:19
Alignment explanation
Indices: 25024--25093 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
25014 TTTTTTAACT
25024 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* * **
25043 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG--AA-TTTGGAAA
*
25065 ATCGCAACAAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
25084 ATCGCAACGA
1 ATCGCAACGA
25094 CAACTGTAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 22 0.58
20 2 0.05
21 2 0.05
22 12 0.32
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:25067 original size:41 final size:41
Alignment explanation
Indices: 25021--25134 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
25011 TCTTTTTTTA
25021 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
25062 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
25103 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG
1 ACTATCGCAA--CGAATTTGGAAAATCGCAACG
25135 CGATTTTCAA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 50 0.74
42 15 0.22
43 3 0.04
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:25071 original size:22 final size:22
Alignment explanation
Indices: 25043--25114 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
25033 AATTTGGAAA
25043 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
25065 ATCGCAAC-A-AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
25084 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
25106 ATCGCAACG
1 ATCGCAACG
25115 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 12 0.31
20 3 0.08
21 3 0.08
22 21 0.54
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:37191 original size:33 final size:33
Alignment explanation
Indices: 37154--37218 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
37144 TTTTTATCAT
*
37154 AAGTTAATTTAATTTAA-AAAAAATGATTTTTAA
1 AAGTTAATTTAATTCAATAAAAAAT-ATTTTTAA
* *
37187 AAGTTATTTTCATTCAATTAAAAAATATTTTT
1 AAGTTAATTTAATTCAA-TAAAAAATATTTTT
37219 TTAGATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 14 0.52
34 6 0.22
35 7 0.26
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (33 bp):
AAGTTAATTTAATTCAATAAAAAATATTTTTAA
Found at i:39986 original size:42 final size:42
Alignment explanation
Indices: 39927--40046 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
39917 TTTCCCCGAA
*
39927 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
39969 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
40011 TTTCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
40047 TGTAATTCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:40282 original size:22 final size:23
Alignment explanation
Indices: 40235--40295 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
40225 TAATTATTAA
* *
40235 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
40256 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
40279 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
40296 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:40302 original size:26 final size:26
Alignment explanation
Indices: 40218--40302 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 26
40208 CATTTTCATC
* *
40218 AAAATATTA-ATTATTAA-AATATTT
1 AAAATATTATATTATTAATATTATAT
40242 AAAATA-TAT-TTATTAATATTTATAAT
1 AAAATATTATATTATTAATA-TTAT-AT
*
40268 AATATAATATTATATTTTTAATATTATAT
1 -A-A-AATATTATATTATTAATATTATAT
40297 AAAATA
1 AAAATA
40303 ATCAATTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
23 9 0.18
24 7 0.14
25 3 0.06
26 5 0.10
27 2 0.04
28 2 0.04
29 6 0.12
30 7 0.14
31 8 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAATATTATATTATTAATATTATAT
Found at i:40366 original size:42 final size:42
Alignment explanation
Indices: 40317--40411 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
40307 ATTATATTAT
* * *
40317 AACAAACATGGAAAAACGTTTTCTGAAAAACGAATTACGTGA
1 AACAAACACGGAAAAACATTTTCCGAAAAACGAATTACGTGA
* * *
40359 AACAAACACGGGAAAATATTTTCCGGAAAACGAATTACGTGA
1 AACAAACACGGAAAAACATTTTCCGAAAAACGAATTACGTGA
40401 AACAAACACGG
1 AACAAACACGG
40412 GAATTCGGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (42 bp):
AACAAACACGGAAAAACATTTTCCGAAAAACGAATTACGTGA
Found at i:41113 original size:39 final size:40
Alignment explanation
Indices: 41056--41137 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
41046 ATTCATAAAT
*
41056 TCTATTTTTTTTATTAGTAAGAGTAATTATAAGGTTAATG
1 TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
41096 TCTA-TTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
1 TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
41135 TCT
1 TCT
41138 GTTTAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (40 bp):
TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
Found at i:41359 original size:42 final size:42
Alignment explanation
Indices: 41300--41419 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
41290 TTTCCCCGAA
*
41300 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
41342 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
41384 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
41420 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:41642 original size:30 final size:29
Alignment explanation
Indices: 41600--41701 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 29
41590 CAAAATATTA
*
41600 ATTATTAAAATAT-TTAAAATATTTATTAAT
1 ATTA-TAAAATATAATAAAATATTT-TTAAT
**
41630 ATTATAATAATATAATATTATATTTTTAAT
1 ATTATAA-AATATAATAAAATATTTTTAAT
* * *
41660 ATTATATAAA-ATAATCAATTATATTATAAT
1 ATTATA-AAATATAATAAAATAT-TTTTAAT
* *
41690 AATATAAGATAT
1 ATTATAAAATAT
41702 TATATTTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
29 13 0.23
30 35 0.61
31 9 0.16
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTATAAAATATAATAAAATATTTTTAAT
Found at i:41643 original size:8 final size:8
Alignment explanation
Indices: 41593--41665 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
41583 TTTTCATCAA
41593 AATATTA-
1 AATATTAT
* *
41600 ATTATTAA
1 AATATTAT
*
41608 AATATTTAA
1 AATA-TTAT
41617 AATATTTATT
1 AATA-TTA-T
41627 AATATTAT
1 AATATTAT
*
41635 AATAATAT
1 AATATTAT
41643 AATATTAT
1 AATATTAT
*
41651 -AT-TTTT
1 AATATTAT
41657 AATATTAT
1 AATATTAT
41665 A
1 A
41666 TAAAATAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
6 3 0.06
7 10 0.19
8 22 0.41
9 15 0.28
10 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
AATATTAT
Found at i:41672 original size:52 final size:53
Alignment explanation
Indices: 41614--41759 Score: 151
Period size: 52 Copynumber: 2.7 Consensus size: 53
41604 TTAAAATATT
41614 TAAAAT-ATTTATTAATATTATAATAAT-ATAATATTATATTTTTAATATTATA
1 TAAAATAATTTATTAATATTATAATAATAATAATATTATATTTTTAATATTA-A
** *
41666 TAAAATAATCAATT-ATATTATAATAAT-ATAAGATATTATATTTTT-ATTTTAA
1 TAAAATAATTTATTAATATTATAATAATAAT-A-ATATTATATTTTTAATATTAA
*
41718 TAATATATAATTTTTTATATATT-TAATAATGAATAATATTAT
1 TAA-A-ATAATTTATTA-ATATTATAATAAT-AATAATATTAT
41760 TTATATATTT
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
52 25 0.32
53 12 0.15
54 20 0.25
55 14 0.18
56 6 0.08
57 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (53 bp):
TAAAATAATTTATTAATATTATAATAATAATAATATTATATTTTTAATATTAA
Found at i:41681 original size:31 final size:31
Alignment explanation
Indices: 41618--41694 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
41608 AATATTTAAA
*
41618 ATATTTATTAATATTATAATAATATAATATT
1 ATATTTATTAATATTATAATAAAATAATATT
41649 ATATTT-TTAATATTAT-ATAAAATAATCAATT
1 ATATTTATTAATATTATAATAAAATAAT--ATT
*
41680 ATATTATAATAATAT
1 ATATT-TATTAATAT
41695 AAGATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 9 0.22
30 10 0.25
31 14 0.35
32 1 0.03
33 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATATTTATTAATATTATAATAAAATAATATT
Found at i:41742 original size:26 final size:27
Alignment explanation
Indices: 41693--41778 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 27
41683 TTATAATAAT
* *
41693 ATAAGATATTATA-TTTT-TAT-TTTA
1 ATAATATATAATATTTTTATATATTTA
41717 ATAATATATAAT-TTTTTATATATTTA
1 ATAATATATAATATTTTTATATATTTA
41743 ATAATGA-ATAATATTATTTATATATTTCA
1 ATAAT-ATATAATATT-TTTATATATTT-A
41772 ATAATAT
1 ATAATAT
41779 TTAGTAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
24 14 0.27
25 3 0.06
26 14 0.27
27 3 0.06
28 12 0.23
29 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (27 bp):
ATAATATATAATATTTTTATATATTTA
Found at i:41923 original size:20 final size:20
Alignment explanation
Indices: 41895--41944 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
41885 CAAACATCAT
41895 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
41915 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
41935 TTTTCCAGAA
1 TTTTCCAGAA
41945 TTCAAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:41952 original size:20 final size:20
Alignment explanation
Indices: 41895--41953 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
