Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007863.1 Hibiscus syriacus cultivar Beakdansim tig00110234_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: 1653362
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:4219 original size:3 final size:3
Alignment explanation
Indices: 4205--4245 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
4195 AAATATGTAA
*
4205 AAT AAT ATT AAT AAT AAT AAT AAT ACAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
4246 GAACGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4538 original size:4 final size:4
Alignment explanation
Indices: 4529--4556 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4519 AAAGGAAATG
4529 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
4557 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:12860 original size:22 final size:22
Alignment explanation
Indices: 12835--12879 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
12825 AATTCAACAG
12835 TATAAAAATAATCCTATAATAT
1 TATAAAAATAATCCTATAATAT
*
12857 TATAAAAATAATCCTATACTAT
1 TATAAAAATAATCCTATAATAT
12879 T
1 T
12880 TTCTATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TATAAAAATAATCCTATAATAT
Found at i:14790 original size:29 final size:30
Alignment explanation
Indices: 14734--14806 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
14724 GAAAATTACC
* *
14734 ATTTAGGTCACTAAATTTTCCAAAATTTAT
1 ATTTAGCTCACTAAACTTTCCAAAATTTAT
14764 ACTTTAGC-CACTAAACTTT-CAAAATTTAT
1 A-TTTAGCTCACTAAACTTTCCAAAATTTAT
*
14793 ATTTTGCTCACTAA
1 ATTTAGCTCACTAA
14807 CCAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 5 0.13
29 17 0.45
30 11 0.29
31 5 0.13
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (30 bp):
ATTTAGCTCACTAAACTTTCCAAAATTTAT
Found at i:17784 original size:28 final size:28
Alignment explanation
Indices: 17753--17813 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
17743 ATCGAAATTG
17753 AAAAACT-TTTTTTTGTCATTGATATTA
1 AAAAACTCTTTTTTTGTCATTGATATTA
*
17780 AAAAACTCTTTTTTTGTCATTGATGTTA
1 AAAAACTCTTTTTTTGTCATTGATATTA
17808 AAAAAC
1 AAAAAC
17814 AGTTTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (28 bp):
AAAAACTCTTTTTTTGTCATTGATATTA
Found at i:17824 original size:29 final size:28
Alignment explanation
Indices: 17760--17824 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
17750 TTGAAAAACT
*
17760 TTTTTTTGTCATTGATATTAAAAAACTC
1 TTTTTTTGTCATTGATATTAAAAAACAC
* *
17788 TTTTTTTGTCATTGATGTTAAAAAACAG
1 TTTTTTTGTCATTGATATTAAAAAACAC
17816 TTTTATTTG
1 TTTT-TTTG
17825 ATTTAACGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTTTTTGTCATTGATATTAAAAAACAC
Found at i:24303 original size:16 final size:16
Alignment explanation
Indices: 24282--24321 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
24272 ATTAATTTTT
24282 CTCAAAACAATATCAC
1 CTCAAAACAATATCAC
*
24298 CTCAAATAATAATATCAC
1 CTC-AA-AACAATATCAC
24316 CTCAAA
1 CTCAAA
24322 TAATAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 4 0.19
18 13 0.62
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (16 bp):
CTCAAAACAATATCAC
Found at i:24313 original size:18 final size:18
Alignment explanation
Indices: 24290--24330 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
24280 TTCTCAAAAC
24290 AATATCACCTCAAATAAT
1 AATATCACCTCAAATAAT
24308 AATATCACCTCAAATAAT
1 AATATCACCTCAAATAAT
24326 AATAT
1 AATAT
24331 TACATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATCACCTCAAATAAT
Found at i:26671 original size:31 final size:32
Alignment explanation
Indices: 26636--26706 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
26626 TCATGTTTTG
26636 CCCCCTTATTTTCTATAATTAATTATACTTT-
1 CCCCCTTATTTTCTATAATTAATTATACTTTA
* * **
26667 CCCCCTCATTTTTTATGGTTAATTATACTTTA
1 CCCCCTTATTTTCTATAATTAATTATACTTTA
*
26699 TCCCCTTA
1 CCCCCTTA
26707 AGTTGGAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.23, C:0.25, G:0.03, T:0.49
Consensus pattern (32 bp):
CCCCCTTATTTTCTATAATTAATTATACTTTA
Found at i:30864 original size:19 final size:19
Alignment explanation
Indices: 30842--30879 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30832 AGGATGAGAG
30842 CATTTATATTCC-CTCATTT
1 CATTT-TATTCCTCTCATTT
*
30861 CATTTTCTTCCTCTCATTT
1 CATTTTATTCCTCTCATTT
30880 TCCATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (19 bp):
CATTTTATTCCTCTCATTT
Found at i:30887 original size:21 final size:18
Alignment explanation
Indices: 30850--30889 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
30840 AGCATTTATA
30850 TTCCCTCATTTCATTTTC
1 TTCCCTCATTTCATTTTC
30868 TTCCTCTCATTTTCCATTTTC
1 TTCC-CTCA-TTT-CATTTTC
30889 T
1 T
30890 ACTTCCTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 3 0.16
21 8 0.42
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCCTCATTTCATTTTC
Found at i:31466 original size:21 final size:20
Alignment explanation
Indices: 31438--31478 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
31428 GGGTTTTCAG
* *
31438 AAGGGAGTATTGATATTGCC
1 AAGGGAGTATCGATACTGCC
31458 AAGGTGAGTATCGATACTGCC
1 AAGG-GAGTATCGATACTGCC
31479 TACAATATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (20 bp):
AAGGGAGTATCGATACTGCC
Found at i:33038 original size:43 final size:45
Alignment explanation
Indices: 32990--33077 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
32980 CATGCATAAC
32990 CTACTGCTTAAAG-C-CGTTTTCAGCATGCCTGTGTTTATGAAAT
1 CTACTGCTTAAAGCCACGTTTTCAGCATGCCTGTGTTTATGAAAT
33033 CTACTGCTTAAAGCCACGTTTTCAGCATGCCTGTGTTTATGAAAT
1 CTACTGCTTAAAGCCACGTTTTCAGCATGCCTGTGTTTATGAAAT
33078 TCTTATGCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 13 0.30
44 1 0.02
45 29 0.67
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (45 bp):
CTACTGCTTAAAGCCACGTTTTCAGCATGCCTGTGTTTATGAAAT
Found at i:36741 original size:26 final size:26
Alignment explanation
Indices: 36682--36743 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
36672 TATGCATTCA
* *
36682 TAAATTTCAATCTCAATCTTAAATCC
1 TAAATTTTAATATCAATCTTAAATCC
*
36708 TAAATTTTAATATCAAT-TCTAAATCT
1 TAAATTTTAATATCAATCT-TAAATCC
36734 TAAATTTTAA
1 TAAATTTTAA
36744 AAATTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATTTTAATATCAATCTTAAATCC
Found at i:38282 original size:156 final size:155
Alignment explanation
Indices: 37998--38308 Score: 570
Period size: 156 Copynumber: 2.0 Consensus size: 155
37988 AGACTTGATT
*
37998 TTCATATAGGAAGCTAAAAGCATGTTTTTGTGCATATTTTCACCATTGTATTCATATTTCATCTT
1 TTCATATAGGAAGCTAAAAGCATGTTTTTGTGCATATTTTCACCATTGTATCCATATTTCATCTT
*
38063 CTAAATCAAAACAAACATAATTTCCATAATTAATTTCAAATTATAATTAGAATATGGACAATTAA
66 CTAAATCAAAACAAACATAATTTCCATAATTAAGTTCAAATTATAATTAGAATATGGACAATTAA
38128 TCAATATATATATATATATATATATA
131 TC-ATATATATATATATATATATATA
*
38154 TTCATATAGGAAGCTAAAAGCATGTTTTTGTGCAGT-TTTTCACTATTGTATCCATATTTCATCT
1 TTCATATAGGAAGCTAAAAGCATGTTTTTGTGCA-TATTTTCACCATTGTATCCATATTTCATCT
38218 TCTAAATCAAAACAAACATAATTTCCATAATTAAGTTCAAATTATAATTAGAATATGGACAATTA
65 TCTAAATCAAAACAAACATAATTTCCATAATTAAGTTCAAATTATAATTAGAATATGGACAATTA
38283 ATCATATATATATATATATATATATA
130 ATCATATATATATATATATATATATA
38309 CCATAATCGT
Statistics
Matches: 151, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
155 23 0.15
156 127 0.84
157 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (155 bp):
TTCATATAGGAAGCTAAAAGCATGTTTTTGTGCATATTTTCACCATTGTATCCATATTTCATCTT
CTAAATCAAAACAAACATAATTTCCATAATTAAGTTCAAATTATAATTAGAATATGGACAATTAA
TCATATATATATATATATATATATA
Found at i:38546 original size:7 final size:7
Alignment explanation
Indices: 38521--38612 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
38511 GCTAAGCCCC
38521 AAACTC-
1 AAACTCT
*
38527 AAATTCT
1 AAACTCT
38534 AAACTCT
1 AAACTCT
*
38541 ACACTCT
1 AAACTCT
38548 AAA-TCCT
1 AAACT-CT
*
38555 AAACTAT
1 AAACTCT
38562 AAACTCT
1 AAACTCT
*
38569 AAACCCT
1 AAACTCT
38576 AAA-TCCT
1 AAACT-CT
* *
38583 ATACCCT
1 AAACTCT
*
38590 AAATTCT
1 AAACTCT
38597 AAAC-CTT
1 AAACTC-T
38604 AAACTCT
1 AAACTCT
38611 AA
1 AA
38613 TTCTTAAACC
Statistics
Matches: 65, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
6 7 0.11
7 56 0.86
8 2 0.03
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
AAACTCT
Found at i:38577 original size:28 final size:28
Alignment explanation
Indices: 38533--38606 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
38523 ACTCAAATTC
* * *
38533 TAAACTCTACACTCTAAATCCTAAACTA
1 TAAACTCTAAACCCTAAATCCTAAACCA
* *
38561 TAAACTCTAAACCCTAAATCCTATACCC
1 TAAACTCTAAACCCTAAATCCTAAACCA
* *
38589 TAAATTCTAAACCTTAAA
1 TAAACTCTAAACCCTAAA
38607 CTCTAATTCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACTCTAAACCCTAAATCCTAAACCA
Found at i:38612 original size:21 final size:22
Alignment explanation
Indices: 38521--38622 Score: 83
Period size: 21 Copynumber: 4.9 Consensus size: 22
38511 GCTAAGCCCC
*
38521 AAACTC-AAATTCTAAA-CTCT
1 AAACTCTAAATTCTAAACCTAT
* *
38541 ACACTCTAAATCCTAAA-CTAT
1 AAACTCTAAATTCTAAACCTAT
**
38562 AAACTCTAAACCCTAAATCCTAT
1 AAACTCTAAATTCTAAA-CCTAT
*
38585 --ACCCTAAATTCTAAACCT-T
1 AAACTCTAAATTCTAAACCTAT
38604 AAACTCT-AATTCTTAAACC
1 AAACTCTAAATTC-TAAACC
38623 CTAACCCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.01
20 13 0.19
21 49 0.73
23 4 0.06
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.29
Consensus pattern (22 bp):
AAACTCTAAATTCTAAACCTAT
Found at i:38770 original size:2 final size:2
Alignment explanation
Indices: 38763--38825 Score: 110
Period size: 2 Copynumber: 31.5 Consensus size: 2
38753 AGTTTTACAT
38763 TA TA TA TA TA TA TA TA TA TA TA TA T- 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
