Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015305.1 Kokia drynarioides strain JFW-HI SEQ_130350, 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: 751316
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 443 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:6465 original size:24 final size:24
Alignment explanation
Indices: 6421--6483 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
6411 TCATTATTTG
* *
6421 TATTTTTTAAATATATTTATTTATCAT
1 TATTTTTTAAA-ATATATA-TTA-AAT
6448 T-TTTTTTAAAA-ATATATTAAAT
1 TATTTTTTAAAATATATATTAAAT
6470 TATTTTTTAAAATA
1 TATTTTTTAAAATA
6484 ATTAGGACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 3 0.09
23 13 0.41
24 5 0.16
25 1 0.03
26 9 0.28
27 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTTTTTAAAATATATATTAAAT
Found at i:8655 original size:9 final size:9
Alignment explanation
Indices: 8641--8718 Score: 57
Period size: 9 Copynumber: 8.7 Consensus size: 9
8631 TTCTTCTTCT
*
8641 TCATCGTCA
1 TCATCCTCA
* *
8650 TCATCGTCG
1 TCATCCTCA
*
8659 TCCTCCTCA
1 TCATCCTCA
* *
8668 TCTTCGTCA
1 TCATCCTCA
8677 TCATCCTCA
1 TCATCCTCA
* * *
8686 TCCTCATCC
1 TCATCCTCA
* *
8695 TCATCATCT
1 TCATCCTCA
8704 TCATCCTCA
1 TCATCCTCA
8713 TCATCC
1 TCATCC
8719 AACTCAAGCT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (9 bp):
TCATCCTCA
Found at i:8674 original size:15 final size:15
Alignment explanation
Indices: 8638--8717 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
8628 AGTTTCTTCT
*
8638 TCTTCATCGTCATCA
1 TCTTCATCCTCATCA
* *
8653 TCGTCGTCCTCCTCATCT
1 TC-T--TCATCCTCATCA
* * *
8671 TCGTCATCATCCTCA
1 TCTTCATCCTCATCA
*
8686 TCCTCATCCTCATCA
1 TCTTCATCCTCATCA
8701 TCTTCATCCTCATCA
1 TCTTCATCCTCATCA
8716 TC
1 TC
8718 CAACTCAAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
15 38 0.76
16 1 0.02
18 11 0.22
ACGTcount: A:0.16, C:0.41, G:0.05, T:0.38
Consensus pattern (15 bp):
TCTTCATCCTCATCA
Found at i:8674 original size:18 final size:18
Alignment explanation
Indices: 8641--8718 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
8631 TTCTTCTTCT
* *
8641 TCATCGTCATCATCGTCG
1 TCATCCTCATCATCGTCA
* *
8659 TCCTCCTCATCTTCGTCA
1 TCATCCTCATCATCGTCA
* * *
8677 TCATCCTCATCCTCATCC
1 TCATCCTCATCATCGTCA
* * *
8695 TCATCATCTTCATCCTCA
1 TCATCCTCATCATCGTCA
8713 TCATCC
1 TCATCC
8719 AACTCAAGCT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (18 bp):
TCATCCTCATCATCGTCA
Found at i:8688 original size:6 final size:6
Alignment explanation
Indices: 8662--8714 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
8652 ATCGTCGTCC
* * *
8662 TCCTCA TCTTCG TCATCA TCCTCA TCCTCA TCCTCA TCATCTTCA TCCTCA
1 TCCTCA TCCTCA TCCTCA TCCTCA TCCTCA TCCTCA TC--C-TCA TCCTCA
8713 TC
1 TC
8715 ATCCAACTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 32 0.82
7 1 0.03
8 1 0.03
9 5 0.13
ACGTcount: A:0.17, C:0.43, G:0.02, T:0.38
Consensus pattern (6 bp):
TCCTCA
Found at i:8698 original size:21 final size:21
Alignment explanation
Indices: 8674--8714 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8664 CTCATCTTCG
8674 TCATCATCCTCATCCTCATCC
1 TCATCATCCTCATCCTCATCC
*
8695 TCATCATCTTCATCCTCATC
1 TCATCATCCTCATCCTCATC
8715 ATCCAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.37
Consensus pattern (21 bp):
TCATCATCCTCATCCTCATCC
Found at i:11313 original size:16 final size:17
Alignment explanation
Indices: 11292--11323 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11282 GAGTGGTTTT