41885 CAAACATCAT
**
41895 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
* **
41915 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
41935 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
41954 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:41963 original size:15 final size:15
Alignment explanation
Indices: 41927--42038 Score: 163
Period size: 15 Copynumber: 7.5 Consensus size: 15
41917 TTACAGAAAT
**
41927 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
41942 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
41956 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
**
41971 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
**
41986 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
42001 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
42016 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
42031 GTAATTCA
1 GTAATTCA
42039 TTTTCTGGAA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
14 12 0.13
15 78 0.87
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:42005 original size:45 final size:45
Alignment explanation
Indices: 41927--42043 Score: 191
Period size: 45 Copynumber: 2.6 Consensus size: 45
41917 TTACAGAAAT
**
41927 GTAATTCATTTTCCAG-AATTCAAATTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCATTTTCCAGTAATTCAAATTCCA
41971 GTAATTCATTTTCCAGTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCATTTTCCAGTAATTCAAATTCCA
**
42016 GTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCATTTTCCAGTAATTCATTTTC
42044 TGGAAAACCA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
44 16 0.24
45 52 0.76
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (45 bp):
GTAATTCATTTTCCAGTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:49684 original size:2 final size:2
Alignment explanation
Indices: 49677--49707 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49667 TTATCTCGAG
49677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49708 GTCGTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50693 original size:2 final size:2
Alignment explanation
Indices: 50686--50759 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
50676 AATAAAAATA
50686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50760 GTTTGATCTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52717 original size:31 final size:31
Alignment explanation
Indices: 52674--52733 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
52664 AAATGATCTC
*
52674 TAATGTTATCGGTCCGTTCGATTTTAGTCCA
1 TAATATTATCGGTCCGTTCGATTTTAGTCCA
52705 TAATATTATCGGTCCGTTCGATTTTAGTC
1 TAATATTATCGGTCCGTTCGATTTTAGTC
52734 TCTCAACCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (31 bp):
TAATATTATCGGTCCGTTCGATTTTAGTCCA
Found at i:56264 original size:32 final size:33
Alignment explanation
Indices: 56224--56606 Score: 464
Period size: 32 Copynumber: 11.9 Consensus size: 33
56214 ACATAGGTAA
* * *
56224 CTGTCCATATGGCCCAAAAGACATAGGCAAT-T
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* *
56256 CTGTCCATATGTCCCGAAAGACATAGTTACTAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* *
56289 -TGTCCATATGTCTCGAAAGACATAGGTACTAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
56321 -TGTCCATATGTCCCGAAAGACATAGGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
56352 CTGTCCATATATCCCGAAAGACATAGGTAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* * *
56385 -TATCCATATGTCCCGAAAGACATAAGTTATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* ** *
56416 CTATCCATATGTCCTAAAAGATATAGGTAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
56449 -TGTCCATATGTCCCGAAAGACATAGGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* * *
56480 CTGTTCATATGTCCCGAAAGATATAGATAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
56513 -TGTCCATATGTCCCGAAAGACATACGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
56544 CTGTCCATATGTCCCGAAAGACATAGGTAAAAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* * * *
56577 TTATCCATATGTCTC-AAAGAACATCGGTAA
1 CTGTCCATATGTCCCGAAAG-ACATAGGTAA
56607 CCATCGACTC
Statistics
Matches: 305, Mismatches: 36, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
32 283 0.93
33 22 0.07
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (33 bp):
CTGTCCATATGTCCCGAAAGACATAGGTAATAT
Found at i:56308 original size:64 final size:64
Alignment explanation
Indices: 56214--56606 Score: 515
Period size: 64 Copynumber: 6.2 Consensus size: 64
56204 GTTCCTAAGA
* * *
56214 ACATAGGT-A-ACTGTCCATATGGCCCAAAAGACATAGGCAAT-TCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATAT-TGTCCATATGTCCCGAAAG
* * * * *
56276 ACATAGTTACTATTGTCCATATGTCTCGAAAGACATAGGTACTATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* *
56340 ACATAGGTAATACTGTCCATATATCCCGAAAGACATAGGTAATATTATCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * * ** *
56404 ACATAAGTTATACTATCCATATGTCCTAAAAGATATAGGTAATATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * *
56468 ACATAGGTAATACTGTTCATATGTCCCGAAAGATATAGATAATATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * * *
56532 ACATACGTAATACTGTCCATATGTCCCGAAAGACATAGGTAAAATTTATCCATATGTCTC-AAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATA-TTGTCCATATGTCCCGAAAG
*
56596 AACATCGGTAA
1 -ACATAGGTAA
56607 CCATCGACTC
Statistics
Matches: 287, Mismatches: 39, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
62 7 0.02
64 258 0.90
65 22 0.08
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (64 bp):
ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
Found at i:61222 original size:21 final size:22
Alignment explanation
Indices: 61182--61229 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
61172 ATTTCCAGAA
61182 TGCTACAGGGTTATCAATACCC
1 TGCTACAGGGTTATCAATACCC
* *
61204 TGCTACAGTG-TATCGATACCC
1 TGCTACAGGGTTATCAATACCC
61225 TGCTA
1 TGCTA
61230 TAGTATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (22 bp):
TGCTACAGGGTTATCAATACCC
Found at i:61944 original size:32 final size:32
Alignment explanation
Indices: 61868--62116 Score: 276
Period size: 32 Copynumber: 7.8 Consensus size: 32
61858 GAATGATCTA
* *
61868 TCCATATGTTCC-TAAGAACATAGGTAA--CTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTCTG
61898 TCCATATGTCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
* * * *
61930 TTCGTATGTTCCGAAAAACATAGGTAATAT-TG
1 TCCATATGTCCCGAAAGACATAGGTAAT-TCTG
* *
61962 TTCATATGTCCCGAAATACATAGGTAATAT-TG
1 TCCATATGTCCCGAAAGACATAGGTAAT-TCTG
* * *
61994 TCCATATGTCCCAAAAGACATAGATAATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
* * *
62026 TCTATATGTCCCGAAAGACACAAGTAA-TCATG
1 TCCATATGTCCCGAAAGACATAGGTAATTC-TG
* *
62058 TCCATATGTCCCGAAAGACATAGGCAATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
62090 TCCATATGTCCCGAAAGACATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
62117 CCCTCGACTC
Statistics
Matches: 186, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
30 21 0.11
31 4 0.02
32 159 0.85
33 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATTCTG
Found at i:71369 original size:5 final size:5
Alignment explanation
Indices: 71359--71384 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
71349 TGACTTAGAA
71359 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
71385 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:76635 original size:136 final size:136
Alignment explanation
Indices: 76387--76640 Score: 298
Period size: 136 Copynumber: 1.9 Consensus size: 136
76377 ATTTCTGTAT
* * * *
76387 ATCATGTTACATATCGTTTAATTTTTTTATAGAAACCGGAAATCGAGGCATGTGGGATGAAGTGT
1 ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCCATGTGGGATGAAGGGT
*** * * *
76452 TTGTCTGTATAAACTTGGTAACGGCAGTGAACTTAAGGATGTTGGAGGTATTTCTGGATTTGTAC
66 ACCTCTGCATAAACTTGGTAACGGCAGTGAACTTAAGAATGTGGGAGGTATTTCTGGATTTGTAC
76517 TTTTCC
131 TTTTCC
* * *
76523 ATCATGTTCCATATCGTTTAA-TTTTTGATAGAAACTGGAAATCAAGCCGATGTTGGATGAAGGG
1 ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCC-ATGTGGGATGAAGGG
*** * *
76587 TACCTCTGCA-AAACTTGGTCGTGGCAGTG-AGTGTAATAATGCTGGGAGGTATTT
65 TACCTCTGCATAAACTTGGTAACGGCAGTGAACT-TAAGAATG-TGGGAGGTATTT
76641 TTGGCTTTAC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
134 2 0.02
135 45 0.46
136 50 0.52
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (136 bp):
ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCCATGTGGGATGAAGGGT
ACCTCTGCATAAACTTGGTAACGGCAGTGAACTTAAGAATGTGGGAGGTATTTCTGGATTTGTAC
TTTTCC
Found at i:78235 original size:18 final size:19
Alignment explanation
Indices: 78195--78246 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
78185 AATGACCAAC
78195 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
78214 AAAATCGCAACGCGAAAT-
1 AAAATCGCAACGCGAAATA
78232 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