38804 TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA T-A TA T
38826 TTATTTTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39393 original size:17 final size:18
Alignment explanation
Indices: 39371--39404 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39361 GCCATTTTTT
39371 TTAAAAAT-ATTTTAAAG
1 TTAAAAATAATTTTAAAG
*
39388 TTAAAATTAATTTTAAA
1 TTAAAAATAATTTTAAA
39405 AATATGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAAAAATAATTTTAAAG
Found at i:47394 original size:43 final size:43
Alignment explanation
Indices: 47333--47420 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
47323 AAGGAGTCTC
47333 ACCATTACGTGACAAGACTGCACTTTTCTTGCATGAAGTTGAT
1 ACCATTACGTGACAAGACTGCACTTTTCTTGCATGAAGTTGAT
47376 ACCATTACGTGACAAGACTGCACTTTTCTTGCATGAAGTTGAT
1 ACCATTACGTGACAAGACTGCACTTTTCTTGCATGAAGTTGAT
47419 AC
1 AC
47421 TGGCCCAACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (43 bp):
ACCATTACGTGACAAGACTGCACTTTTCTTGCATGAAGTTGAT
Found at i:47829 original size:3 final size:3
Alignment explanation
Indices: 47821--47875 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
47811 GATTAAAATA
* *
47821 TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAA TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
47868 TAT CAT TA
1 TAT TAT TA
47876 ATACTAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:62418 original size:17 final size:18
Alignment explanation
Indices: 62385--62418 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62375 GCTAATTTTG
*
62385 GTATCGGTACTTAAGGGA
1 GTATCGATACTTAAGGGA
62403 GTATCGATAC-TAAGGG
1 GTATCGATACTTAAGGG
62419 TAGAGTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (18 bp):
GTATCGATACTTAAGGGA
Found at i:62616 original size:19 final size:20
Alignment explanation
Indices: 62592--62629 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62582 AGCCATTTTC
62592 GGTATCGATAC-CAAGGGTG
1 GGTATCGATACTCAAGGGTG
*
62611 GGTATCGGTACTCAAGGGT
1 GGTATCGATACTCAAGGGT
62630 CAATATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.24
Consensus pattern (20 bp):
GGTATCGATACTCAAGGGTG
Found at i:63479 original size:21 final size:21
Alignment explanation
Indices: 63448--63488 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
63438 GAGAGCTCTT
63448 ATTTTGTAAACGTCACATTTAA
1 ATTTTGTAAAC-TCACATTTAA
*
63470 ATTTT-TAAACTCATATTTA
1 ATTTTGTAAACTCACATTTA
63489 TGTTATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTTTGTAAACTCACATTTAA
Found at i:65560 original size:30 final size:30
Alignment explanation
Indices: 65526--65633 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 30
65516 CCATATTTGA
*
65526 CGATGTTGGAGGGATGTTATTGGTCAATGG
1 CGATGTTGGAGGGATGTTATTGGTCATTGG
* * * * *
65556 CGATGCTGTAGGGA-GACAATTCTCGGTTATTTGG
1 CGATGTTGGAGGGATG----TTATTGGTCA-TTGG
65590 C-AGTGTTGGAGGGATGTTATTGGTCATTGG
1 CGA-TGTTGGAGGGATGTTATTGGTCATTGG
*
65620 CGATGTTGAAGGGA
1 CGATGTTGGAGGGA
65634 GACCATTCTC
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
29 1 0.02
30 27 0.47
31 8 0.14
33 8 0.14
34 13 0.22
35 1 0.02
ACGTcount: A:0.20, C:0.09, G:0.38, T:0.32
Consensus pattern (30 bp):
CGATGTTGGAGGGATGTTATTGGTCATTGG
Found at i:65621 original size:64 final size:64
Alignment explanation
Indices: 65529--65652 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
65519 TATTTGACGA
* *
65529 TGTTGGAGGGATGTTATTGGTCAATGGCGATGCTGTAGGGAGACAATTCTCGGTTATTTGGCAG
1 TGTTGGAGGGATGTTATTGGTCAATGGCGATGCTGAAGGGAGACAATTCTCGATTATTTGGCAG
* * *
65593 TGTTGGAGGGATGTTATTGGTCATTGGCGATGTTGAAGGGAGACCATTCTCGATTATTTG
1 TGTTGGAGGGATGTTATTGGTCAATGGCGATGCTGAAGGGAGACAATTCTCGATTATTTG
65653 ACAATGTGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.35
Consensus pattern (64 bp):
TGTTGGAGGGATGTTATTGGTCAATGGCGATGCTGAAGGGAGACAATTCTCGATTATTTGGCAG
Found at i:67521 original size:2 final size:2
Alignment explanation
Indices: 67516--67550 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67506 ATTAAAGTTA
67516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67551 ATTTTGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70296 original size:64 final size:64
Alignment explanation
Indices: 70228--70405 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
70218 GAACACTTGA
* * * *
70228 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
* * * **
70292 TGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * * * *
70357 TGCATTGATGCATTGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
70406 CTATTAATTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
64 51 0.53
65 45 0.47
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:70379 original size:65 final size:65
Alignment explanation
Indices: 70246--70405 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
70236 TGCACCAAGT
* **
70246 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
* ** * *
70310 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATTGATGCATTGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAG
70374 A
65 A
* *
70375 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
70406 CTATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
Found at i:76895 original size:22 final size:21
Alignment explanation
Indices: 76853--76892 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
76843 GAGTTTGTTT
*
76853 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
76874 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
76893 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:78887 original size:64 final size:64
Alignment explanation
Indices: 78819--78996 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
78809 GAACACTTGA
* * * *
78819 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
* * * * **
78883 TGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTTGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * * *
78948 TGCATCGATGCATTGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
78997 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.53
65 45 0.47
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:78970 original size:65 final size:65
Alignment explanation
Indices: 78837--78996 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
78827 TGCACCAAGT
* **
78837 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
* * ** *
78901 GTGCATCGATGCATCAAATGCATTTGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATTGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAG
78965 A
65 A
* *
78966 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
78997 CAATTAATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 35 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
Found at i:79036 original size:65 final size:64
Alignment explanation
Indices: 78838--79045 Score: 194
Period size: 65 Copynumber: 3.2 Consensus size: 64
78828 GCACCAAGTG
* * ** *
78838 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGGATTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGA-TG
78902 -
64 A
* * * * *
78902 TGCATCGATGCATCAAATGCATTTGATGTTTTGAAAATATTCAGAGTGCATCGATGCATTGA-GA
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGATGA
* *
78966 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
79028 CTGA
62 -TGA
79032 TGCATCGGTGCATG
1 TGCATCGGTGCATG
79046 CCTTTGAATA
Statistics
Matches: 121, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 49 0.40
65 59 0.49
66 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGATGA
Found at i:83741 original size:10 final size:10
Alignment explanation
Indices: 83728--83763 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
83718 TCCCAAATAT
83728 TTAATTTAAA
1 TTAATTTAAA
*
83738 TTAATATTTAA
1 TTAAT-TTAAA
83749 TTAATTTAAA
1 TTAATTTAAA
83759 TTAAT
1 TTAAT
83764 AAAATCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAATTTAAA
Found at i:91949 original size:6 final size:6
Alignment explanation
Indices: 91938--91962 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91928 GGGGTCCTTA
91938 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
91963 TGGGCTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:92524 original size:20 final size:19
Alignment explanation
Indices: 92473--92528 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
92463 ATTAGGAATC
92473 ATTTTAAATGTA--TTTTT
1 ATTTTAAATGTATCTTTTT
*
92490 ATTTTAGGAA-ATATCTTTTT
1 ATTTTA--AATGTATCTTTTT
92510 AATTTTAAATGTATCTTTT
1 -ATTTTAAATGTATCTTTT
92529 GGGGTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 4 0.13
20 13 0.42
21 6 0.19
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (19 bp):
ATTTTAAATGTATCTTTTT
Found at i:96800 original size:22 final size:22
Alignment explanation
Indices: 96774--96826 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
96764 TTCCATTTCG
*
96774 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTATACAGTTGT
*
96796 TGTTGCGATAGTATACAGTTGT
1 CGTTGCGATAGTATACAGTTGT
96818 CGTTGCGAT
1 CGTTGCGAT
96827 TTTCCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTATACAGTTGT
Found at i:96928 original size:6 final size:6
Alignment explanation
Indices: 96917--96972 Score: 75
Period size: 6 Copynumber: 10.0 Consensus size: 6
96907 ACGTGTCGAG
*
96917 ACGACC ACGACC ACGACC ACGACC ACGATC ACGA-C ACGA-C ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
96963 -CGA-C ACGACC
1 ACGACC ACGACC
96973 CGAGACGAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
4 1 0.02
5 16 0.35
6 29 0.63
ACGTcount: A:0.34, C:0.46, G:0.18, T:0.02
Consensus pattern (6 bp):
ACGACC
Found at i:96972 original size:10 final size:10
Alignment explanation