11292 GAATCGAT-TAAATTGG
1 GAATCGATATAAATTGG
11308 GAATCGATATAAATTG
1 GAATCGATATAAATTG
11324 ATTGAACCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (17 bp):
GAATCGATATAAATTGG
Found at i:13157 original size:20 final size:20
Alignment explanation
Indices: 13132--13172 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13122 ATTAATTATT
*
13132 TATAAAATTTAATTTGAATA
1 TATAAAATATAATTTGAATA
* *
13152 TATAAACTATATTTTGAATA
1 TATAAAATATAATTTGAATA
13172 T
1 T
13173 CAATATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TATAAAATATAATTTGAATA
Found at i:16209 original size:24 final size:24
Alignment explanation
Indices: 16181--16236 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
16171 TTCTTTTAGA
*
16181 TAAATACATCCCTGCTTTCTTAAG
1 TAAATACAACCCTGCTTTCTTAAG
16205 TAAATACAACCCTGCTTTCTTAAG
1 TAAATACAACCCTGCTTTCTTAAG
16229 TAAATACA
1 TAAATACA
16237 CTAACTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (24 bp):
TAAATACAACCCTGCTTTCTTAAG
Found at i:17116 original size:30 final size:30
Alignment explanation
Indices: 17080--17140 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
17070 GATATACTCT
17080 TAGATGATGCTGTAGTATCAGAAAAAAAGG
1 TAGATGATGCTGTAGTATCAGAAAAAAAGG
* *
17110 TAGATGATGCTGTGGTATCAGGAAAAAAGG
1 TAGATGATGCTGTAGTATCAGAAAAAAAGG
17140 T
1 T
17141 GGAGGAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.25
Consensus pattern (30 bp):
TAGATGATGCTGTAGTATCAGAAAAAAAGG
Found at i:17992 original size:19 final size:19
Alignment explanation
Indices: 17968--18005 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17958 AGAGTCTGCC
17968 AGAAATCTTTATCTGGAAG
1 AGAAATCTTTATCTGGAAG
17987 AGAAATCTTTATCTGGAAG
1 AGAAATCTTTATCTGGAAG
18006 GTATATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
AGAAATCTTTATCTGGAAG
Found at i:40294 original size:70 final size:70
Alignment explanation
Indices: 40181--40328 Score: 271
Period size: 70 Copynumber: 2.1 Consensus size: 70
40171 GATTGTAGAC
*
40181 ATTATTTTAGACCTTCGTTTGAGTTTTCTAGCTCCCCCCAGGATTCGGAATCATAAGAATATAAA
1 ATTATTTTAGACCTTCGTTTGAGGTTTCTAGCTCCCCCCAGGATTCGGAATCATAAGAATATAAA
40246 TCAGT
66 TCAGT
*
40251 ATTATTTTAGACCTTCGTTTGAGGTTTCTTGCTCCCCCCAGGATTCGGAATCATAAGAATATAAA
1 ATTATTTTAGACCTTCGTTTGAGGTTTCTAGCTCCCCCCAGGATTCGGAATCATAAGAATATAAA
40316 TCAGT
66 TCAGT
40321 ATT-TTTTA
1 ATTATTTTA
40329 TCTCTCTCGT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 5 0.07
70 71 0.93
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (70 bp):
ATTATTTTAGACCTTCGTTTGAGGTTTCTAGCTCCCCCCAGGATTCGGAATCATAAGAATATAAA
TCAGT
Found at i:41719 original size:13 final size:14
Alignment explanation
Indices: 41690--41722 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
41680 TTATTATTTT
*
41690 ATATATGTTTTAAA
1 ATATATGTTTAAAA
41704 ATATAT-TTTAAAA
1 ATATATGTTTAAAA
41717 ATATAT
1 ATATAT
41723 AAATAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
ATATATGTTTAAAA
Found at i:72720 original size:15 final size:16
Alignment explanation
Indices: 72694--72723 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72684 ATTCTTTCAA
72694 TTAAATATTTTATAAG
1 TTAAATATTTTATAAG
72710 TTAAA-ATTTTATAA
1 TTAAATATTTTATAA
72724 TATTATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAAATATTTTATAAG
Found at i:73879 original size:3 final size:3
Alignment explanation
Indices: 73871--73924 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
73861 AGGAGTGTAA