78247 TCCCCAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:78298 original size:21 final size:20
Alignment explanation
Indices: 78194--78369 Score: 90
Period size: 21 Copynumber: 8.8 Consensus size: 20
78184 AAATGACCAA
**
78194 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* **
78213 AAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
***
78232 -AAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
78251 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
78271 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
78292 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
78313 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
78333 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
78354 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
78370 ACACATAAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
18 15 0.12
19 19 0.16
20 41 0.34
21 47 0.39
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:78398 original size:20 final size:20
Alignment explanation
Indices: 78336--78489 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
78326 CGATTTTCCA
* ** *
78336 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
78356 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
78376 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
78396 AAATCACAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78416 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
78436 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
78456 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
78477 AAATCGCAACGCG
1 AAATCGCAACGCG
78490 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.02
20 90 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:78400 original size:40 final size:40
Alignment explanation
Indices: 78336--78490 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
78326 CGATTTTCCA
* ** *
78336 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * * *
78376 AAATCGCAACGCGTATCCGTAAATCACAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
78416 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
78456 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
78491 TATTTAAAGC
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 60 0.64
41 33 0.35
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:78909 original size:33 final size:33
Alignment explanation
Indices: 78870--78940 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
78860 TTCACTTAGA
*
78870 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
78903 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
78936 TTTCA
1 TTTCA
78941 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:79077 original size:19 final size:20
Alignment explanation
Indices: 79020--79094 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
79010 TGCAGAAGAG
* *
79020 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
79041 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
79061 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
79080 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
79095 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:79097 original size:14 final size:14
Alignment explanation
Indices: 79078--79134 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
79068 GCGAAATGAC
79078 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
79092 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
79111 AATCGCAACGAGAG
1 AATCGCAACGAGAG
79125 AATCGCAACG
1 AATCGCAACG
79135 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:79103 original size:33 final size:33
Alignment explanation
Indices: 79032--79150 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
79022 GCAACGAGAT
79032 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
79071 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
79104 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
79137 AAACCAAAATCGCA
1 AAATGAAAATCGCA
79151 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 54 0.71
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:79116 original size:19 final size:19
Alignment explanation
Indices: 79032--79120 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
79022 GCAACGAGAT
*
79032 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
79051 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
79071 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
79088 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
79104 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
79121 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.45
20 15 0.27
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:79168 original size:19 final size:19
Alignment explanation
Indices: 79146--79238 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
79136 GAAACCAAAA
*
79146 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79165 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
79179 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
***
79198 TCGCGTTGCGACAGTCATT
1 TCGCGTTGCGATTTTCATT
*
79217 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
79237 TC
1 TC
79239 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 3 0.05
19 28 0.48
20 15 0.26
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:79235 original size:20 final size:20
Alignment explanation
Indices: 79175--79236 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
79165 TCGCGTTGCG
79175 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
* **
79195 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTC
*
79214 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
79234 ATT
1 ATT
79237 TCAACCAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:81265 original size:92 final size:93
Alignment explanation
Indices: 80932--81491 Score: 1081
Period size: 93 Copynumber: 6.1 Consensus size: 93
80922 TAGATTGCTT
*
80932 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80997 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81025 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81090 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81118 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81183 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
81210 AGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81275 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81303 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81367 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81395 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81460 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81487 AGTAA
1 AGTAA
81492 TGCAATCCAT
Statistics
Matches: 462, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
92 189 0.41
93 273 0.59
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:81284 original size:185 final size:186
Alignment explanation
Indices: 80932--81491 Score: 1081
Period size: 185 Copynumber: 3.0 Consensus size: 186
80922 TAGATTGCTT
*
80932 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80997 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
81062 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
81118 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
81183 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
81247 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
81303 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81367 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
81432 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
81487 AGTAA
1 AGTAA
81492 TGCAATCCAT
Statistics
Matches: 370, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
184 42 0.11
185 247 0.67
186 81 0.22
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:81579 original size:19 final size:19
Alignment explanation
Indices: 81539--81666 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
81529 TAGTTTACTT
* *
81539 TCGCAACACGAAACATAAAA
1 TCGCAACGCGAAAC-CAAAA
81559 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
81578 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
81596 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
81610 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
81629 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
81643 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
81662 TCGCA
1 TCGCA
81667 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:81635 original size:33 final size:32
Alignment explanation
Indices: 81575--81666 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
81565 CGCGAAACCA
**
81575 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
81606 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
81639 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