Indices: 96922--96980 Score: 64
Period size: 10 Copynumber: 5.5 Consensus size: 10
96912 TCGAGACGAC
96922 CACGACCACGA
1 CACGACC-CGA
96933 CCACGACCACGA
1 -CACGACC-CGA
*
96945 TCACGACACGA
1 -CACGACCCGA
96956 CACGACCCGA
1 CACGACCCGA
96966 CACGACCCGA
1 CACGACCCGA
*
96976 GACGA
1 CACGA
96981 GACAAGACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
10 23 0.53
11 3 0.07
12 17 0.40
ACGTcount: A:0.34, C:0.44, G:0.20, T:0.02
Consensus pattern (10 bp):
CACGACCCGA
Found at i:97513 original size:20 final size:20
Alignment explanation
Indices: 97488--97556 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
97478 TTCAACTATT
*
97488 GCAACGCGAAATGAAAAATC
1 GCAACGCGAAATGGAAAATC
97508 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
97528 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
97548 GCAACGCGA
1 GCAACGCGA
97557 TTTTCAACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.22, G:0.25, T:0.09
Consensus pattern (20 bp):
GCAACGCGAAATGGAAAATC
Found at i:97570 original size:41 final size:41
Alignment explanation
Indices: 97464--97581 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
97454 ACTATAGACT
*
97464 ATCGCAACGCGATTTTCAACTATTGCAACGCGAAATGAAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
** ** * *
97505 ATCGCAACGCGAAATGGAA-AATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
97545 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
97582 CAACGCGAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 33 0.52
41 31 0.48
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
Found at i:97873 original size:11 final size:11
Alignment explanation
Indices: 97854--97888 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
97844 ATCACAGATC
*
97854 TTTTTTTTTTA
1 TTTTCTTTTTA
97865 TTTTCTTTTTA
1 TTTTCTTTTTA
97876 TTTTCTTTTTA
1 TTTTCTTTTTA
97887 TT
1 TT
97889 CTCCACGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:101700 original size:71 final size:71
Alignment explanation
Indices: 101616--101763 Score: 287
Period size: 71 Copynumber: 2.1 Consensus size: 71
101606 AACAAAACTT
*
101616 GAAAGTTAATTTAGCTTTCAAAGGGATTTAAAACCATTGATATGAAGTGGGTCTATAAGACGAAA
1 GAAACTTAATTTAGCTTTCAAAGGGATTTAAAACCATTGATATGAAGTGGGTCTATAAGACGAAA
101681 CGGAAG
66 CGGAAG
101687 GAAACTTAATTTAGCTTTCAAAGGGATTTAAAACCATTGATATGAAGTGGGTCTATAAGACGAAA
1 GAAACTTAATTTAGCTTTCAAAGGGATTTAAAACCATTGATATGAAGTGGGTCTATAAGACGAAA
101752 CGGAAG
66 CGGAAG
101758 GAAACT
1 GAAACT
101764 GGTGAAGTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (71 bp):
GAAACTTAATTTAGCTTTCAAAGGGATTTAAAACCATTGATATGAAGTGGGTCTATAAGACGAAA
CGGAAG
Found at i:104219 original size:23 final size:24
Alignment explanation
Indices: 104179--104230 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
104169 TTGAAATTTT
*
104179 AAATTGAACTATACAAATA-TAGAA
1 AAATTGAACTATAAAAATATTA-AA
104203 AAATTGAA-TATAAAAATATTAAA
1 AAATTGAACTATAAAAATATTAAA
104226 AAATT
1 AAATT
104231 AAAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (24 bp):
AAATTGAACTATAAAAATATTAAA
Found at i:104851 original size:15 final size:15
Alignment explanation
Indices: 104829--104862 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
104819 TAATAACTGG
104829 ATTT-TTATTTTTAT
1 ATTTGTTATTTTTAT
*
104843 TTTTGTTATTTTTAT
1 ATTTGTTATTTTTAT
104858 ATTTG
1 ATTTG
104863 CTTTAGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
ATTTGTTATTTTTAT
Found at i:111774 original size:130 final size:128
Alignment explanation
Indices: 111612--111854 Score: 400
Period size: 131 Copynumber: 1.9 Consensus size: 128
111602 CCTGGTAATT
111612 TTGAAATTTATTTTTTTTAAATATTTAAAATATTACTATATTTAT-AAAAAAAAACCCTAACTTT
1 TTGAAATTTATTTTTTTTAAATATTTAAAATATTACTATATTTATAAAAAAAAAACCCTAACTTT
111676 TATTATATTATAAAACAGCCCCAAAATC-CAAAATCATAACCTTAATTCACCCTTGTCGCCCTC
66 TATTATATTATAAAACAGCCCCAAAATCTC-AAATCATAACCTTAATTCACCCTTGTCGCCCTC
111739 TTGAAATTTAATTTTTTTTAAAAATATTTAAAATATTACTATATTTATAAAAAAAAAACCCTAAC
1 TTGAAATTT-ATTTTTTTT--AAATATTTAAAATATTACTATATTTATAAAAAAAAAACCCTAAC
* * * *
111804 TTTTTTTATGTTATAAAATAGCCCCAAAATCTCAAATCCTAACCTTAATTC
63 TTTTATTATATTATAAAACAGCCCCAAAATCTCAAATCATAACCTTAATTC
111855 GTCGTCGCCG
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
127 9 0.08
128 9 0.08
130 27 0.25
131 61 0.57
132 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (128 bp):
TTGAAATTTATTTTTTTTAAATATTTAAAATATTACTATATTTATAAAAAAAAAACCCTAACTTT
TATTATATTATAAAACAGCCCCAAAATCTCAAATCATAACCTTAATTCACCCTTGTCGCCCTC
Found at i:112666 original size:17 final size:19
Alignment explanation
Indices: 112641--112682 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
112631 TATTTTATTT
*
112641 TATTTATAAT-ATTAAAA-
1 TATTGATAATAATTAAAAC
112658 TATTGATAATAATTAAAAC
1 TATTGATAATAATTAAAAC
112677 TATTGA
1 TATTGA
112683 ATAGTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 7 0.32
19 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
TATTGATAATAATTAAAAC
Found at i:112780 original size:20 final size:22
Alignment explanation
Indices: 112741--112782 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
112731 AAACTGTTAA
112741 AAAAGACATTGATATTTATTAT
1 AAAAGACATTGATATTTATTAT
*
112763 AAAAGA-ATT-ATTTTTATTAT
1 AAAAGACATTGATATTTATTAT
112783 TGTAACCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
AAAAGACATTGATATTTATTAT
Found at i:114176 original size:21 final size:21
Alignment explanation
Indices: 114150--114196 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
114140 ATGTAAACGA
114150 GTTGAGTTAAGTTCGAGTACT
1 GTTGAGTTAAGTTCGAGTACT
*
114171 GTTGAGTTGAGTTCGAGTACT
1 GTTGAGTTAAGTTCGAGTACT
114192 GTTGA
1 GTTGA
114197 ACTCGACTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (21 bp):
GTTGAGTTAAGTTCGAGTACT
Found at i:114473 original size:2 final size:2
Alignment explanation
Indices: 114466--114496 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114456 ATATTTTAAA
114466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114497 CAAGTTCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122819 original size:23 final size:21
Alignment explanation
Indices: 122773--122822 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
122763 TTTATTATTT
* *
122773 TATT-TTATTATTATAATAAT
1 TATTATTATTATTATAAAAAA
122793 TATTATTATTATTACTAAAAAAA
1 TATTATTATTATTA-T-AAAAAA
122816 TATTATT
1 TATTATT
122823 TACAAACAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 9 0.36
22 1 0.04
23 11 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATTATTATTATAAAAAA
Found at i:122822 original size:3 final size:3
Alignment explanation
Indices: 122764--122806 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
122754 TATCCCGATT
* *
122764 TTA TTA TT- TTA TT- TTA TTA TTA TAA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
122807 CTAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:124203 original size:3 final size:3
Alignment explanation
Indices: 124195--124231 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
124185 TGTTTACTTT
124195 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
124232 AATTTAGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:124303 original size:19 final size:19
Alignment explanation
Indices: 124281--124335 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
124271 TTATTAAAAT
124281 CTTATTTAATTATTTTTAA
1 CTTATTTAATTATTTTTAA
124300 CTTATTTTAATCT-TGTTTTAA
1 CTTA-TTTAAT-TAT-TTTTAA
*
124321 --TATTTATTTATTTTT
1 CTTATTTAATTATTTTT
124336 CAATATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 6 0.19
20 7 0.23
21 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
CTTATTTAATTATTTTTAA
Found at i:124441 original size:21 final size:23
Alignment explanation
Indices: 124408--124457 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
124398 ATAAATATCC
124408 TATTTTATAAATTATATATTAAT
1 TATTTTATAAATTATATATTAAT
* *
124431 TATTTT-T-AATTATTTATTTAT
1 TATTTTATAAATTATATATTAAT
124452 T-TTTTA
1 TATTTTA
124458 ATATCGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 1 0.04
23 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTTATAAATTATATATTAAT
Found at i:126584 original size:20 final size:20
Alignment explanation
Indices: 126540--126590 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
126530 GCATTTGTAT
*
126540 TTTGCATTTGTACATTTTTACG
1 TTTGCA-TT-TACATTTTCACG
* *
126562 TTTGTATTTACATTTTCATG
1 TTTGCATTTACATTTTCACG
126582 TTTGCATTT
1 TTTGCATTT
126591 GCATCTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 18 0.72
21 2 0.08
22 5 0.20
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (20 bp):
TTTGCATTTACATTTTCACG
Found at i:131196 original size:114 final size:114
Alignment explanation
Indices: 130996--131333 Score: 577
Period size: 114 Copynumber: 3.0 Consensus size: 114
130986 GTGCCATGTT
130996 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
131061 GTTTGGTATGAACCCCAAAACTAATCATTAGATTTGAAAGATGAATTTG
66 GTTTGGTATGAACCACAAAACTAATCATTAGATTTGAAAGATGAATTTG
*
131110 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
131175 GTTTGGTATGAATCGCAAAACTAATCATTAGATTTGAAAGATGAATTTG
66 GTTTGGTATGAACCACAAAACTAATCATTAGATTTGAAAGATGAATTTG
* * *
131224 CTCATAGTATAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * *
131289 GTTTGGTAGGAACCACAGAACCAATCATTAGAATTGAAAGATGAA
66 GTTTGGTATGAACCACAAAACTAATCATTAGATTTGAAAGATGAA
131334 CTGCATGATC
Statistics
Matches: 211, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 211 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTTGGTATGAACCACAAAACTAATCATTAGATTTGAAAGATGAATTTG
Found at i:131913 original size:26 final size:26