73871 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
73919 AAT AAT
1 AAT AAT
73925 TAAGAAGTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:74310 original size:27 final size:27
Alignment explanation
Indices: 74269--74336 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
74259 ATATTTGGAG
* *
74269 ATATT-TTTCATTAAT-TAATTAGTTAA
1 ATATTATTTTATTAATAT-ATTACTTAA
*
74295 ATATTATTTTATTAATATTTTACTTAA
1 ATATTATTTTATTAATATATTACTTAA
74322 ATATTTATTATTATT
1 ATA-TTATT-TTATT
74337 TTATTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.14
27 19 0.54
28 6 0.17
29 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
ATATTATTTTATTAATATATTACTTAA
Found at i:74326 original size:13 final size:11
Alignment explanation
Indices: 74299--74341 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
74289 AGTTAAATAT
74299 TATTTTATTAA
1 TATTTTATTAA
74310 TATTTTACTTAA
1 TATTTTA-TTAA
*
74322 -ATATTTATTAT
1 TAT-TTTATTAA
74333 TATTTTATT
1 TATTTTATT
74342 CAAAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:76711 original size:23 final size:22
Alignment explanation
Indices: 76684--76734 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
76674 TATATATTAC
76684 AATAATTAAATA-TAAAATAAAAA
1 AATAATTAAA-ACTAAAA-AAAAA
*
76707 AATAATTAAAACTAAAAAAATA
1 AATAATTAAAACTAAAAAAAAA
76729 AATAAT
1 AATAAT
76735 AATTTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
AATAATTAAAACTAAAAAAAAA
Found at i:76724 original size:18 final size:17
Alignment explanation
Indices: 76696--76729 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
76686 TAATTAAATA
76696 TAAAATAAAAAAATAAT
1 TAAAATAAAAAAATAAT
76713 TAAAACTAAAAAAATAA
1 TAAAA-TAAAAAAATAA
76730 ATAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAAAATAAT
Found at i:77536 original size:24 final size:24
Alignment explanation
Indices: 77509--77558 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
77499 TAAAATATGA
77509 AATAAAAATTGTATGGATCTTTGT
1 AATAAAAATTGTATGGATCTTTGT
77533 AATAAAAATTGTATGGATCTTTGT
1 AATAAAAATTGTATGGATCTTTGT
77557 AA
1 AA
77559 GTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (24 bp):
AATAAAAATTGTATGGATCTTTGT
Found at i:77784 original size:13 final size:13
Alignment explanation
Indices: 77766--77799 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
77756 GAAAACCGAA
77766 GCAGCTTTAGAGG
1 GCAGCTTTAGAGG
77779 GCAGCTTTAGAGG
1 GCAGCTTTAGAGG
*
77792 GCAACTTT
1 GCAGCTTT
77800 CTTCTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (13 bp):
GCAGCTTTAGAGG
Found at i:77885 original size:16 final size:17
Alignment explanation
Indices: 77866--77908 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
77856 CGCATGTTAT
*
77866 AATTTATTATTTT-GTG
1 AATTTAATATTTTAGTG
*
77882 AATTTAATGTTTTAGTG
1 AATTTAATATTTTAGTG
77899 AATTATAATA
1 AATT-TAATA
77909 ATAAGATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 7 0.32
18 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
AATTTAATATTTTAGTG
Found at i:77901 original size:17 final size:17
Alignment explanation
Indices: 77875--77907 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77865 TAATTTATTA
77875 TTTTGTGAATT-TAATG
1 TTTTGTGAATTATAATG
77891 TTTTAGTGAATTATAAT
1 TTTT-GTGAATTATAAT
77908 AATAAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
TTTTGTGAATTATAATG
Found at i:79206 original size:279 final size:279
Alignment explanation
Indices: 78706--79262 Score: 1028
Period size: 279 Copynumber: 2.0 Consensus size: 279