81667 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:81722 original size:20 final size:19
Alignment explanation
Indices: 81662--81730 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
81652 GAAACCAAAA
*
81662 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
81681 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
81700 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
81720 TCGTGTTGCGA
1 TCGCGTTGCGA
81731 AAGTAACTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 31 0.70
20 13 0.30
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:83671 original size:14 final size:14
Alignment explanation
Indices: 83652--83687 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
83642 ATTGTTTAAT
83652 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
83666 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
83680 TGATTTGT
1 TGATTTGT
83688 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:83818 original size:19 final size:19
Alignment explanation
Indices: 83794--83924 Score: 165
Period size: 19 Copynumber: 7.4 Consensus size: 19
83784 AAAATTGACT
83794 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83813 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
83832 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
83846 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
83865 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
83879 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83898 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
83918 ATCGCAA
1 ATCGCAA
83925 CGGGAGAATC
Statistics
Matches: 97, Mismatches: 4, Indels: 21
0.80 0.03 0.17
Matches are distributed among these distances:
14 20 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 49 0.51
20 16 0.16
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:83850 original size:14 final size:14
Alignment explanation
Indices: 83831--83885 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
83821 GCGAAATGAA
83831 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
83845 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
83864 AATCGCAACGAGAG
1 AATCGCAACGAGAG
83878 AATCGCAA
1 AATCGCAA
83886 TGCGAAATGA
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:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:83854 original size:33 final size:33
Alignment explanation
Indices: 83812--83904 Score: 186
Period size: 33 Copynumber: 2.8 Consensus size: 33
83802 GCGAAATGAA
83812 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
83845 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
83878 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
83905 TGCGGAAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:83901 original size:52 final size:54
Alignment explanation
Indices: 83794--83943 Score: 193
Period size: 53 Copynumber: 2.8 Consensus size: 54
83784 AAAATTGACT
* * * *
83794 ATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAACGAGAGA
*
83846 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA-A-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAACGAGAGA
*
83898 ATCGCAATGCGGAAATGAAAATCGCAACGGGAGAATCGCAATGCGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
83944 TTTTAATTTC
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
52 40 0.45
53 41 0.47
54 7 0.08
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (54 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAACGAGAGA
Found at i:83961 original size:19 final size:19
Alignment explanation
Indices: 83933--84278 Score: 331
Period size: 19 Copynumber: 19.7 Consensus size: 19
83923 AACGGGAGAA
* *
83933 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
83952 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
83968 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
83985 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84004 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
84020 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
84036 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84055 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84074 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
84092 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
84108 TCGTATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
* *
84124 TCG--TTGCGATTGTAATT
1 TCGCATTGCGATTTTCATT
**
84141 TCTGTGTTGCGATTTTCATT
1 TC-GCATTGCGATTTTCATT
*
84161 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
84177 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84194 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84213 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84232 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
84250 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
84266 TCGCATTGCGATT
1 TCGCATTGCGATT
84279 CTCTCGTTGC
Statistics
Matches: 274, Mismatches: 20, Indels: 66
0.76 0.06 0.18
Matches are distributed among these distances:
14 46 0.17
15 3 0.01
16 31 0.11
17 24 0.09
18 9 0.03
19 115 0.42
20 46 0.17
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:84118 original size:53 final size:51
Alignment explanation
Indices: 83939--84278 Score: 281
Period size: 53 Copynumber: 6.5 Consensus size: 51
83929 AGAATCGCAA
* *
83939 TGCGATTTTAATTTCGCATTGCGA--TTCTCT-CG-TTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTTTCCGATTGCGATTTTCA--T-G--T
* * * *
83991 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTC-ATTTCGCA--T
1 TGCGATTTTCATTTCGCATTGCGATT-T-TCTTTCCGATTGCGATTT-TCATGT
84042 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGT
1 TGCGATTTTCATTTCGCATTGCGATTTTC-TTTCCG-ATTGCGATTTTCATGT
* * * * * * *
84095 TGGGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTG-TAATTTCTGTGT
1 TGCGATTTTCATTTCGCATTGCGATT-T-TCTTTCCGATTGCGATTTTC-ATGT
*
84148 TGCGATTTTCATTTCGCATTGCGA--TTCTCT-CG-TTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTTTCCGATTGCGATTTTCA--T-G--T
84200 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGT
1 TGCGATTTTCATTTCGCATTGCGATTTTC-TTTCCG-ATTGCGATTTTCATGT
*
84253 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
84279 CTCTCGTTGC
Statistics
Matches: 236, Mismatches: 25, Indels: 53
0.75 0.08 0.17
Matches are distributed among these distances:
47 3 0.01
48 7 0.03
49 6 0.03
50 7 0.03
51 33 0.14
52 57 0.24
53 80 0.34
54 8 0.03
55 6 0.03
56 6 0.03
57 6 0.03
58 17 0.07
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (51 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCTTTCCGATTGCGATTTTCATGT
Found at i:84228 original size:158 final size:156
Alignment explanation
Indices: 83942--84311 Score: 659
Period size: 158 Copynumber: 2.4 Consensus size: 156
83932 ATCGCAATGC
* * * **
83942 GATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGTGTTGCGATTTTCATTTCG
84007 CATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA
66 CATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA
84072 TTTCCGCATTGCGATTTTCATGTTGG
131 TTTCCGCATTGCGATTTTCATGTTGG
*
84098 GATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTGTAATTTCTGTGTTGCGATTTTCATTTC
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTC-GTGTTGCGATTTTCATTTC
84163 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
65 GCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
84228 CATTTCCGCATTGCGATTTTCATGTTGG
129 CATTTCCGCATTGCGATTTTCATGTTGG
84256 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTGTTGCGAT
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTT-CGTGTTGCGAT
84312 AGTCAAATGC
Statistics
Matches: 204, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
156 41 0.20
157 40 0.20
158 122 0.60
159 1 0.00
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.46
Consensus pattern (156 bp):
GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGTGTTGCGATTTTCATTTCG
CATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA
TTTCCGCATTGCGATTTTCATGTTGG
Found at i:84300 original size:33 final size:33
Alignment explanation
Indices: 83939--84292 Score: 231
Period size: 33 Copynumber: 10.2 Consensus size: 33
83929 AGAATCGCAA
*
83939 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
83972 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
84010 TGCGATTCTCTCGTTGCG-ATTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCATTGCGATTCTCTCGT
*
84042 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
* * * *
84081 TGCGATTTTCATGTTGGGATTTTC-ATT-TCGT-AT
1 TGCGATTTTCAT-TTCGCA-TTGCGATTCTC-TCGT
* * ** *
84114 TGCGATTCTCTCGTTGCG-ATTGTAATT-TCTGTGT
1 TGCGATT-T-TCATTTCGCATTGCGATTCTCT-CGT
84148 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
84181 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
84219 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