Alignment explanation
Indices: 131871--131925 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
131861 AGATGATAAG
*
131871 CCACTGTGTCAGTCTGGAACGGATTA
1 CCACTGTGTCAGCCTGGAACGGATTA
*
131897 CCACTGTGTTAGCCTGGAACGGATTA
1 CCACTGTGTCAGCCTGGAACGGATTA
131923 CCA
1 CCA
131926 AGCTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (26 bp):
CCACTGTGTCAGCCTGGAACGGATTA
Found at i:133948 original size:22 final size:22
Alignment explanation
Indices: 133919--133973 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
133909 ATCTACACTC
133919 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
133941 TTTAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
133963 TTCAAAGATGA
1 TTCAAAGATGA
133974 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:134579 original size:113 final size:114
Alignment explanation
Indices: 134380--134933 Score: 800
Period size: 113 Copynumber: 4.9 Consensus size: 114
134370 AGTTCAAATC
* * *
134380 CATCATTCAATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
134445 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTGAATT
* *
134493 CATCATTCGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
134558 AGAAGAAGTTCATAATAAGAAGAACTTGTTCGA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTGAATT
* * *
134606 CATCATTCTATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
134671 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTGAATT
** * * *
134719 CATCATTCGATGGATCAGTATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
1 CATCATTCGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * *
134783 AAGAATAAATTCATAATGAGAAGAATTTGTTCCAACCTTTT-GTTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTT-CAACCTTTTCGCTTGAATT
* * * *
134833 CATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAAT-AGAAGAACTCATCTGAAG-AGG
1 CATCATTCGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* *
134895 AAGAAAAAGTTCATAATGTGAAGAACTTGTTCAACCTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
134934 GCATGACTCT
Statistics
Matches: 405, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
111 8 0.02
112 34 0.08
113 310 0.77
114 48 0.12
115 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (114 bp):
CATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTGAATT
Found at i:136710 original size:3 final size:3
Alignment explanation
Indices: 136702--136730 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
136692 TGTTTACTTT
136702 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
136731 TAGCCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:136935 original size:21 final size:23
Alignment explanation
Indices: 136902--136951 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
136892 ATAAATATCC
136902 TATTTTATAAATTATATATTAAT
1 TATTTTATAAATTATATATTAAT
* *
136925 TATTTT-T-AATTATTTATTTAT
1 TATTTTATAAATTATATATTAAT
136946 T-TTTTA
1 TATTTTA
136952 ATATCGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 1 0.04
23 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTTATAAATTATATATTAAT
Found at i:137038 original size:120 final size:119
Alignment explanation
Indices: 136809--137026 Score: 296
Period size: 120 Copynumber: 1.8 Consensus size: 119
136799 TTTTAATCTG
* * * * *
136809 TTTTAATATTTATTTATTTTTCAATATTAAGAAACGGCAGTCTTAAAATAACTGGATGTCCATTT
1 TTTTAATATTTATTTATTTTTCAATATGAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCCATTT
*
136874 TCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAATTAT
66 TCTGATATTTCTAAATAAATAAATATCCTATTTTATAAATTATATATTAATTAT
* * * *
136928 TTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAG-CC-
1 TTTTAA-TATTTATTTATTTTTCAATAT-GAAGAAAAG-GCAGTCTTAAAACAACTAGAAGTCCA
*
136991 TTTTCTGATATTTCTAAATAAATAAATATCTTATTT
63 TTTTCTGATATTTCTAAATAAATAAATATCCTATTT
137027 ATATTAATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 6 0.07
120 54 0.64
121 9 0.11
122 16 0.19
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (119 bp):
TTTTAATATTTATTTATTTTTCAATATGAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCCATTT
TCTGATATTTCTAAATAAATAAATATCCTATTTTATAAATTATATATTAATTAT
Found at i:147161 original size:243 final size:243
Alignment explanation
Indices: 146733--147220 Score: 976
Period size: 243 Copynumber: 2.0 Consensus size: 243
146723 AAATAGAAAA
146733 TTGTTATATTCAAAAAAACGTTATCATTTGGTACCATTATTGTTTGCTAATTTGGTTTGTGTTCA
1 TTGTTATATTCAAAAAAACGTTATCATTTGGTACCATTATTGTTTGCTAATTTGGTTTGTGTTCA
146798 AATATCCTAAATTCTAGGGTTTATGTTCACCTTAGGCTTTATGGAATTGGTAAAGGATTTTGATT
66 AATATCCTAAATTCTAGGGTTTATGTTCACCTTAGGCTTTATGGAATTGGTAAAGGATTTTGATT
146863 TTTTGAGGTTGTAAAATCAATTTCAAGCATGATTTATGATTAAAATCAACTATACATGCCTATAT
131 TTTTGAGGTTGTAAAATCAATTTCAAGCATGATTTATGATTAAAATCAACTATACATGCCTATAT
146928 AAGCTATGGGTAATTTGGGCCTAACCCTAAACTTGGAGAAAGATTATG
196 AAGCTATGGGTAATTTGGGCCTAACCCTAAACTTGGAGAAAGATTATG
146976 TTGTTATATTCAAAAAAACGTTATCATTTGGTACCATTATTGTTTGCTAATTTGGTTTGTGTTCA
1 TTGTTATATTCAAAAAAACGTTATCATTTGGTACCATTATTGTTTGCTAATTTGGTTTGTGTTCA
147041 AATATCCTAAATTCTAGGGTTTATGTTCACCTTAGGCTTTATGGAATTGGTAAAGGATTTTGATT
66 AATATCCTAAATTCTAGGGTTTATGTTCACCTTAGGCTTTATGGAATTGGTAAAGGATTTTGATT
147106 TTTTGAGGTTGTAAAATCAATTTCAAGCATGATTTATGATTAAAATCAACTATACATGCCTATAT
131 TTTTGAGGTTGTAAAATCAATTTCAAGCATGATTTATGATTAAAATCAACTATACATGCCTATAT
147171 AAGCTATGGGTAATTTGGGCCTAACCCTAAACTTGGAGAAAGATTATG
196 AAGCTATGGGTAATTTGGGCCTAACCCTAAACTTGGAGAAAGATTATG
147219 TT
1 TT
147221 ATGATAAATT
Statistics
Matches: 245, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 245 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (243 bp):
TTGTTATATTCAAAAAAACGTTATCATTTGGTACCATTATTGTTTGCTAATTTGGTTTGTGTTCA
AATATCCTAAATTCTAGGGTTTATGTTCACCTTAGGCTTTATGGAATTGGTAAAGGATTTTGATT
TTTTGAGGTTGTAAAATCAATTTCAAGCATGATTTATGATTAAAATCAACTATACATGCCTATAT
AAGCTATGGGTAATTTGGGCCTAACCCTAAACTTGGAGAAAGATTATG
Found at i:148419 original size:13 final size:13
Alignment explanation
Indices: 148401--148426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148391 CCATAAATTG
148401 TAAAAATTGAACT
1 TAAAAATTGAACT
148414 TAAAAATTGAACT
1 TAAAAATTGAACT
148427 AGAAGGAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TAAAAATTGAACT
Found at i:164251 original size:19 final size:21
Alignment explanation
Indices: 164227--164265 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
164217 CCTTTTGACC
*
164227 GACAAC-AA-ATGATTTAAAA
1 GACAACTAATATGATATAAAA
164246 GACAACTAATATGATATAAA
1 GACAACTAATATGATATAAA
164266 CTTTTTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
GACAACTAATATGATATAAAA
Found at i:164441 original size:17 final size:18
Alignment explanation
Indices: 164404--164442 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
164394 CACATGATTT
164404 ACAAAATAAGTAAGCGCC
1 ACAAAATAAGTAAGCGCC
164422 ACAAAATAAAGT-AG-GCC
1 ACAAAAT-AAGTAAGCGCC
164439 ACAA
1 ACAA
164443 GAAACCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (18 bp):
ACAAAATAAGTAAGCGCC
Found at i:167519 original size:21 final size:21
Alignment explanation
Indices: 167495--167540 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
167485 ATTTTTCCTA
167495 GGAAGTAACCAGTTTCTCATG
1 GGAAGTAACCAGTTTCTCATG
* * * *
167516 GGAATTTATCAGTTTCTCCTG
1 GGAAGTAACCAGTTTCTCATG
167537 GGAA
1 GGAA
167541 ATCATCAGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
GGAAGTAACCAGTTTCTCATG
Found at i:167547 original size:21 final size:21
Alignment explanation
Indices: 167504--167555 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
167494 AGGAAGTAAC
* * *
167504 CAGTTTCTCATGGGAATTTAT
1 CAGTTTCTCCTGGGAAATCAT
167525 CAGTTTCTCCTGGGAAATCAT
1 CAGTTTCTCCTGGGAAATCAT
*
167546 CAGCTTCTCC
1 CAGTTTCTCC
167556 ATCATCGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (21 bp):
CAGTTTCTCCTGGGAAATCAT
Found at i:172840 original size:13 final size:13
Alignment explanation
Indices: 172822--172857 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
172812 TTTTATGAAT
172822 AGTGAACAGTAAC
1 AGTGAACAGTAAC
*
172835 AGTGAACAGTACC
1 AGTGAACAGTAAC
*
172848 CGTGAACAGT
1 AGTGAACAGT
172858 GGGGTAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (13 bp):
AGTGAACAGTAAC
Found at i:174560 original size:2 final size:2
Alignment explanation
Indices: 174553--174598 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
174543 AAATGAAACC
174553 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A- 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
174593 AT AT AT
1 AT AT AT
174599 TATTTAGGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:174575 original size:17 final size:17
Alignment explanation
Indices: 174553--174598 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
174543 AAATGAAACC
174553 ATATATATATATATAAT
1 ATATATATATATATAAT
174570 ATATATATATATATAAT
1 ATATATATATATATAAT
174587 ATATATATATAT
1 ATATATATATAT
174599 TATTTAGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATATATAAT
Found at i:174598 original size:15 final size:15
Alignment explanation
Indices: 174553--174597 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
174543 AAATGAAACC
174553 ATATATATATATATA
1 ATATATATATATATA
174568 ATATATATATATAT-
1 ATATATATATATATA
174582 ATAATATATATATATA
1 AT-ATATATATATATA
174598 TTATTTAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.07
15 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:175071 original size:20 final size:21
Alignment explanation
Indices: 175046--175107 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
175036 AAATTGAAAT
175046 GAAGCAGTGATAGCAGAGAG-
1 GAAGCAGTGATAGCAGAGAGA
* * *