78696 TTAAGTGTAA
78706 GGACAAAAACTATTTGACAGGCTCTTTAACACCAAGACTGAATCTATTTTAATTAGATTAATTTA
1 GGACAAAAACTATTTGACAGGCTCTTTAACACCAAGACTGAATCTATTTTAATTAGATTAATTTA
*
78771 ATCTCATATTATTAAAAATATTTAAATAATATTAAGTTATTGTTTAAAATTTTGAGGCAATAACA
66 ATCTCATATTATTAAAAATATTTAAATAATATTAAGTTATTATTTAAAATTTTGAGGCAATAACA
78836 TGTTTTTTTTAATCTATATTTTTTCTATTAATTGAAATAATATATATTTATTCTTAGTTTTTATA
131 TGTTTTTTTTAATCTATATTTTTTCTATTAATTGAAATAATATATATTTATTCTTAGTTTTTATA
*
78901 AGTGAAGTTTAACATAAATTGAAATAATATCACTTAAACATGAATAAAAAAATTATCACCTAAAC
196 AGTGAAATTTAACATAAATTGAAATAATATCACTTAAACATGAATAAAAAAATTATCACCTAAAC
78966 AATTGATAAGGATTTTTAG
261 AATTGATAAGGATTTTTAG
* *
78985 GGACAAAAACTATTTGACAGGCTTTTTAACATCAAGA-TCGAATCTATTTTAATTAGATTAATTT
1 GGACAAAAACTATTTGACAGGCTCTTTAACACCAAGACT-GAATCTATTTTAATTAGATTAATTT
*
79049 AATCTCATTTTATTAAAAATATTTAAATAATATTAAGTTATTATTTACAAA-TTTGAGGCAATAA
65 AATCTCATATTATTAAAAATATTTAAATAATATTAAGTTATTATTTA-AAATTTTGAGGCAATAA
79113 CATGTTTTTTTTAATCTATATTTTTTCTATTAATTGAAATAATATATATTTATTCTTAGTTTTTA
129 CATGTTTTTTTTAATCTATATTTTTTCTATTAATTGAAATAATATATATTTATTCTTAGTTTTTA
79178 TAAGTGAAATTTAACATAAATTGAAATAATATCACTTAAACATGAATAAAAAAATTATCACCTAA
194 TAAGTGAAATTTAACATAAATTGAAATAATATCACTTAAACATGAATAAAAAAATTATCACCTAA
*
79243 ACAATTGTTAAGGATTTTTA
259 ACAATTGATAAGGATTTTTA
79263 CATGATAATT
Statistics
Matches: 270, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
278 1 0.00
279 266 0.99
280 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (279 bp):
GGACAAAAACTATTTGACAGGCTCTTTAACACCAAGACTGAATCTATTTTAATTAGATTAATTTA
ATCTCATATTATTAAAAATATTTAAATAATATTAAGTTATTATTTAAAATTTTGAGGCAATAACA
TGTTTTTTTTAATCTATATTTTTTCTATTAATTGAAATAATATATATTTATTCTTAGTTTTTATA
AGTGAAATTTAACATAAATTGAAATAATATCACTTAAACATGAATAAAAAAATTATCACCTAAAC
AATTGATAAGGATTTTTAG
Found at i:80101 original size:5 final size:5
Alignment explanation
Indices: 80091--80115 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
80081 TGGGCAGAAT
80091 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
80116 AGAACTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:82308 original size:26 final size:24
Alignment explanation
Indices: 82262--82309 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
82252 ACTATTTTAT
*
82262 TATATAAATAATTTTAAAATATGA
1 TATATAAATAATTTAAAAATATGA
82286 TATATCAAATACATTTAAAAATAT
1 TATAT-AAATA-ATTTAAAAATAT
82310 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATAAATAATTTAAAAATATGA
Found at i:86614 original size:2 final size:2
Alignment explanation
Indices: 86607--86639 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
86597 TGCTGGAAGA
*
86607 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
86640 TGTGTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:91331 original size:31 final size:30
Alignment explanation
Indices: 91286--91345 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
91276 ACATGAATTT
91286 TAATTTGGTGCAATTCTACACGTGAAACTC
1 TAATTTGGTGCAATTCTACACGTGAAACTC
* * * *
91316 TAATTGTGGTTCAATTGTATACTTGAAACT
1 TAATT-TGGTGCAATTCTACACGTGAAACT
91346 TTATTTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (30 bp):
TAATTTGGTGCAATTCTACACGTGAAACTC
Found at i:107688 original size:38 final size:38
Alignment explanation
Indices: 107616--107691 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
107606 TAGGCTGCAA
*
107616 ATTATTGCCATGATGCTAAGCATCAGATACAGAGACTG
1 ATTATTGCCATGATGCTAAGCATCAGATAAAGAGACTG