84253 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
84286 TGCGATT
1 TGCGATT
84293 GTAATTTCCG
Statistics
Matches: 251, Mismatches: 36, Indels: 68
0.71 0.10 0.19
Matches are distributed among these distances:
30 6 0.02
31 5 0.02
32 19 0.08
33 93 0.37
34 32 0.13
35 9 0.04
36 14 0.06
37 5 0.02
38 26 0.10
39 28 0.11
40 11 0.04
41 3 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:86757 original size:24 final size:24
Alignment explanation
Indices: 86723--86769 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86713 CTGAAACATC
86723 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
86747 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
86770 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:87480 original size:20 final size:20
Alignment explanation
Indices: 87452--87741 Score: 321
Period size: 20 Copynumber: 14.5 Consensus size: 20
87442 AAATTTCAGT
* *
87452 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
87472 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
87492 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
87512 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
87532 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
87552 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
87572 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
87592 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
87612 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
87632 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
87652 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
87672 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
87692 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
87712 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
87732 GTTGCGATTT
1 GTTGCGATTT
87742 TGTACTATCG
Statistics
Matches: 240, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
20 239 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:87742 original size:20 final size:19
Alignment explanation
Indices: 87689--87784 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 19
87679 TTTACGGATA
* *
87689 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
87709 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
*
87729 CGCGTTGCGATTTTGTACTAT
1 CGCGTTGCGATTTTATA-T-T
* * *
87750 CGCATTGCGATTTTCAAGAAT
1 CGCGTTGCGATTTT--ATATT
87771 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
87785 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
19 3 0.05
20 31 0.49
21 28 0.44
23 1 0.02
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.42
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:87772 original size:21 final size:20
Alignment explanation
Indices: 87708--87784 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 20
87698 ATTTATGTGT
* *
87708 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCACAA
* *
87728 TCGCGTTGCGATTTTGTACTA
1 TCGCGTTGCGATTTT-CACAA
* *
87749 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTC-ACAA
87770 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
87785 GGAAACTGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 15 0.33
21 31 0.67
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCACAA
Found at i:87781 original size:42 final size:39
Alignment explanation
Indices: 87689--87785 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 39
87679 TTTACGGATA
* * * *
87689 CGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTT-TGTCTTCGCATTGCGATTTTCAGAAT
87729 CGCGTTGCGATTTTGTACTATCGCATTGCGATTTTCAAGAAT
1 CGCGTTGCGATTTTGT-CT-TCGCATTGCGATTTTC-AGAAT
87771 CGCGTTGCGATTTTG
1 CGCGTTGCGATTTTG
87786 GAAACTGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.06
40 14 0.28
41 15 0.30
42 18 0.36
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (39 bp):
CGCGTTGCGATTTTGTCTTCGCATTGCGATTTTCAGAAT
Found at i:88613 original size:2 final size:2
Alignment explanation
Indices: 88606--88630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88596 CTGTTATGTT
88606 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88631 TAATTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90706 original size:20 final size:20
Alignment explanation
Indices: 90668--90706 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90658 TACTTTTTAT
* *
90668 GTTTTTCTTTTTTCCCTTTC
1 GTTTTTCATTTTTACCTTTC
*
90688 GTTTTTCATTTTTATCTTT
1 GTTTTTCATTTTTACCTTT
90707 TTAACAGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.72
Consensus pattern (20 bp):
GTTTTTCATTTTTACCTTTC
Found at i:102130 original size:61 final size:61
Alignment explanation
Indices: 102035--102156 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
102025 CTCCGACTCT
* *
102035 CTCAGTGAAAGCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGACTAAAAAA
1 CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
* *
102096 CTCAGTGAAACCTGGAGGATCTGTCTCCCTTTTCAATATTGGTTTACAGTGGAATAAAAAA
1 CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
102157 TTGATCAGGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (61 bp):
CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
Found at i:109067 original size:64 final size:64
Alignment explanation
Indices: 108998--109154 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
108988 TTGAAGGTGT
** *
108998 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCGTG
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCATG
109061 C
64 C
* * * * *
109062 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATTC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* *
109126 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
109155 ACCTTTATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
63 3 0.04
64 66 0.86
65 8 0.10
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:116918 original size:5 final size:5
Alignment explanation
Indices: 116905--116971 Score: 98
Period size: 5 Copynumber: 13.4 Consensus size: 5
116895 GCGTCATGAT
* * * *
116905 GTTTT GTTTC GTTTA GTTTA GTTTC GTTTC GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA
116955 GTTTA GTTTA GTTTA GT
1 GTTTA GTTTA GTTTA GT
116972 ACGAGGGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.13, C:0.04, G:0.21, T:0.61
Consensus pattern (5 bp):
GTTTA
Found at i:119144 original size:14 final size:15
Alignment explanation
Indices: 119109--119145 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
119099 GTCATTAACC
*
119109 CTTAAATTATATGCA
1 CTTAAATTAAATGCA
119124 CTT-AATTAAAT-CA
1 CTTAAATTAAATGCA
119137 CTTAAATTA
1 CTTAAATTA
119146 CATATGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 3 0.15
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
CTTAAATTAAATGCA
Found at i:119300 original size:19 final size:19
Alignment explanation
Indices: 119276--119345 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
119266 TGATTTTTTG
119276 GTCAAAGTCAACAGTTAAA
1 GTCAAAGTCAACAGTTAAA
* * * **
119295 GTCAAAGTTAACGGGTATG
1 GTCAAAGTCAACAGTTAAA
* *
119314 GTCAACCGTCAACAGTT-AT
1 GTCAA-AGTCAACAGTTAAA
119333 GTCAAAGTCAACA
1 GTCAAAGTCAACA
119346 TGTAAGACCG
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
18 7 0.18
19 24 0.63
20 7 0.18
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (19 bp):
GTCAAAGTCAACAGTTAAA
Found at i:141165 original size:13 final size:12
Alignment explanation
Indices: 141131--141155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
141121 TAGCGGTAAA
141131 AAATAATATTTT
1 AAATAATATTTT
141143 AAATAATATTTT
1 AAATAATATTTT
141155 A
1 A
141156 CCAAAATATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:141225 original size:17 final size:18
Alignment explanation
Indices: 141191--141230 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
141181 CGGCTAATAT
141191 TAATATTTCTAATAAAAA
1 TAATATTTCTAATAAAAA
*
141209 TAATATTT-TATTAAAAA
1 TAATATTTCTAATAAAAA
141226 TAATA
1 TAATA
141231 AAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATATTTCTAATAAAAA
Found at i:147723 original size:5 final size:5
Alignment explanation
Indices: 147707--147825 Score: 231
Period size: 5 Copynumber: 24.0 Consensus size: 5
147697 AAAAAAATAC
147707 TATTA T-TTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
147756 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
147806 TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA
147826 AGTCAATACT
Statistics
Matches: 113, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.04
5 109 0.96
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:148228 original size:59 final size:57
Alignment explanation
Indices: 148112--148250 Score: 147
Period size: 59 Copynumber: 2.4 Consensus size: 57
148102 AAGGGTAAGG
*
148112 TACACAAATGATCTCGACTATAGGGTGCTACTTTGTTAAGTCTCCGACTATTAAAAGT
1 TACA-AAATGATCTCGACTATAGGGTACTACTTTGTTAAGTCTCCGACTATTAAAAGT