175066 GAAGCAGCGGTAGCATAGAGA
1 GAAGCAGTGATAGCAGAGAGA
*
175087 GAAGCAGT-ATATCAGCAGAGA
1 GAAGCAGTGATAGCAG-AGAGA
175108 TGTCAAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.40, C:0.13, G:0.35, T:0.11
Consensus pattern (21 bp):
GAAGCAGTGATAGCAGAGAGA
Found at i:183150 original size:5 final size:5
Alignment explanation
Indices: 183140--183168 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
183130 CTGGGGATAT
183140 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
183169 ACGAACGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:185344 original size:22 final size:21
Alignment explanation
Indices: 185280--185345 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
185270 ACTAAAAAGA
*
185280 GTAATAAAAAGTAGATAAAACT-T
1 GTAATAAAAA-TAG--AAAATTAT
* *
185303 GTTATAAAATAAAGAAAATTAT
1 GTAATAAAA-ATAGAAAATTAT
185325 GTAATAAAAATAGAATAATTA
1 GTAATAAAAATAGAA-AATTA
185346 AAAACAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 10 0.29
22 14 0.40
23 10 0.29
24 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (21 bp):
GTAATAAAAATAGAAAATTAT
Found at i:185376 original size:29 final size:26
Alignment explanation
Indices: 185344--185399 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
185334 ATAGAATAAT
185344 TAAAAACAAAGAAAAATAAATATACAACA
1 TAAAAACAAAG-AAAA-AAATAT-CAACA
**
185373 TAAAATTAAAGAAAAAAATATCAACA
1 TAAAAACAAAGAAAAAAATATCAACA
185399 T
1 T
185400 TTAATAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 6 0.24
28 4 0.16
29 9 0.36
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.18
Consensus pattern (26 bp):
TAAAAACAAAGAAAAAAATATCAACA
Found at i:186656 original size:20 final size:19
Alignment explanation
Indices: 186631--186670 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
186621 TTTAAATTTT
186631 AAATATCAAAATATTCAAAA
1 AAATATCAAAATA-TCAAAA
186651 AAATATCAAAATATCAAAA
1 AAATATCAAAATATCAAAA
186670 A
1 A
186671 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATATCAAAATATCAAAA
Found at i:187900 original size:19 final size:21
Alignment explanation
Indices: 187876--187920 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
187866 AATTAGTATT
187876 TATTATTTTTAA-TAAA-TAA
1 TATTATTTTTAATTAAATTAA
187895 TATTA-TTTTAATTAAATTAA
1 TATTATTTTTAATTAAATTAA
187915 TATTAT
1 TATTAT
187921 ATTGTATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTTTTAATTAAATTAA
Found at i:189068 original size:30 final size:31
Alignment explanation
Indices: 189032--189089 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
189022 ATATCAACTT
*
189032 AAAAATCCGACATGA-CCCGAAATTTTTAAA
1 AAAAATCCAACATGATCCCGAAATTTTTAAA
* *
189062 AAAAATCTAACTTGATCCCGAAATTTTT
1 AAAAATCCAACATGATCCCGAAATTTTT
189090 TGGAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (31 bp):
AAAAATCCAACATGATCCCGAAATTTTTAAA
Found at i:189139 original size:33 final size:33
Alignment explanation
Indices: 189097--189174 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
189087 TTTTGGAAAA
* *
189097 ACCCAACCCGAATATCACAC-TTACAAAAACCCG
1 ACCCGACCCGAATATCAAACTTTA-AAAAACCCG
*
189130 ACCCGACCCGAATATCAAACTTTAAAAAATCCG
1 ACCCGACCCGAATATCAAACTTTAAAAAACCCG
189163 ACCCGACCCGAA
1 ACCCGACCCGAA
189175 CCCAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 38 0.93
34 3 0.07
ACGTcount: A:0.41, C:0.37, G:0.09, T:0.13
Consensus pattern (33 bp):
ACCCGACCCGAATATCAAACTTTAAAAAACCCG
Found at i:189191 original size:33 final size:33
Alignment explanation
Indices: 189121--189190 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
189111 TCACACTTAC
* *
189121 AAAAACCCGACCCGACCCGAATATCAAACTTTA
1 AAAAACCCGACCCGACCCGAATACCAAAATTTA
* *
189154 AAAAATCCGACCCGACCCGAA-CCCAAAATTTA
1 AAAAACCCGACCCGACCCGAATACCAAAATTTA
189186 AAAAA
1 AAAAA
189191 AAAATCCGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.47, C:0.31, G:0.09, T:0.13
Consensus pattern (33 bp):
AAAAACCCGACCCGACCCGAATACCAAAATTTA
Found at i:189232 original size:29 final size:30
Alignment explanation
Indices: 189165--189233 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
189155 AAAATCCGAC
189165 CCGACCCGAACCCAAAATTTAAAAAAAAAAT
1 CCGACCCGAACCCAAAATTT-AAAAAAAAAT
* *
189196 CCG-GCCGATCCCAAAATTT-AAAAAAAAT
1 CCGACCCGAACCCAAAATTTAAAAAAAAAT
*
189224 CTGACCCGAA
1 CCGACCCGAA
189234 TACTAAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 11 0.34
29 4 0.12
30 14 0.44
31 3 0.09
ACGTcount: A:0.48, C:0.28, G:0.10, T:0.14
Consensus pattern (30 bp):
CCGACCCGAACCCAAAATTTAAAAAAAAAT
Found at i:199953 original size:2 final size:2
Alignment explanation
Indices: 199946--199975 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
199936 TTTTCGTCTC
199946 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
199976 GTTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:200132 original size:38 final size:37
Alignment explanation
Indices: 199958--200215 Score: 212
Period size: 38 Copynumber: 6.9 Consensus size: 37
199948 ATATATATAT
* *
199958 ATATATATATATATTATAG-TTTAAAAATATTTTT-AAA
1 ATATATATAT-TA-TATAGTTTTTAAAACATTTTTGAAA
* *
199995 ATATATATATAATATATAGTTTTGAAAACATGTTTGAAAA
1 ATATATATAT--TATATAGTTTTTAAAACATTTTTG-AAA
* * *
200035 CATTTACATATTATATAG-TTTTAAAATATTTTTGAAA
1 -ATATATATATTATATAGTTTTTAAAACATTTTTGAAA
*
200072 ATA-A-ATAATATATAGTTTTTTAAAACATTTTTGAAA
1 ATATATATATTATATAG-TTTTTAAAACATTTTTGAAA
*
200108 ATATATATATTGTATAGTTTTTTAAAACA-TTTTGAAA
1 ATATATATATTATATAG-TTTTTAAAACATTTTTGAAA
* *
200145 ATA-A-ATATAATATAGTTTTGAAAACATTTTTTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACA---TTTTTGAAA
* *
200183 ACT-TATATA-TATATAGCTTTATGAAACATTTTT
1 A-TATATATATTATATAG-TTTTTAAAACATTTTT
200216 TTTGAAAATT
Statistics
Matches: 184, Mismatches: 20, Indels: 34
0.77 0.08 0.14
Matches are distributed among these distances:
34 20 0.11
35 10 0.05
36 24 0.13
37 35 0.19
38 58 0.32
39 15 0.08
40 14 0.08
41 8 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATATATATTATATAGTTTTTAAAACATTTTTGAAA
Found at i:200146 original size:73 final size:73
Alignment explanation
Indices: 199958--200175 Score: 237
Period size: 73 Copynumber: 2.9 Consensus size: 73
199948 ATATATATAT
* * * *
199958 ATATATATATATATTATAGTTTAAAAATATTTTTAAAATATATATATAATATATAGTTTTGAAAA
1 ATATACATAT-TA-TATAGTTTTAAAACATTTTTGAAA-ATA-A-ATAATATATAGTTTTGAAAA
*
200023 CATGTTTGAAAAC
61 CATTTTTGAAAAC
* * *
200036 ATTTACATATTATATAGTTTTAAAATATTTTTGAAAATAAATAATATATAGTTTTTTAAAACATT
1 ATATACATATTATATAGTTTTAAAACATTTTTGAAAATAAATAATATATAG-TTTTGAAAACATT
200101 TTTG-AAA-
65 TTTGAAAAC
* *
200108 ATATATATATTGTATAGTTTTTTAAAACA-TTTTGAAAATAAAT-ATAATATAGTTTTGAAAACA
1 ATATACATATTATATAG--TTTTAAAACATTTTTGAAAATAAATAAT-ATATAGTTTTGAAAACA
200171 TTTTT
63 TTTTT
200176 TTTGAAAACT
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
72 31 0.25
73 34 0.27
74 25 0.20
75 3 0.02
76 22 0.18
77 2 0.02
78 8 0.06
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (73 bp):
ATATACATATTATATAGTTTTAAAACATTTTTGAAAATAAATAATATATAGTTTTGAAAACATTT
TTGAAAAC
Found at i:200215 original size:39 final size:37
Alignment explanation
Indices: 200137--200228 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 37
200127 TTTTAAAACA
*
200137 TTTTGAAAATAAATATAATATAGTTTTGAAAACATTTT
1 TTTTGAAAAT-TATATAATATAGTTTTGAAAACATTTT
200175 TTTTGAAAACTTATATATATATAGCTTTATG-AAACATTTT
1 TTTTGAAAA-TTATATA-ATATAG-TTT-TGAAAACATTTT
200215 TTTTGAAAATTATA
1 TTTTGAAAATTATA
200229 CAGTTTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
38 14 0.29
39 12 0.24
40 21 0.43
41 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (37 bp):
TTTTGAAAATTATATAATATAGTTTTGAAAACATTTT
Found at i:200291 original size:31 final size:30
Alignment explanation
Indices: 200214--200292 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
200204 TGAAACATTT
* **
200214 TTTTTGAAAATTATACAGTTTTTAAAAACA
1 TTTTTGAAAATTATATAGTTTAAAAAAACA
* *
200244 TTTTTAAAAAATTATATAGTTTAAAAAAATA
1 TTTTT-GAAAATTATATAGTTTAAAAAAACA
200275 TTTTTGAAAATTTATATA
1 TTTTTGAAAA-TTATATA
200293 TAATACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 9 0.22
31 32 0.78
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTTTGAAAATTATATAGTTTAAAAAAACA
Found at i:200367 original size:23 final size:22
Alignment explanation
Indices: 200321--200367 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
200311 AAAAAAACAT
*
200321 TTTTAAAAAATTTATTTATATA
1 TTTTAAAAAATTTATTAATATA
200343 TTTTAAAAATATTTTATTAAT-TA
1 TTTTAAAAA-A-TTTATTAATATA
200366 TT
1 TT
200368 ATTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 5 0.23
24 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAAAATTTATTAATATA
Found at i:200381 original size:12 final size:12
Alignment explanation
Indices: 200356--200389 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
200346 TAAAAATATT
*
200356 TTATTAATTATTA
1 TTATT-ATTTTTA
200369 TTATTATTTTTA
1 TTATTATTTTTA
200381 TTATTATTT
1 TTATTATTT
200390 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:208981 original size:21 final size:21
Alignment explanation
Indices: 208955--208994 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
208945 CCCCCTTTGA
*
208955 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
208976 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
208995 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:215465 original size:585 final size:583
Alignment explanation
Indices: 214330--215572 Score: 1591
Period size: 585 Copynumber: 2.1 Consensus size: 583
214320 CAATTTTTTC
*
214330 TATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCCTCGAGTTCGATTAC
1 TATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTAC
* * * * *
214395 ATTCAGCATCGAGGGCACATTATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAA
66 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAA
* * ** * *
214460 GACCTTCGAGTTCGACTACGCTCAGCTGAAAGACACATCATTTTTAGCATAGCTTAAGTCGAGAA
131 GACATTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAACATAGCTTAAGTCAAGAA
* * * * *
214525 GGGCTATCTGCCAACCAAAGACCTTCAAGTTCGACAATGCTCAGCTTCGAGGGCACATCATTTGC
196 GGGCTATCTGCCAACAAAAGACCTTCAAGTTCGACAACGCTCAACTTCCAAGGCACATCATTTGC
*
214590 ATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGC
261 ATCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGC
* * * *
214655 TCCAAGGCACATCATTTGCAGTATAGCTTACGTCGAGAAGGGTTATCTGCCAAAAACCCTCGACT
326 TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAAACCCTCGACT
* * * *
214720 TCGATTACACTCAGCTCCAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
391 TCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATC-GT
* * ** * *
214785 GACCAAAAGACCTTCGAGTTCGATTATGCTCAGCTCCAAGACATATCATTTGTAGCATAACTTAA
455 GA-CAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGACACATCATTTACAACATAACTCAA
* * * * * *
214850 GTCGAGAAGGTTTATTTGCCAACCAAAGACCTTTGAGTTCGACTACGCTTAGCTCCAAGGCACAT
519 GGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACAT
* * * *
214915 TATTTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGATTAC
1 TATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTAC
* * * * *
214980 ACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGATAAGGGTTATCTGCCATCAAA
66 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAA
* * * * * *
215045 GACATTTGAGTTTGATTATGCTCAGCTCCAAGGCACATCATTTGCAACATAG-TTCAAGGT-AAG
131 GACATTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAACATAGCTT-AA-GTCAAG
* * ** *
215108 AAGGGCTATTTTCCAACAAAAGACCTTTGAGTTCGACTACGCTCAAC-TCCAAGGCACATCATTT
194 AAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGACAACGCTCAACTTCCAAGGCACATCATTT
* *
215172 GCAGT-ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAATACCTTCGAGTTTGACTACGCTC
259 GCA-TCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTC
*
215236 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACC
323 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCC-A--AAA-ACC
* * * * * * *
215301 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGT
384 CTCGACTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGT
** * * *
215366 TATC-TG-CTTAAGACCTTTGAGTTCGACTATGCTCAGCTTCAAGGGCACATCATTTACAACATA
449 TATCGTGACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAA-GACACATCATTTACAACATA
* *
215429 ACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA
513 ACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAA
215493 GGCACAT
577 GGCACAT
* * * * * * *
215500 CATTTACAGTATAGCTTAAGACGAAAATGGATATCTTCCAACCAAATACCTTCGAGTTCGATTAC
1 TATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTAC
*
215565 GCTCAGCT
66 ACTCAGCT
215573 CAGAGGCAAA
Statistics
Matches: 562, Mismatches: 87, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
584 159 0.28
585 335 0.60
586 4 0.01
587 3 0.01
588 61 0.11
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (583 bp):
TATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAA
GACATTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAACATAGCTTAAGTCAAGAA
GGGCTATCTGCCAACAAAAGACCTTCAAGTTCGACAACGCTCAACTTCCAAGGCACATCATTTGC
ATCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGC
TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAAACCCTCGACT
TCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCGTG
ACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGACACATCATTTACAACATAACTCAAGG
CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACAT
Found at i:215580 original size:84 final size:84
Alignment explanation
Indices: 214331--215573 Score: 1335
Period size: 84 Copynumber: 14.9 Consensus size: 84
214321 AATTTTTTCT
* * * * * * *
214331 ATTTACAGTATAACTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * *
214396 TTCAGCATCGAGGGCACATT
66 CTCAGC-TCCAAGGCACATC
* * * *
214416 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
** *
214480 CTCAGCTGAAAGACACATC
66 CTCAGCTCCAAGGCACATC
** * * * * *
214499 ATTTTTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGACAATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
214564 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* *
214584 ATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
214649 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
214668 ATTTGCAGTATAGCTTACGTCGAGAAGGGTTATCTGCC-A--AAA-ACCCTCGACTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
214729 CTCAGCTCCAGGGCACATT
66 CTCAGCTCCAAGGCACATC
* * * * ** * *
214748 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGATTAT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* *
214812 GCTCAGCTCCAAGACATATC
65 GCTCAGCTCCAAGGCACATC
* * * *
214832 ATTTGTAGCATAACTTAAGTCGAGAAGGTTTATTTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
214897 CTTAGCTCCAAGGCACATT
66 CTCAGCTCCAAGGCACATC
* * * * * *
214916 ATTTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
214981 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * * * * *
215001 ATTTGTAGCATAACTTAAGTCGATAAGGGTTATCTGCC-ATCAAAGACATTTGAGTTTGATTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
215065 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
215084 ATTTGCAACAT-AGTTCAAGGT-AAGAAGGGCTATTTTCCAACAAAAGACCTTTGAGTTCGACTA
1 ATTTGCAGCATAACTT-AA-GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
215147 CGCTCAACTCCAAGGCACATC
64 CGCTCAGCTCCAAGGCACATC
* * * * *
215168 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAATACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
215233 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
*
215252 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
215317 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* ** * *
215336 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CTTAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
215397 CTCAGCTTCAAGGGCACATC
66 CTCAGCTCCAA-GGCACATC
* * * * * *
215417 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
*
215481 ACTCAGCTCCAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* * * * * * * * * *
215501 ATTTACAGTATAGCTTAAGACGAAAATGGATATCTTCCAACCAAATACCTTCGAGTTCGATTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
215566 CTCAGCTC
66 CTCAGCTC
215574 AGAGGCAAAC
Statistics
Matches: 958, Mismatches: 180, Indels: 41
0.81 0.15 0.03
Matches are distributed among these distances:
80 92 0.10
81 41 0.04
82 3 0.00
83 80 0.08
84 557 0.58
85 185 0.19
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:216141 original size:2 final size:2
Alignment explanation
Indices: 216134--216184 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
216124 TCGTCCCATT
216134 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
216176 TA T- TA TA TA
1 TA TA TA TA TA
216185 GTTTGAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:216228 original size:27 final size:27
Alignment explanation
Indices: 216196--216257 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
216186 TTTGAAAATA
*
216196 TTTTGAAAAAATATATATAATATATAG
1 TTTTGAAAAAATATACATAATATATAG
* * * *
216223 TTTTGAAAACATTTCCATATTATATAG
1 TTTTGAAAAAATATACATAATATATAG
216250 TTTT-AAAA
1 TTTTGAAAA
216258 CATTTTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (27 bp):
TTTTGAAAAAATATACATAATATATAG
Found at i:216285 original size:63 final size:63
Alignment explanation
Indices: 216175--216299 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
216165 ATATATATAT
* *
216175 ATATTATATAGTTTGAAAATATTTTGAAAAAATATATATAATATATAGTTTTGAAAACATTTCC
1 ATATTATATAGTTTGAAAACATTTTG-AAAAATAAATATAATATATAGTTTTGAAAACATTTCC
* *
216239 ATATTATATAGTTTTAAAACATTTTTG-AAAATAAATATAATATATAGTTTTTAAAACATTT
1 ATATTATATAGTTTGAAAACA-TTTTGAAAAATAAATATAATATATAGTTTTGAAAACATTT
216300 TTGAAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
63 32 0.57
64 19 0.34
65 5 0.09
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (63 bp):
ATATTATATAGTTTGAAAACATTTTGAAAAATAAATATAATATATAGTTTTGAAAACATTTCC
Found at i:216297 original size:37 final size:37
Alignment explanation
Indices: 216243--216416 Score: 228
Period size: 37 Copynumber: 4.6 Consensus size: 37
216233 ATTTCCATAT
216243 TATATAG-TTTTAAAACATTTTTGAAAATAAATATAA
1 TATATAGTTTTTAAAACATTTTTGAAAATAAATATAA
* *
216279 TATATAGTTTTTAAAACATTTTTGAAAATATATATAT
1 TATATAGTTTTTAAAACATTTTTGAAAATAAATATAA
*
216316 TGTATAGTTTTTAAAACA-TTTTGAAAATAAATATAA
1 TATATAGTTTTTAAAACATTTTTGAAAATAAATATAA
* *
216352 AATATAGTTTTTAAAAACATTTTTTTGAAAACT-TATATAA
1 TATATAGTTTTT-AAAACA--TTTTTGAAAA-TAAATATAA
216392 TATATAGTTTTTTGAAAACATTTTT
1 TATATAG-TTTTT-AAAACATTTTT
216417 TTTTGAAAAT
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
36 33 0.27
37 50 0.41
39 5 0.04
40 21 0.17
41 12 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
TATATAGTTTTTAAAACATTTTTGAAAATAAATATAA
Found at i:216475 original size:32 final size:31
Alignment explanation
Indices: 216422--216495 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 31
216412 TTTTTTTTTG
* *
216422 AAAATTATACAGTTTTTAAAAACATTTTTAA
1 AAAATTATATAGTTTTAAAAAACATTTTTAA
*
216453 AAAATTATATAGTTTTAAAAAAACATTTTTGA
1 AAAATTATATAGTTTT-AAAAAACATTTTTAA
*
216485 AAATTTATATA
1 AAAATTATATA
216496 TAATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
31 15 0.39
32 23 0.61
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (31 bp):