* ** *
107654 ATTATTGCCATGATGCTAGGCATTGGCTAAAGAGACTG
1 ATTATTGCCATGATGCTAAGCATCAGATAAAGAGACTG
107692 CAAAAGCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (38 bp):
ATTATTGCCATGATGCTAAGCATCAGATAAAGAGACTG
Found at i:118727 original size:48 final size:48
Alignment explanation
Indices: 118669--118762 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
118659 TTTTAATCTT
* *
118669 TATATTTGTGTTGTTTATCAAATCACTTCAGAATTGATGGAAAAATTA
1 TATATTTGTGTTGTCTATCAAATCACTTCAGAATTGATGAAAAAATTA
* * *
118717 TATATTTGTGTTGTCTGTCAAATCACTTCAGAGTTTATGAAAAAAT
1 TATATTTGTGTTGTCTATCAAATCACTTCAGAATTGATGAAAAAAT
118763 CAATCCATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (48 bp):
TATATTTGTGTTGTCTATCAAATCACTTCAGAATTGATGAAAAAATTA
Found at i:121364 original size:23 final size:24
Alignment explanation
Indices: 121314--121365 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
121304 CAGCCAATTT
*
121314 TAAATAGTTTTTTTTTTATTATTA
1 TAAATAGTTTTATTTTTATTATTA
121338 -AAAT-GTTTTATTTTT-TTATATA
1 TAAATAGTTTTATTTTTATTAT-TA
121360 TAAATA
1 TAAATA
121366 TCATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 4 0.17
22 12 0.50
23 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TAAATAGTTTTATTTTTATTATTA
Found at i:133170 original size:22 final size:22
Alignment explanation
Indices: 133145--133220 Score: 107
Period size: 22 Copynumber: 3.3 Consensus size: 22
133135 CGCGCTTTTA
133145 CTGTTTAGCACTGTGTGTGCTT
1 CTGTTTAGCACTGTGTGTGCTT
*
133167 CTGTTTAACACTGTGTGTGCTT
1 CTGTTTAGCACTGTGTGTGCTT
133189 CTGTTTCCCCAGCACTGTGTGTGCTT
1 CTGTTT----AGCACTGTGTGTGCTT
133215 CTGTTT
1 CTGTTT
133221 CCCCAGCACT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 27 0.56
26 21 0.44
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.45
Consensus pattern (22 bp):
CTGTTTAGCACTGTGTGTGCTT
Found at i:133204 original size:26 final size:26
Alignment explanation
Indices: 133151--133240 Score: 127
Period size: 26 Copynumber: 3.7 Consensus size: 26
133141 TTTACTGTTT
133151 AGCACTGTGTGTGCTTCTGTTT----
1 AGCACTGTGTGTGCTTCTGTTTCCCC
*
133173 AACACTGTGTGTGCTTCTGTTTCCCC
1 AGCACTGTGTGTGCTTCTGTTTCCCC
133199 AGCACTGTGTGTGCTTCTGTTTCCCC
1 AGCACTGTGTGTGCTTCTGTTTCCCC
*
133225 AGCACT-TATGTGCTTC
1 AGCACTGTGTGTGCTTC
133241 CATTAAGTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
22 21 0.34
25 9 0.15
26 31 0.51
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (26 bp):
AGCACTGTGTGTGCTTCTGTTTCCCC
Found at i:136375 original size:15 final size:15
Alignment explanation
Indices: 136355--136385 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
136345 ATGGATTCCT
136355 TACACCAGCAGCCGA
1 TACACCAGCAGCCGA
136370 TACACCAGCAGCCGA
1 TACACCAGCAGCCGA
136385 T
1 T
136386 CCATCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.39, G:0.19, T:0.10
Consensus pattern (15 bp):
TACACCAGCAGCCGA
Found at i:138412 original size:6 final size:6
Alignment explanation
Indices: 138399--138434 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
138389 GTATTGGATT
138399 GATG-G GATGTG GATGTG GATGTG GATGTG GATGTG G
1 GATGTG GATGTG GATGTG GATGTG GATGTG GATGTG G
138435 TTTACGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.31
Consensus pattern (6 bp):
GATGTG
Found at i:138585 original size:14 final size:14
Alignment explanation
Indices: 138557--138591 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
138547 TTGTCGCTCA
138557 CATTTTTAATATTT
1 CATTTTTAATATTT