** * * *
148170 TTTAAAATGATCTCTTGACTATA-GTTACTACTTTGTTAAGTC-CCTTTACTATTGAAAGT
1 TACAAAATGATCTC--GACTATAGGGTACTACTTTGTTAAGTCTCC--GACTATTAAAAGT
148229 TACAAAATGATTCCTCGACTAT
1 TACAAAATGA-T-CTCGACTAT
148251 TCATATATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
57 12 0.18
58 19 0.28
59 32 0.48
60 1 0.01
61 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (57 bp):
TACAAAATGATCTCGACTATAGGGTACTACTTTGTTAAGTCTCCGACTATTAAAAGT
Found at i:149161 original size:20 final size:21
Alignment explanation
Indices: 149136--149177 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
149126 ATTGCTTCAG
*
149136 GGGTA-CGATACCCTGTTACA
1 GGGTACCGATACCCTGCTACA
149156 GGGTACCGATACCCTGCTACA
1 GGGTACCGATACCCTGCTACA
149177 G
1 G
149178 TACTCCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (21 bp):
GGGTACCGATACCCTGCTACA
Found at i:151274 original size:42 final size:42
Alignment explanation
Indices: 151214--151305 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
151204 CCCGAAATCT
* *
151214 CGTGTTTGTTTCATGTAATCCGTTTTTCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATCCGTTTTCCGGAAAATGTTTTCC
* *
151256 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATTTTTTCC
1 CGTGTTTGTTTCACGTAATCCGTTTTCCGGAAAATGTTTTCC
*
151298 GGTGTTTG
1 CGTGTTTG
151306 GTTGGAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.15, C:0.16, G:0.21, T:0.48
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATCCGTTTTCCGGAAAATGTTTTCC
Found at i:151575 original size:58 final size:57
Alignment explanation
Indices: 151508--151698 Score: 133
Period size: 58 Copynumber: 3.2 Consensus size: 57
151498 CATCAAAATA
151508 TTAATTATTAAAATATTTAAAATATATTTATTATATTTATATAATATAATATTATATTT
1 TTAA-TATTAAAATA-TTAAAATATATTTATTATATTTATATAATATAATATTATATTT
* * * *
151567 TTAATATTATAATA--AAATTATTAATTATATTATAATAATATAATATAAGATATTATATTT
1 TTAATATTAAAATATTAAAATA-T-ATT-TATTATATTTATATAATAT-A-ATATTATATTT
* * *
151627 TT-ATTTTAATAA-ATATATAATAT-TTTTTATATATTTA-ATAATGAATAATATTATTTATATA
1 TTAATATTAA-AATAT-TAAAATATATTTAT-TATATTTATATAAT--ATAATATTA--TAT-T-
151688 T
57 T
151689 TTAATATTAA
1 TTAATATTAA
151699 TATAATAATC
Statistics
Matches: 103, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
55 5 0.05
56 1 0.01
57 3 0.03
58 39 0.38
59 20 0.19
60 20 0.19
61 2 0.02
62 7 0.07
63 6 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (57 bp):
TTAATATTAAAATATTAAAATATATTTATTATATTTATATAATATAATATTATATTT
Found at i:151619 original size:23 final size:23
Alignment explanation
Indices: 151570--151623 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
151560 TATATTTTTA
* *
151570 ATATTATAATAAAATTATTAATT
1 ATATTATAATAAAATAATTAATG
*
151593 ATATTATAATAATATAATATAA-G
1 ATATTATAATAAAATAAT-TAATG
151616 ATATTATA
1 ATATTATA
151624 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTATAATAAAATAATTAATG
Found at i:151650 original size:53 final size:54
Alignment explanation
Indices: 151525--151650 Score: 134
Period size: 58 Copynumber: 2.3 Consensus size: 54
151515 TTAAAATATT
* * *
151525 TAAAATATATTTATTATATTTATATAATATAATATTATATTTTTAATATTATAA
1 TAAAATATATATATTATAATAATATAATATAATATTATATTTTTAATATTATAA
151579 TAAAATTATTAATTATATTATAATAATATAATATAAGATATTATATTTTT-AT-TT-TAA
1 TAAAA-TA-T-A-TATATTATAATAATATAATAT-A-ATATTATATTTTTAATATTATAA
151636 T-AAATATATAATATT
1 TAAAATATAT-ATATT
151651 TTTTATATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
52 1 0.02
53 6 0.10
54 6 0.10
55 4 0.06
56 4 0.06
57 5 0.08
58 20 0.32
59 3 0.05
60 13 0.21
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.52
Consensus pattern (54 bp):
TAAAATATATATATTATAATAATATAATATAATATTATATTTTTAATATTATAA
Found at i:151723 original size:19 final size:18
Alignment explanation
Indices: 151655--151725 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
151645 AATATTTTTT
*
151655 ATATATTTAATAATGAATA
1 ATAT-TTTAATAATTAATA
*
151674 ATATTATTTATATATTTAATA
1 ATA-T-TTTA-ATAATTAATA
* * *
151695 TTAATATAATAATCTAATA
1 ATATTTTAATAAT-TAATA
151714 ATATTTTAATAA
1 ATATTTTAATAA
151726 AGATATTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 4 0.10
19 20 0.50
20 6 0.15
21 10 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATATTTTAATAATTAATA
Found at i:151746 original size:23 final size:23
Alignment explanation
Indices: 151720--151764 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
151710 AATAATATTT
151720 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
151743 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
151765 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:152142 original size:15 final size:15
Alignment explanation
Indices: 152124--152159 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
152114 CATTTTCCAA
152124 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
**
152139 AATTCATTTTTCAGT
1 AATTCAAATTTCAGT
152154 AATTCA
1 AATTCA
152160 TTTTTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (15 bp):
AATTCAAATTTCAGT
Found at i:152160 original size:15 final size:15
Alignment explanation
Indices: 152132--152166 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
152122 AAAATTCAAA
152132 TTTCAGTAATTCATT
1 TTTCAGTAATTCATT
152147 TTTCAGTAATTCATT
1 TTTCAGTAATTCATT
152162 TTTCA
1 TTTCA
152167 TAAAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (15 bp):
TTTCAGTAATTCATT
Found at i:157515 original size:2 final size:2
Alignment explanation
Indices: 157508--157535 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
157498 ATTCATTAGC
157508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157536 GTATGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:160250 original size:2 final size:2
Alignment explanation
Indices: 160243--160292 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
160233 ATTTACAATG
*
160243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
160285 AT AT AT AT
1 AT AT AT AT
160293 GCATGCAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:160727 original size:230 final size:230
Alignment explanation
Indices: 160322--160759 Score: 763
Period size: 230 Copynumber: 1.9 Consensus size: 230
160312 ATATGCATGC
*
160322 ATATATATGCTCATGGTTGCTTGAAATCAAGGAGAGGATGTACATAAAATAATGCATAGAAAAGT
1 ATATATATGCTCATGGTTGCTTGAAATCAAGGAGAGGATGTACATAAAATAATGCATAGAAAAAT
*
160387 TATTTGTTCAAACTTCTGCTACCGCCTAGCTAATAATAGCTGCATGCCTGCCATTAGAAGTTTCA
66 TATTTGTTCAAACTTCCGCTACCGCCTAGCTAATAATAGCTGCATGCCTGCCATTAGAAGTTTCA
* *
160452 CTATATTACTTAAGCAAAAAAAACAGCAGAGACCACAATAAATCTAGGGCAACTTACATCTGTAT
131 CTATATTACTCAAGCAAAAAAAACAGCAGAGACCACAATAAATCTAGGGCAACTTACATCTATAT
160517 AAATAATTATTGCTATATATATATATATATAAAAT
196 AAATAATTATTGCTATATATATATATATATAAAAT
*
160552 ATATATATGCTCATGGTTGCTTGAAATCAAGGAGAGAGGATGTATATAAAATAATGCATAGAAAA
1 ATATATATGCTCATGGTTGCTTGAAATCAA-G-GAGAGGATGTACATAAAATAATGCATAGAAAA
160617 ATTATTTGTTCAAACTTCCGCTACC-CCTAGCTAATAATAGCTGCATGCCTGCCATTAGAAGTTT
64 ATTATTTGTTCAAACTTCCGCTACCGCCTAGCTAATAATAGCTGCATGCCTGCCATTAGAAGTTT
** * *
160681 CACTATATTACTCAAGC-AAAAGGACAGCAGCGACCACAATAAATCTAGGGTAACTTACATCTAT
129 CACTATATTACTCAAGCAAAAAAAACAGCAGAGACCACAATAAATCTAGGGCAACTTACATCTAT
160745 ATAAATAATTATTGC
194 ATAAATAATTATTGC
160760 CGGATATTAA
Statistics
Matches: 197, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
230 87 0.44
231 56 0.28
232 54 0.27
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (230 bp):
ATATATATGCTCATGGTTGCTTGAAATCAAGGAGAGGATGTACATAAAATAATGCATAGAAAAAT
TATTTGTTCAAACTTCCGCTACCGCCTAGCTAATAATAGCTGCATGCCTGCCATTAGAAGTTTCA
CTATATTACTCAAGCAAAAAAAACAGCAGAGACCACAATAAATCTAGGGCAACTTACATCTATAT
AAATAATTATTGCTATATATATATATATATAAAAT
Found at i:165946 original size:19 final size:20
Alignment explanation
Indices: 165918--165960 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
165908 TATGGATAAT
*
165918 ATATGTAAATGG-ATATGGA
1 ATATGAAAATGGTATATGGA
*
165937 ATATGAAAATGGTATATGGT
1 ATATGAAAATGGTATATGGA
165957 ATAT
1 ATAT
165961 TGTATATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (20 bp):
ATATGAAAATGGTATATGGA
Found at i:166535 original size:16 final size:16
Alignment explanation
Indices: 166516--166612 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 16
166506 AAATATTATA
166516 TCAGTTCAATAACAAG
1 TCAGTTCAATAACAAG
* * * *
166532 TCAGATCATTTACAGG
1 TCAGTTCAATAACAAG
* * *
166548 TTGAG-TCAATTACATG
1 -TCAGTTCAATAACAAG
166564 TCAGGTTC-ATAACAAG
1 TCA-GTTCAATAACAAG
**
166580 TCAGTTTGAT-ACAAG
1 TCAGTTCAATAACAAG
**
166595 TCAGTTTGATAACAAG
1 TCAGTTCAATAACAAG
166611 TC
1 TC
166613 TGTAATACCA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
15 20 0.31
16 40 0.62
17 5 0.08
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (16 bp):
TCAGTTCAATAACAAG
Found at i:166595 original size:15 final size:16
Alignment explanation
Indices: 166572--166612 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