AAAATTATATAGTTTTAAAAAACATTTTTAA
Found at i:216525 original size:11 final size:11
Alignment explanation
Indices: 216511--216535 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
216501 TATATAGTTT
216511 TTAAAAAAAAA
1 TTAAAAAAAAA
216522 TTAAAAAAAAA
1 TTAAAAAAAAA
216533 TTA
1 TTA
216536 TATATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TTAAAAAAAAA
Found at i:216537 original size:44 final size:43
Alignment explanation
Indices: 216458--216543 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
216448 TTTAAAAAAT
* **** *
216458 TATATAGTTTTAAAAAAACATTTTTGAAAATTTATATATAATA
1 TATATAGTTTTAAAAAAAAATTAAAAAAAAATTATATATAATA
216501 TATATAGTTTTTAAAAAAAAATTAAAAAAAAATTATATATAAT
1 TATATAG-TTTTAAAAAAAAATTAAAAAAAAATTATATATAAT
216544 TTTTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (43 bp):
TATATAGTTTTAAAAAAAAATTAAAAAAAAATTATATATAATA
Found at i:216571 original size:16 final size:15
Alignment explanation
Indices: 216559--216612 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
216549 AAATATTTTA
216559 TTTATTTATTATTAT-
1 TTTA-TTATTATTATC
*
216574 TAT-TTATTATTATC
1 TTTATTATTATTATC
216588 TTTATTATTACTTATC
1 TTTATTATTA-TTATC
216604 TTTATTATT
1 TTTATTATT
216613 TCTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 10 0.29
14 2 0.06
15 8 0.24
16 14 0.41
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATTATTATC
Found at i:216576 original size:13 final size:13
Alignment explanation
Indices: 216560--216612 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
216550 AATATTTTAT
216560 TTATTTATTATTA
1 TTATTTATTATTA
216573 TTATTTATTATTA
1 TTATTTATTATTA
*
216586 -TCTTTATTATTA
1 TTATTTATTATTA
*
216598 CTTATCT-TTATTA
1 -TTATTTATTATTA
216611 TT
1 TT
216613 TCTTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 13 0.37
13 19 0.54
14 3 0.09
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:216621 original size:25 final size:27
Alignment explanation
Indices: 216563--216618 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
216553 ATTTTATTTA
216563 TTTATTATTATTATTTATTATTATCTT
1 TTTATTATTATTATTTATTATTATCTT
*
216590 TATTATTACTTA-TCTTTATTATT-TCTT
1 T-TTATTA-TTATTATTTATTATTATCTT
216617 TT
1 TT
216619 ATTTCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.04
27 6 0.23
28 16 0.62
29 3 0.12
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTATTATTATTATTTATTATTATCTT
Found at i:217700 original size:12 final size:11
Alignment explanation
Indices: 217685--217721 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
217675 TTGTGCTATT
217685 TTATTTTATTTC
1 TTATTTT-TTTC
217697 TTATTTTTATTC
1 TTATTTTT-TTC
217709 TTATTTTTTTC
1 TTATTTTTTTC
217720 TT
1 TT
217722 TGTTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTTTTTTC
Found at i:218026 original size:21 final size:20
Alignment explanation
Indices: 218002--218064 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
217992 TGAAATTTAA
218002 CATTTTTTACTTTTTTTATTT
1 CATTTTTTA-TTTTTTTATTT
* *
218023 CATTTTTTATTTCTTTAACTT
1 CATTTTTTATTT-TTTTATTT
218044 -ATTTTTTGATTTTATTTATTT
1 CATTTTTT-ATTTT-TTTATTT
218065 TAATTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (20 bp):
CATTTTTTATTTTTTTATTT
Found at i:218071 original size:26 final size:26
Alignment explanation
Indices: 218027--218076 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
218017 TTATTTCATT
218027 TTTTATTTCTTTAACTTATTTTTTGA
1 TTTTATTTCTTTAACTTATTTTTTGA
*
218053 TTTTATTTATTTTAA-TTATTTTTT
1 TTTTATTT-CTTTAACTTATTTTTT
218077 CTTTTGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTATTTCTTTAACTTATTTTTTGA
Found at i:218623 original size:111 final size:110
Alignment explanation
Indices: 218461--219048 Score: 751
Period size: 111 Copynumber: 5.3 Consensus size: 110
218451 TGTTCCGACA
* *
218461 AGTTTAATGATCCATTTTCATTATTCGTATATTTTTACTCATGAGCCAAACCAAGTCACAAATCA
1 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCATG-GCCAAACCAAGTCACAAATCA
*
218526 ATTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACTT
65 ATTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACAT
* * *
218572 AGTTTAACGACCCATTTTTATTATTCGTATATTTTTTCTCATTGGCTAAACCAAGTCACAAATCA
1 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCA-TGGCCAAACCAAGTCACAAATCA
*
218637 ATTTAAAGTATATATTTTTGGACATAAACTTAGCCCAATTTAACAT
65 ATTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACAT
*
218683 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCATGTGCCAAACCAAGTTACAAATCA
1 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCATG-GCCAAACCAAGTCACAAATCA
**
218748 ATTTAAAGTATATATTTTTATATTTTTGGACATAAACTTAGTACAATTTAACAT
65 ATTTAAAGTATATA-TTTT-TA------GACATAAACTTAGCCCAATTTAACAT
* * * * * *
218802 AGTTTAACGTCCCATTTTCATTATTCATATATTTTTACTCAAGGGACAGACCAAATCACAAATCA
1 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTC-ATGGCCAAACCAAGTCACAAATCA
* * *
218867 CTTTAAAGTATATATTTTTGGGC----A--TAGCCCAATTTAACAT
65 ATTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACAT
* * *
218907 AGTTTAACTATCCATTTTCATTATTCCTATATTTTTACTCATTGGCCAAACCAAGTCACAAATCA
1 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCA-TGGCCAAACCAAGTCACAAATCA
* * * *
218972 ATTAAAAATATATA-TTTTATATA-AAACTTAGCCCAATTTAACAT
65 ATTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACAT
* *
219016 AGTTTAATGACCCATTTTCATTATTCATATATT
1 AGTTTAACGACCCATTTTCATTATTCGTATATT
219049 ACAGTTTTCA
Statistics
Matches: 415, Mismatches: 45, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
104 5 0.01
105 80 0.19
107 2 0.00
109 45 0.11
110 2 0.00
111 175 0.42
112 6 0.01
113 1 0.00
117 1 0.00
118 4 0.01
119 92 0.22
120 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.39
Consensus pattern (110 bp):
AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCATGGCCAAACCAAGTCACAAATCAA
TTTAAAGTATATATTTTTAGACATAAACTTAGCCCAATTTAACAT
Found at i:218799 original size:119 final size:119
Alignment explanation
Indices: 218647--218885 Score: 379
Period size: 119 Copynumber: 2.0 Consensus size: 119
218637 ATTTAAAGTA
* *
218647 TATATTTTTGGACATAAACTTAGCCCAATTTAACATAGTTTAACGACCCATTTTCATTATTCGTA
1 TATATTTTTGGACATAAACTTAGCACAATTTAACATAGTTTAACGACCCATTTTCATTATTCATA
* * * * *
218712 TATTTTTACTCATGTGCCAAACCAAGTTACAAATCAATTTAAAGTATATATTTT
66 TATTTTTACTCAAGGGACAAACCAAATCACAAATCAATTTAAAGTATATATTTT
* *
218766 TATATTTTTGGACATAAACTTAGTACAATTTAACATAGTTTAACGTCCCATTTTCATTATTCATA
1 TATATTTTTGGACATAAACTTAGCACAATTTAACATAGTTTAACGACCCATTTTCATTATTCATA
* *
218831 TATTTTTACTCAAGGGACAGACCAAATCACAAATCACTTTAAAGTATATATTTT
66 TATTTTTACTCAAGGGACAAACCAAATCACAAATCAATTTAAAGTATATATTTT
218885 T
1 T
218886 GGGCATAGCC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (119 bp):
TATATTTTTGGACATAAACTTAGCACAATTTAACATAGTTTAACGACCCATTTTCATTATTCATA
TATTTTTACTCAAGGGACAAACCAAATCACAAATCAATTTAAAGTATATATTTT
Found at i:218874 original size:230 final size:218
Alignment explanation
Indices: 218461--219048 Score: 796
Period size: 230 Copynumber: 2.7 Consensus size: 218
218451 TGTTCCGACA
* *
218461 AGTTTAATGATCCATTTTCATTATTCGTATATTTTTACTCATGAGCCAAACCAAGTCACAAATCA
1 AGTTTAACGATCCATTTTCATTATTCGTATATTTTTACTCATGTGCCAAACCAAGTCACAAATCA
*
218526 ATTTAAAGTATATATTTT-TA-GACATAAACTTAGCCCAATTTAACTTAGTTTAACGACCCATTT
66 ATTTAAAGTATATATTTTATATGACATAAACTTAGCCCAATTTAACATAGTTTAACGACCCATTT
* * * ** *
218589 TTATTATTCGTATATTTTTTCTCATTGGCTAAACCAAGTCACAAATCAATTTAAAGTATATATTT
131 TCATTATTCATATATTTTTACTCAAGGGCTAAACCAAATCACAAATCAATTTAAAGTATATATTT
218654 TTGGACATAAACTTAGCCCAATTTAACAT
196 TTGGAC----A--TAGCCCAATTTAACAT
* *
218683 AGTTTAACGACCCATTTTCATTATTCGTATATTTTTACTCATGTGCCAAACCAAGTTACAAATCA
1 AGTTTAACGATCCATTTTCATTATTCGTATATTTTTACTCATGTGCCAAACCAAGTCACAAATCA
** *
218748 ATTTAAAGTATATATTTTTATATTTTTGGACATAAACTTAGTACAATTTAACATAGTTTAACGTC
66 ATTTAAAGTATATA-TTTTATA----T-GACATAAACTTAGCCCAATTTAACATAGTTTAACGAC
* *
218813 CCATTTTCATTATTCATATATTTTTACTCAAGGGAC-AGACCAAATCACAAATCACTTTAAAGTA
125 CCATTTTCATTATTCATATATTTTTACTCAAGGG-CTAAACCAAATCACAAATCAATTTAAAGTA
*
218877 TATATTTTTGGGCATAGCCCAATTTAACAT
189 TATATTTTTGGACATAGCCCAATTTAACAT
* *
218907 AGTTTAACTATCCATTTTCATTATTCCTATATTTTTACTCAT-TGGCCAAACCAAGTCACAAATC
1 AGTTTAACGATCCATTTTCATTATTCGTATATTTTTACTCATGT-GCCAAACCAAGTCACAAATC
* * *
218971 AATTAAAAATATATATTTTATAT---A-AAACTTAGCCCAATTTAACATAGTTTAATGACCCATT
65 AATTTAAAGTATATATTTTATATGACATAAACTTAGCCCAATTTAACATAGTTTAACGACCCATT
219032 TTCATTATTCATATATT
130 TTCATTATTCATATATT
219049 ACAGTTTTCA
Statistics
Matches: 329, Mismatches: 27, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
214 50 0.15
215 1 0.00
219 1 0.00
222 75 0.23
223 12 0.04
224 89 0.27
226 1 0.00
230 99 0.30
231 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.39
Consensus pattern (218 bp):
AGTTTAACGATCCATTTTCATTATTCGTATATTTTTACTCATGTGCCAAACCAAGTCACAAATCA
ATTTAAAGTATATATTTTATATGACATAAACTTAGCCCAATTTAACATAGTTTAACGACCCATTT
TCATTATTCATATATTTTTACTCAAGGGCTAAACCAAATCACAAATCAATTTAAAGTATATATTT
TTGGACATAGCCCAATTTAACAT
Found at i:222206 original size:55 final size:54
Alignment explanation
Indices: 222106--222745 Score: 765
Period size: 55 Copynumber: 11.9 Consensus size: 54
222096 TGGTTTTATC
* * ***
222106 CCCTATTGCTTCAGGGAGTA--AAACTCGAA-AATCTTTGTCAATCGTGTCTGCT
1 CCCTATT-CTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* ** * * * *
222158 CCCCATTCTTCTAGAGAGTACAAGACTCAAACGAT-TCTCGATAATCGTGTCTGCT
1 CCCTATTCTTC-AGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCT
* * * *
222213 CCCTATT-TTCAGAGAGTATGAAACTCGAACAAT-TCTCAATAACCGTGCCTGCT
1 CCCTATTCTTCAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCT
* * *