138571 C-TTTTTAATATTTT
1 CATTTTTAATA-TTT
138585 CATTTTT
1 CATTTTT
138592 TCCATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.47
14 5 0.26
15 5 0.26
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTAATATTT
Found at i:142302 original size:9 final size:8
Alignment explanation
Indices: 142288--142345 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 8
142278 AGAATATAAT
142288 TTTTTATGA
1 TTTTTAT-A
142297 TTTTTATA
1 TTTTTATA
142305 -TTTTATGA
1 TTTTTAT-A
*
142313 ATTTTATA
1 TTTTTATA
*
142321 TTTTTATTT
1 TTTTTA-TA
142330 TTTTTAATA
1 TTTTT-ATA
142339 TTTTTAT
1 TTTTTAT
142346 TATAAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 6 0.14
8 10 0.24
9 25 0.60
10 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:142310 original size:16 final size:16
Alignment explanation
Indices: 142289--142324 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
142279 GAATATAATT
*
142289 TTTTATGATTTTTATA
1 TTTTATGAATTTTATA
142305 TTTTATGAATTTTATA
1 TTTTATGAATTTTATA
142321 TTTT
1 TTTT
142325 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTATGAATTTTATA
Found at i:144315 original size:22 final size:22
Alignment explanation
Indices: 144271--144343 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
144261 TAACAGTAAA
*
144271 CACACACAGTACAATCCAATAGG
1 CACACACAGTGCAAT-CAATAGG
144294 CACACACAGTGCAATCAATAGG
1 CACACACAGTGCAATCAATAGG
* * * *
144316 CGCACATAGCGCAAATCAGTAGG
1 CACACACAGTGC-AATCAATAGG
144339 CACAC
1 CACAC
144344 GAGGTGCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.37
23 27 0.63
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.12
Consensus pattern (22 bp):
CACACACAGTGCAATCAATAGG
Found at i:144358 original size:23 final size:23
Alignment explanation
Indices: 144332--144385 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
144322 TAGCGCAAAT
* *
144332 CAGTAGGCACACGAGGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
144355 CAGTAAGCACACGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
144378 CAGTAAGC
1 CAGTAAGC
144386 GTGCTAGCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.30, T:0.09
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:156426 original size:14 final size:15
Alignment explanation
Indices: 156396--156461 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
156386 ATAACTTAAA
*
156396 TTCAGTATTTAAATT
1 TTCAGTACTTAAATT
*
156411 TTCAGTACTTAATTT
1 TTCAGTACTTAAATT
** **
156426 TTCAACACTTATTTT
1 TTCAGTACTTAAATT
* **
156441 TTCAGCACTTATTTT
1 TTCAGTACTTAAATT
156456 TTCAGT
1 TTCAGT
156462 TTATCAAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCAGTACTTAAATT
Found at i:156465 original size:13 final size:14
Alignment explanation
Indices: 156409--156460 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
156399 AGTATTTAAA
*
156409 TTTTCAGTACTTAAT
1 TTTTCAG-ACTTATT
*
156424 TTTTCAACACTTATT
1 TTTTC-AGACTTATT
156439 TTTTCAGCACTTATT
1 TTTTCAG-ACTTATT
156454 TTTTCAG
1 TTTTCAG
156461 TTTATCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAGACTTATT
Found at i:157663 original size:59 final size:60
Alignment explanation
Indices: 157578--157697 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
157568 GGTAGGCATT
*
157578 TGATGTCCATATTTTAGG--CCTTTTTTTAGTCTCTGAAAGTAATTGGTCATGCATTTGCC
1 TGATGTCCATATTTTAGGCCCCTTTTTCTAGTCTCTGAAAGTAA-TGGTCATGCATTTGCC
* * *
157637 TGATGTCCATATTTTAGGCCCCTTTTTCTAGTCTCTGAAATTAATGTTTATGCATTTGCC