166562 TGTCAGGTTC
166572 ATAACAAGTCAGTTTG
1 ATAACAAGTCAGTTTG
166588 AT-ACAAGTCAGTTTG
1 ATAACAAGTCAGTTTG
166603 ATAACAAGTC
1 ATAACAAGTC
166613 TGTAATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (16 bp):
ATAACAAGTCAGTTTG
Found at i:167217 original size:16 final size:16
Alignment explanation
Indices: 167198--167280 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
167188 AAATATTATA
167198 TCAGTTCAATAACAAG
1 TCAGTTCAATAACAAG
* * * *
167214 TCAGATCATTTACAGG
1 TCAGTTCAATAACAAG
* * *
167230 TTGAG-TCAATTACAGG
1 -TCAGTTCAATAACAAG
167246 TCAGGTTC-ATAACAAG
1 TCA-GTTCAATAACAAG
**
167262 TCAGTTTGATAACAAG
1 TCAGTTCAATAACAAG
167278 TCA
1 TCA
167281 TGTAATACCA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.09
16 43 0.81
17 5 0.09
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (16 bp):
TCAGTTCAATAACAAG
Found at i:167491 original size:60 final size:60
Alignment explanation
Indices: 167398--167518 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
167388 ACGTCAATTC
167398 AAACTCTAATCGATCTCGAATCATCTCTTCCCATGTCTCAAACAATTTCGACTTAAGTCA
1 AAACTCTAATCGATCTCGAATCATCTCTTCCCATGTCTCAAACAATTTCGACTTAAGTCA
167458 AAACTCTAATCGATCTCGAATCATCTCTTCCCATGTCTCAAACAATTTCGACTTAAGTCA
1 AAACTCTAATCGATCTCGAATCATCTCTTCCCATGTCTCAAACAATTTCGACTTAAGTCA
167518 A
1 A
167519 TTTTATCTGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.31
Consensus pattern (60 bp):
AAACTCTAATCGATCTCGAATCATCTCTTCCCATGTCTCAAACAATTTCGACTTAAGTCA
Found at i:169038 original size:56 final size:55
Alignment explanation
Indices: 168976--169111 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 55
168966 TTTAACAACG
* * *
168976 AGATACTAAAATAAAAAATA-AATATTAGGTATACTTTTGAAATAAATAAAAAACTT
1 AGATACTAAAATAAAAAAAATAATATCAGGTATAATTTTGAAATAAAT--AAAACTT
*
169032 AGATACTAAAATGAAGCAAAAAATAATATCAGGTATAATTTTGAAATAAATAAAATTT
1 AGATACTAAAAT-AA--AAAAAATAATATCAGGTATAATTTTGAAATAAATAAAACTT
*
169090 AGACACTAAAATAAAATAAAAT
1 AGATACTAAAATAAAA-AAAAT
169112 TGATAGTTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
55 2 0.03
56 17 0.24
57 4 0.06
58 17 0.24
59 5 0.07
60 25 0.36
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (55 bp):
AGATACTAAAATAAAAAAAATAATATCAGGTATAATTTTGAAATAAATAAAACTT
Found at i:180788 original size:2 final size:2
Alignment explanation
Indices: 180781--180820 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
180771 ATCCTAACTC
180781 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
180821 TGAAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180838 original size:23 final size:22
Alignment explanation
Indices: 180803--180852 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
180793 ATATATATAT
* *
180803 ATATATATATATATATATTGAAA
1 ATATAAATATATAT-TATTCAAA
*
180826 ATATAAATTTATATTATTCAAA
1 ATATAAATATATATTATTCAAA
180848 A-ATAA
1 ATATAA
180853 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATAAATATATATTATTCAAA
Found at i:186320 original size:16 final size:16
Alignment explanation
Indices: 186282--186312 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
186272 ATTACCCGAC
186282 CTGTTTTCAACCTGAT
1 CTGTTTTCAACCTGAT
186298 CTGTTTTCAACCTGA
1 CTGTTTTCAACCTGA
186313 CATGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (16 bp):
CTGTTTTCAACCTGAT
Found at i:186328 original size:16 final size:16
Alignment explanation
Indices: 186283--186329 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
186273 TTACCCGACC
*
186283 TGTTTTCAACCTGATC-
1 TGTTTTCAAACTGA-CA
*
186299 TGTTTTCAACCTGACA
1 TGTTTTCAAACTGACA
*
186315 TGTTTTTAAACTGAC
1 TGTTTTCAAACTGAC
186330 CTGTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (16 bp):
TGTTTTCAAACTGACA
Found at i:186552 original size:9 final size:9
Alignment explanation
Indices: 186538--186567 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
186528 ATAAAATTAT
186538 TTAATAAAA
1 TTAATAAAA
186547 TTAATAAAA
1 TTAATAAAA
186556 TTAATAAAA
1 TTAATAAAA
186565 TTA
1 TTA
186568 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAATAAAA
Found at i:186648 original size:23 final size:24
Alignment explanation
Indices: 186611--186660 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
186601 ATACAAAGGA
186611 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
*
186635 AAATT-ATATTGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
186658 AAA
1 AAA
186661 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:186840 original size:7 final size:7
Alignment explanation
Indices: 186828--186868 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
186818 TTTATATTAT
186828 GGTTTAG
1 GGTTTAG
186835 GGTTTAG
1 GGTTTAG
*
186842 GGTTTAA
1 GGTTTAG
*
186849 AGTTTAG
1 GGTTTAG
186856 GGTTTAG
1 GGTTTAG
*
186863 AGTTTA
1 GGTTTA
186869 TGATTCAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:186847 original size:14 final size:14
Alignment explanation
Indices: 186828--186868 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
186818 TTTATATTAT
*
186828 GGTTTAGGGTTTAG
1 GGTTTAGAGTTTAG
*
186842 GGTTTAAAGTTTAG
1 GGTTTAGAGTTTAG
186856 GGTTTAGAGTTTA
1 GGTTTAGAGTTTA
186869 TGATTCAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
GGTTTAGAGTTTAG
Found at i:186853 original size:21 final size:21
Alignment explanation
Indices: 186829--186868 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
186819 TTATATTATG
*
186829 GTTTAGGGTTTAGGGTTTAAA
1 GTTTAGGGTTTAGAGTTTAAA
186850 GTTTAGGGTTTAGAGTTTA
1 GTTTAGGGTTTAGAGTTTA
186869 TGATTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGTTTAAA
Found at i:186859 original size:28 final size:28
Alignment explanation
Indices: 186828--186895 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
186818 TTTATATTAT
* * *
186828 GGTTTAGGGTTTAGGGTTTAAAGTTTAG
1 GGTTTAGGGTTTAGGATTCAAAGTTTAA
* *
186856 GGTTTAGAGTTTATGATTCAAAGTTTAA
1 GGTTTAGGGTTTAGGATTCAAAGTTTAA
*
186884 GGTTTAAGGTTT
1 GGTTTAGGGTTT
186896 CTATAAACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (28 bp):
GGTTTAGGGTTTAGGATTCAAAGTTTAA
Found at i:186895 original size:14 final size:14
Alignment explanation
Indices: 186828--186895 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
186818 TTTATATTAT
*
186828 GGTTTAGGGTTTAG
1 GGTTTAAGGTTTAG
*
186842 GGTTTAAAGTTTAG
1 GGTTTAAGGTTTAG
*
186856 GGTTT-AGAGTTTAT
1 GGTTTAAG-GTTTAG
* * * *
186870 GATTCAAAGTTTAA
1 GGTTTAAGGTTTAG
186884 GGTTTAAGGTTT
1 GGTTTAAGGTTT
186896 CTATAAACTA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
13 1 0.02
14 39 0.95
15 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:186986 original size:2 final size:2
Alignment explanation
Indices: 186979--187012 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
186969 TTACATAGTT
186979 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
187013 CATGGTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:187517 original size:2 final size:2
Alignment explanation
Indices: 187512--187551 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
187502 TAATTTACTT
*
187512 TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
187552 CATGGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 31 0.91
3 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:187647 original size:539 final size:539
Alignment explanation
Indices: 186744--187969 Score: 1919
Period size: 539 Copynumber: 2.2 Consensus size: 539
186734 ATTTTGGCAA
* * * * *
186744 TACATTAGATTACATAGGCCAAATATATAAGCTCACTCTTTTATTACTAATATATATGCATTAGT
1 TACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGT
*
186809 GCTAGTCTATTTATATTATGGTTTAGGGTTTAGGGTTTAAAGTTTAGGGTTTAGAGTTTATGATT
66 GCTAGTCTATTTATATTAGGGTTTA-GGTTTA-GG-TT---G--T---GTTTAG-G---AT--TT
*
186874 CAAAGTTTAAGGTTTAAGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAG
114 -AAAGTTTAAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAG
* *
186939 TGTTTCCATAAACTATATAGGTAATTTACATTACATAGTTTATATATATATATATATATATATAT
178 TGTTTCCATAAACTATATAAGTAATTTACATTACATAGTATATATATATATATATATATATATAT
187004 TATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATCATT
243 TATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATCATT
187069 TAAATGTAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCACATTGCATAT
308 TAAATGTAAATTATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCACATTGCATAT
* * *
187134 TATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTA
373 TATATCGTTAATAAATAGTAGCACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTA
187199 CATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAAC
438 CATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAAC
*
187264 CAAAAAATAAGTTCATTTCCAATAGTGCTAGTCCATT
503 CAAAAAATAAGTTCATTTCCAATAGTGCTAGTCCACT
187301 TACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGT
1 TACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGT
*
187366 GCTAATCTATTTATATTAGGGTTTATGGTTTATGGCTTGTGTTTAGGATTTAAAGTTTAAGGTTT
66 GCTAGTCTATTTATATTAGGGTTTA-GGTTTA-GG-TTGTGTTTAGGATTTAAAGTTTAAGGTTT
*
187431 AGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTA
128 AGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCCATAAACTA
* *
187496 TATAAGTAATTTAC-TT-TATA-TATATATATATATATATATAGTTTATA-TATACTATACATGG
193 TATAAGTAATTTACATTACATAGTATATATATATATATATATA-TATATATTATACTATACATGG
* *
187557 TTTATACATACATATTATATACAATTATTTAATAAAATTAATAAAATTATTTAAATGTAAATTAT
257 TTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATCATTTAAATGTAAATTAT
*
187622 ATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATCGTTAATAA
322 ATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCACATTGCATATTATATCGTTAATAA
* *
187687 ATAGTAGCAGATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAAT
387 ATAGTAGCACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTACATGTTAGGTTAAT
* * *
187752 TCACATTAATAGCCCATTTATTTTGTTGTTATGAATAATTAATAATAAAACCCAAAATTAAGTTC
452 TCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTTC
187817 ATTTCCAATAGTGCTAGTCCACT
517 ATTTCCAATAGTGCTAGTCCACT
*
187840 TACATTAGTTTACATAGGCCCAATACATAAGCCTACTCTTTTATTACAAATATATATGCATTAGT
1 TACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGT
* * * * *
187905 GCTAGTTTATTTATACTAGGGTTTAGGGTTA-G-TGTGTATA-G-TTTAAAGTTTAGGGTTTAGG
66 GCTAGTCTATTTATATTAGGGTTTAGGTTTAGGTTGTGTTTAGGATTTAAAGTTTAAGGTTTAGG
187966 GTTT
131 GTTT
187970 ATGATTTAGG
Statistics
Matches: 633, Mismatches: 35, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
532 23 0.04
533 1 0.00
534 7 0.01
536 1 0.00
538 5 0.01
539 390 0.62
540 8 0.01
541 2 0.00
542 90 0.14
543 2 0.00
545 2 0.00
548 1 0.00
549 6 0.01
552 1 0.00
554 1 0.00
557 93 0.15
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (539 bp):
TACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGT
GCTAGTCTATTTATATTAGGGTTTAGGTTTAGGTTGTGTTTAGGATTTAAAGTTTAAGGTTTAGG
GTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCCATAAACTATAT
AAGTAATTTACATTACATAGTATATATATATATATATATATATATATTATACTATACATGGTTTA
TACATACATATTATATAAAATTATTTAATAAAATTAATAAAATCATTTAAATGTAAATTATATAA
AACATGATTAATTAAGTGTTAAATAATTAGTATGTCACATTGCATATTATATCGTTAATAAATAG
TAGCACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTACATGTTAGGTTAATTCAC
ATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTTCATTT
CCAATAGTGCTAGTCCACT
Found at i:187933 original size:7 final size:7
Alignment explanation
Indices: 187921--187990 Score: 52
Period size: 7 Copynumber: 10.1 Consensus size: 7
187911 TTATTTATAC
187921 TAGGGTT
1 TAGGGTT
187928 TAGGG-T
1 TAGGGTT
* *
187934 TAGTGTG
1 TAGGGTT
**
187941 TATAGTT
1 TAGGGTT
**
187948 TAAAGTT
1 TAGGGTT
187955 TAGGGTT
1 TAGGGTT
187962 TAGGGTT
1 TAGGGTT
* *
187969 TATGATT
1 TAGGGTT
*
187976 TAGGGCT
1 TAGGGTT
187983 TAGGGTT
1 TAGGGTT
187990 T
1 T
187991 TTATAAACTA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
6 5 0.10
7 43 0.90
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
TAGGGTT
Found at i:187969 original size:21 final size:21
Alignment explanation
Indices: 187945--187990 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
187935 AGTGTGTATA
*
187945 GTTTAA-AGTTTAGGGTTTAGG
1 GTTTAAGA-TTTAGGGCTTAGG
*
187966 GTTTATGATTTAGGGCTTAGG
1 GTTTAAGATTTAGGGCTTAGG
187987 GTTT
1 GTTT
187991 TTATAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.46
Consensus pattern (21 bp):
GTTTAAGATTTAGGGCTTAGG
Found at i:188399 original size:21 final size:21
Alignment explanation
Indices: 188373--188446 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
188363 TCCCTTTATA
**
188373 TTAGGGTTTATGGTTTTGGGG
1 TTAGGGTTTATGGTTTAAGGG
188394 TTAGGGTTTATGGTTTAAGGG
1 TTAGGGTTTATGGTTTAAGGG
* *
188415 TTAGTGTTTATGGTTTAAGGT
1 TTAGGGTTTATGGTTTAAGGG
188436 TTAGGGTTTAT
1 TTAGGGTTTAT
188447 ATAAACTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAGGG
Found at i:188410 original size:7 final size:7
Alignment explanation
Indices: 188377--188446 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
188367 TTTATATTAG
188377 GGTTTAT
1 GGTTTAT
188384 GGTTT-T
1 GGTTTAT
* *
188390 GGGGTTAG
1 -GGTTTAT
188398 GGTTTAT
1 GGTTTAT
*
188405 GGTTTAA
1 GGTTTAT
*
188412 GGGTTA-
1 GGTTTAT
188418 GTGTTTAT
1 G-GTTTAT
*
188426 GGTTTAA
1 GGTTTAT
*
188433 GGTTTAG
1 GGTTTAT
188440 GGTTTAT
1 GGTTTAT
188447 ATAAACTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
6 2 0.04
7 46 0.94
8 1 0.02
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
GGTTTAT
Found at i:188480 original size:49 final size:50
Alignment explanation
Indices: 188427--188529 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 50
188417 AGTGTTTATG
** ** *
188427 GTTTAAGGTTTAGGGTTTATATAAACTATATACTTTA-TTACTTTATATA
1 GTTTAAGGCATAGGGTTTATATAAACTATATAAGTAATTTACTTTATATA
* * *
188476 GTTT-ATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATA
1 GTTTAAGGCATAGGGTTTATATAAACTATATAAGTAATTTACTTTATATA
188525 GTTTA
1 GTTTA
188530 TATATATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 24 0.55
49 20 0.45
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (50 bp):
GTTTAAGGCATAGGGTTTATATAAACTATATAAGTAATTTACTTTATATA
Found at i:188533 original size:2 final size:2
Alignment explanation
Indices: 188528--188585 Score: 100
Period size: 2 Copynumber: 29.0 Consensus size: 2
188518 TTATATAGTT
188528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
188570 TA T- TA TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA
188586 CATGGTTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 51 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:190693 original size:23 final size:23
Alignment explanation
Indices: 190663--190744 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
190653 AATCTTATAT
190663 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
**
190686 GGCACTACAATGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
190709 GGCACTTCGGTGCAAATTCTACGT
1 GGCACTACGGTGC-ATTTCTACGC
190733 GGCACTACGGTG
1 GGCACTACGGTG
190745 TAAATTTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
23 31 0.62
24 19 0.38
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:192004 original size:2 final size:2
Alignment explanation
Indices: 191999--192050 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
191989 TTATATAGTT
* *
191999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TG TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192040 TA TA TA -A TA TA
1 TA TA TA TA TA TA
192051 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:192084 original size:13 final size:13
Alignment explanation
Indices: 192074--192100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
192064 TACATATTAT
192074 ATAAAATTATTTA
1 ATAAAATTATTTA
192087 ATAAAATTATTTA
1 ATAAAATTATTTA
192100 A
1 A
192101 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:192110 original size:15 final size:14
Alignment explanation
Indices: 192074--192116 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
192064 TACATATTAT
192074 ATAAAATTATTT-A
1 ATAAAATTATTTAA
192087 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
192101 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
192116 A
1 A
192117 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:192503 original size:2 final size:2
Alignment explanation
Indices: 192491--192538 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
192481 TAATTTACTT
*
192491 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
192533 TA TA TA
1 TA TA TA
192539 CTCTACATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:192690 original size:2 final size:2
Alignment explanation
Indices: 192683--192718 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
192673 TGTTTCTGTA
192683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
192719 TAATATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192753 original size:16 final size:15
Alignment explanation
Indices: 192682--192755 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 15
192672 GTGTTTCTGT
*
192682 AATATATA-TATATA
1 AATATATATTTTATA
* *
192696 TATATATA-TATATA
1 AATATATATTTTATA
* *
192710 TATATATATTAATATA
1 AATATATATT-TTATA
*
192726 AAT-TATAATTTATA
1 AATATATATTTTATA
192740 AACTATATATTTTATA
1 AA-TATATATTTTATA
192756 TAGTTTATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
14 27 0.53
15 7 0.14
16 17 0.33
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATATATTTTATA
Found at i:192783 original size:15 final size:13
Alignment explanation
Indices: 192753--192777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192743 TATATATTTT
192753 ATATAGTTTATAC
1 ATATAGTTTATAC
192766 ATATAGTTTATA
1 ATATAGTTTATA
192778 TACATACATA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
ATATAGTTTATAC
Done.