222266 CCCTATTTTCTTCGGAGAGAATGAGACTCGAACAATTTTCAACGAA-CGTGTCTGCT
1 CCCTA--TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAAC-AATCGTGTCTGCT
222322 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
222377 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAAACTTCAACAATCGTGTCTGCT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
222432 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* * * *
222487 CCCTATTTTCTTCAGAGAGAATGAGACTCGAACATTCTTCAACAAACGTGTCTACT
1 CCCTA--TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
222543 CCATATTTCTTCAGAGAGTATGAGACT----C-A-----AACAATCGTGTCTGCT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
222588 CCCTATTTCTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGCC
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
222643 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTGCT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
222698 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
1 CCCTA-TTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
222746 TGGGAAACCT
Statistics
Matches: 523, Mismatches: 43, Indels: 41
0.86 0.07 0.07
Matches are distributed among these distances:
45 40 0.08
50 1 0.00
51 5 0.01
52 13 0.02
53 40 0.08
54 13 0.02
55 317 0.61
56 91 0.17
57 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (54 bp):
CCCTATTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
Found at i:222626 original size:266 final size:269
Alignment explanation
Indices: 222144--222745 Score: 853
Period size: 266 Copynumber: 2.2 Consensus size: 269
222134 AAATCTTTGT
* ** * * * *
222144 CAATCGTGTCTGCTCCCCA-TTCTTCTAGAGAGTACAAGACTCAAACGAT-TCTCGATAATCGTG
1 CAATCGTGTCTGCTCCCTATTTCTTC-AGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTG
* * * * *
222207 TCTGCTCCCTATTTTCAGAGAGTATGAAACTCGAACAATTCTCAATAACCGTGCCTGCTCCCTAT
64 TCTGCTCCCTATTTTCAGAGAGAATGAAACTCGAACAATTCTCAACAAACGTGCCTACTCCATAT
*
222272 TTTCTTCGGAGAGAATGAGACTCGAACAATTTTCAACGAACGTGTCTGCTCCCTATTTCTTCAGA
129 TTTCTTCAGAGAGAATGAGACTC-AACAA---TCAAC-AACGTGTCTGCTCCCTATTTCTTCAGA
*
222337 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGA
189 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATGAGA
222402 CTCGAACAAACTTCAA
254 CTCGAACAAACTTCAA
222418 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
* *
222483 TGCTCCCTATTTTCTTCAGAGAGAATGAGACTCGAAC-ATTCTTCAACAAACGTGTCTACTCCAT
66 TGCTCCCTA--TT-TTCAGAGAGAATGAAACTCGAACAATTC-TCAACAAACGTGCCTACTCCAT
* *
222547 A-TTTCTTCAGAGAGTATGAGACTC-A-AA-C-A-ATCGTGTCTGCTCCCTATTTCTTCAGAGAG
127 ATTTTCTTCAGAGAGAATGAGACTCAACAATCAACAACGTGTCTGCTCCCTATTTCTTCAGAGAG
*
222606 TATGAGACTCGAATAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATGAGACTC
192 TATGAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATGAGACTC
*
222671 GAACAATCTTCAA
257 GAACAAACTTCAA
*
222684 TAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
222746 TGGGAAACCT
Statistics
Matches: 301, Mismatches: 21, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
266 165 0.55
268 1 0.00
269 1 0.00
273 2 0.01
274 59 0.20
275 7 0.02
276 27 0.09
277 39 0.13
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (269 bp):
CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
TGCTCCCTATTTTCAGAGAGAATGAAACTCGAACAATTCTCAACAAACGTGCCTACTCCATATTT
TCTTCAGAGAGAATGAGACTCAACAATCAACAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATG
AGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATGAGACTCGAAC
AAACTTCAA
Found at i:222650 original size:100 final size:102
Alignment explanation
Indices: 222470--222745 Score: 394
Period size: 100 Copynumber: 2.6 Consensus size: 102
222460 GAACAATCTT
* * *
222470 CAACAATCGTGTCTGCTCCCTATTTTCTTCAGAGAGAATGAGACTCGAACATTCTTCAACAAACG
1 CAACAATCGTGTCTGCTCCCTA-TTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCG
*
222535 TGTCTACTCCATATTTCTTCAGAGAGTATGAGACTC-A
65 TGTCTACCCCATATTTCTTCAGAGAGTATGAGACTCAA
*
222572 -AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGT
1 CAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
* *
222636 GTCTGCCCCCTATTTCTTCAGAGAGTATGAGACTCGAA
66 GTCTACCCCATATTTCTTCAGAGAGTATGAGACTC-AA
222674 CAATCTTCAATAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAA----C---AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
222739 CAATCGT
59 CAATCGT
222746 TGGGAAACCT
Statistics
Matches: 156, Mismatches: 8, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
100 71 0.46
101 21 0.13
102 1 0.01
103 2 0.01
107 1 0.01
110 60 0.38
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (102 bp):
CAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
GTCTACCCCATATTTCTTCAGAGAGTATGAGACTCAA
Found at i:223753 original size:8 final size:8
Alignment explanation
Indices: 223740--223807 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
223730 TCTTGAACCC
223740 TCATTTTT
1 TCATTTTT
223748 TCATTTTTT
1 TCA-TTTTT
223757 TCATTCATTTT
1 TCA-T--TTTT
223768 TCATTTTT
1 TCATTTTT
*
223776 TTATTTTT
1 TCATTTTT
* *
223784 TTATTATT
1 TCATTTTT
223792 T--TTTTT
1 TCATTTTT
223798 T-ATTTTT
1 TCATTTTT
223805 TCA
1 TCA
223808 CTCATTTTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 23 0.44
9 10 0.19
10 1 0.02
11 7 0.13
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (8 bp):
TCATTTTT
Found at i:223764 original size:21 final size:19
Alignment explanation
Indices: 223742--223807 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
223732 TTGAACCCTC
223742 ATTTTTTCATTTTTTTCATT
1 ATTTTTTCATTTTTTT-ATT
223762 CA-TTTTTCATTTTTTTATT
1 -ATTTTTTCATTTTTTTATT
*
223781 -TTTTTATTATTTTTTT-TT
1 ATTTTT-TCATTTTTTTATT
223799 ATTTTTTCA
1 ATTTTTTCA
223808 CTCATTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.20
19 17 0.43
20 14 0.35
21 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTTTTCATTTTTTTATT
Found at i:223771 original size:28 final size:26
Alignment explanation
Indices: 223740--223794 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
223730 TCTTGAACCC
223740 TCATTTTTTCATTTTTTTCATTCATTTT
1 TCATTTTTTCATTTTTTT-ATT-ATTTT
*
223768 TCATTTTTTTATTTTTTTATTATTTT
1 TCATTTTTTCATTTTTTTATTATTTT
223794 T
1 T
223795 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 6 0.23
27 3 0.12
28 17 0.65
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (26 bp):
TCATTTTTTCATTTTTTTATTATTTT
Found at i:223805 original size:9 final size:9
Alignment explanation
Indices: 223743--223794 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
223733 TGAACCCTCA
223743 TTTTTTCAT
1 TTTTTTCAT
223752 TTTTTTCAT
1 TTTTTTCAT
223761 TCATTTTTCAT
1 T--TTTTTCAT
223772 TTTTTT-AT
1 TTTTTTCAT
223780 TTTTTT-AT
1 TTTTTTCAT
223788 TATTTTT
1 T-TTTTT
223795 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
8 11 0.28
9 20 0.50
11 9 0.22
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:223815 original size:21 final size:21
Alignment explanation
Indices: 223771--223815 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
223761 TCATTTTTCA
* *
223771 TTTTTTTATTTTTTTATTATT
1 TTTTTTTATTTTTTCATCATT
223792 TTTTTTTATTTTTTCACTCATT
1 TTTTTTTATTTTTTCA-TCATT
223814 TT
1 TT
223816 CTTCTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTATTTTTTCATCATT
Found at i:247250 original size:12 final size:12
Alignment explanation
Indices: 247233--247289 Score: 96
Period size: 12 Copynumber: 4.7 Consensus size: 12
247223 ACATCAATTT
247233 AGTTAGGTGAAG
1 AGTTAGGTGAAG
247245 AGTTAGGTGAAG
1 AGTTAGGTGAAG
*
247257 AATTAGGTGAAG
1 AGTTAGGTGAAG
247269 AGTTAGGTGAGAG
1 AGTTAGGTGA-AG
247282 AGTTAGGT
1 AGTTAGGT
247290 ATTTGTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
12 32 0.76
13 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.26
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:248948 original size:187 final size:184
Alignment explanation
Indices: 248596--249122 Score: 657
Period size: 185 Copynumber: 2.8 Consensus size: 184
248586 TCTATTACAC
* * *
248596 ATATTCATAACAATTTTAGATTTTAACTTATTTTATTATCGTGAGATTGTTAAAGTCCCTATCAT
1 ATATTCATAAC-ATTTTATATTTTAACTTATTTTGTTATCGTGAGATTGTTAAAGTCCCTAT-AA
* * *
248661 CTTAAAATTTGGTAACATTTAAGG-AAAATCGATTTTATTACACATAAAATTAATATTTCAGATC
64 CTTAAAATATGGTAACATTTTAGGCACAATCGATTTTATTACACATAAAATTAATATTT-AGATC
** *
248725 -TGAACCTACTTTCTTAGTGACCCATAACATTCTTGGGCACAACTTGATTTCTTATAG
128 GT-AACCTACTTTCTTAGCAACCCATAACATTCTTGGGCACAACCTGATTTCTTATAG
* *
248782 ATATTCATAACATTTTATATTTTAACTTATTTTTGTTATTGTGAGATTGTTAAAGGCCCTATAAG
1 ATATTCATAACATTTTATATTTTAACTTA-TTTTGTTATCGTGAGATTGTTAAAGTCCCTATAA-
* * ** * *
248847 GTTAAAATCTGGTAACATTTTAGGCACAATCGACCTAATTATACATAAAATTAATATTCTAGATC
64 CTTAAAATATGGTAACATTTTAGGCACAATCGATTTTATTACACATAAAATTAATATT-TAGATC
* *
248912 GTAACCTACTTTCTTAGCAACCTATAACATTCTTGGGCGCAACCTGATTTCTTATAG
128 GTAACCTACTTTCTTAGCAACCCATAACATTCTTGGGCACAACCTGATTTCTTATAG
* * * *
248969 ACATTCATAACATTTT-TATTTTAACTTATTTTGTTATCGTGAGAATGTAAAAGTCTCC-ACCAA
1 ATATTCATAACATTTTATATTTTAACTTATTTTGTTATCGTGAGATTGTTAAAGTC-CCTA-TAA
* * * * *
249032 CCTAAAATATAGTAACATTTTAGGCACAACCGATTTTATTACAAATAAAATTAACATTTTAGATC
64 CTTAAAATATGGTAACATTTTAGGCACAATCGATTTTATTACACATAAAATTAATA-TTTAGATC
* * *
249097 GAAATCTACTTTCTTAGCGACCCATA
128 GTAACCTACTTTCTTAGCAACCCATA
249123 CATCAACCTG
Statistics
Matches: 294, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
185 115 0.39
186 79 0.27
187 98 0.33
188 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (184 bp):
ATATTCATAACATTTTATATTTTAACTTATTTTGTTATCGTGAGATTGTTAAAGTCCCTATAACT
TAAAATATGGTAACATTTTAGGCACAATCGATTTTATTACACATAAAATTAATATTTAGATCGTA
ACCTACTTTCTTAGCAACCCATAACATTCTTGGGCACAACCTGATTTCTTATAG
Done.