1 TGATGTCCATATTTTAGGCCCCTTTTTCTAGTCTCTGAAAGTAATGGTCATGCATTTGCC
157697 T
1 T
157698 TGTGTTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
59 18 0.33
60 15 0.27
61 22 0.40
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (60 bp):
TGATGTCCATATTTTAGGCCCCTTTTTCTAGTCTCTGAAAGTAATGGTCATGCATTTGCC
Found at i:169585 original size:2 final size:2
Alignment explanation
Indices: 169566--169599 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
169556 CATATACCAA
* *
169566 TC TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
169600 GATCCACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:179793 original size:21 final size:22
Alignment explanation
Indices: 179762--179802 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
179752 CTAATTCTTT
179762 ATTTTTAAATATATTT-TTTATA
1 ATTTTTAAATA-ATTTATTTATA
179784 ATTTTT-AATAATTTATTTA
1 ATTTTTAAATAATTTATTTA
179803 ATCAAACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTAAATAATTTATTTATA
Found at i:183871 original size:8 final size:7
Alignment explanation
Indices: 183852--183886 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
183842 AATGGGCTCT
183852 CTTTTTC
1 CTTTTTC
183859 CTTTTTC
1 CTTTTTC
183866 CTTTTTC
1 CTTTTTC
183873 CTTTTTCC
1 CTTTTT-C
183881 CTTTTT
1 CTTTTT
183887 TTTTTACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CTTTTTC
Found at i:190807 original size:6 final size:6
Alignment explanation
Indices: 190798--190897 Score: 93
Period size: 6 Copynumber: 17.3 Consensus size: 6
190788 TTGGACTTTC
* * ** *
190798 AATTTA AATTTA TAA--TA ATTTTA AATTCA AAGATA AATTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
190845 AA-TTA AATTTA AATTTA AA-ATA AATTTA AACTTA AA-TTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
190890 AATTTA AA
1 AATTTA AA
190898 ACAAATTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
4 1 0.01
5 16 0.21
6 57 0.75
7 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:190822 original size:17 final size:16
Alignment explanation
Indices: 190798--190925 Score: 123
Period size: 17 Copynumber: 7.5 Consensus size: 16
190788 TTGGACTTTC
190798 AATTTAAATTTATAATA
1 AATTTAAATTTA-AATA
* *
190815 ATTTTAAATTCAAAGATA
1 AATTTAAATT-TAA-ATA
*
190833 AATTTAAACTTAAATTA
1 AATTTAAATTTAAA-TA
190850 AATTTAAATTTAAAATA
1 AATTTAAATTT-AAATA
*
190867 AATTTAAACTTAAATTA
1 AATTTAAATTTAAA-TA
*
190884 AATTTAAATTTAAAACA
1 AATTTAAATTT-AAATA
190901 AATTT-AATCTTACAATA
1 AATTTAAAT-TTA-AATA
190918 AATTTAAA
1 AATTTAAA
190926 AAGGGTTTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
16 8 0.09
17 64 0.70
18 20 0.22
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:190856 original size:11 final size:12
Alignment explanation
Indices: 190831--190897 Score: 86
Period size: 11 Copynumber: 5.8 Consensus size: 12
190821 AATTCAAAGA
190831 TAAATTTAAACT
1 TAAATTTAAACT
*
190843 TAAA-TTAAATT
1 TAAATTTAAACT
*
190854 TAAATTTAAA-A
1 TAAATTTAAACT
190865 TAAATTTAAACT
1 TAAATTTAAACT
*
190877 TAAA-TTAAATT
1 TAAATTTAAACT
190888 TAAATTTAAA
1 TAAATTTAAA
190898 ACAAATTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
11 30 0.62
12 18 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATTTAAACT
Found at i:190873 original size:34 final size:34
Alignment explanation
Indices: 190798--190925 Score: 161
Period size: 34 Copynumber: 3.7 Consensus size: 34
190788 TTGGACTTTC
* * * *
190798 AATTTAAATTTATAATAATTTTAAATTCAAAGATA
1 AATTTAAACTTACAATAAATTTAAATTTAAA-ATA
190833 AATTTAAACTTA-AATTAAATTTAAATTTAAAATA
1 AATTTAAACTTACAA-TAAATTTAAATTTAAAATA
*
190867 AATTTAAACTTA-AATTAAATTTAAATTTAAAACA
1 AATTTAAACTTACAA-TAAATTTAAATTTAAAATA
*
190901 AATTTAATCTTACAATAAATTTAAA
1 AATTTAAACTTACAATAAATTTAAA
190926 AAGGGTTTAG
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
34 59 0.69
35 27 0.31
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (34 bp):
AATTTAAACTTACAATAAATTTAAATTTAAAATA
Found at i:192850 original size:23 final size:25
Alignment explanation
Indices: 192823--192868 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
192813 CTAATTAGGA
192823 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
192846 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
192869 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:202625 original size:29 final size:30
Alignment explanation
Indices: 202569--202639 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
202559 AATCTCAAAA
* *
202569 TTATACATGAACTTTGATTTAATGTGCAATT
1 TTATACATGAACTTTAATTT-AGGTGCAATT
*
202600 TTATACATGAATTTTAATTT-GGTGCAATT
1 TTATACATGAACTTTAATTTAGGTGCAATT
* *
202629 ATACACATGAA
1 TTATACATGAA
202640 ACTCTGATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 17 0.49
31 18 0.51
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (30 bp):
TTATACATGAACTTTAATTTAGGTGCAATT
Found at i:209322 original size:13 final size:13
Alignment explanation
Indices: 209304--209330 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
209294 GGAAGTGGTA
209304 AGGAAAGAAGTGC
1 AGGAAAGAAGTGC
209317 AGGAAAGAAGTGC
1 AGGAAAGAAGTGC
209330 A
1 A
209331 AAAATTACCT
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:0.48, C:0.07, G:0.37, T:0.07
Consensus pattern (13 bp):
AGGAAAGAAGTGC
Found at i:212930 original size:3 final size:3
Alignment explanation
Indices: 212922--212953 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
212912 GGGAAAAGTA
212922 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
212954 GAGAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:219637 original size:42 final size:42
Alignment explanation
Indices: 219567--219824 Score: 284
Period size: 42 Copynumber: 6.0 Consensus size: 42
219557 GTGTGTGTGA
* * * * *
219567 CTTCAATCTGCCTCTTTGGATTAAGGGTAAAAGATTGGATGA
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
* * * *
219609 CTTCAATCTACTCCTCCAGATCAGGGGTAAAAGATTGGATGATGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATT-G--GATGG
*
219654 CTTCAATCTGCCCCTCTGGATT-GGAGGTAAAAGATTGGATGG
1 CTTCAATCTGCCCCTCTAGATTAGG-GGTAAAAGATTGGATGG
* *
219696 CTTGAATCTGCCCCTCTAGATTAGGGGTAAAAGATTCGGTGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATT--G-GATGG
* *
219741 TTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
* * * *
219783 CTTCAATCTACCTCACTAGATTAGGTGTAAAAGATTGGATGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
219825 TGATGTAACT
Statistics
Matches: 181, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
42 104 0.57
43 4 0.02
44 4 0.02
45 69 0.38
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
Found at i:219826 original size:87 final size:86
Alignment explanation
Indices: 219567--219826 Score: 337
Period size: 87 Copynumber: 3.0 Consensus size: 86
219557 GTGTGTGTGA
* * * *
219567 CTTCAATCTGCCTCTTTGGATTAAGGGTAAAAGATTGGATGACTTCAATCTA-CTCCTCCAGATC
1 CTTCAATCTGCCCCTTTGGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCTCCT--AGATT
*
219631 AGGGGTAAAAGATTGGATGATGG
64 AGGGGTAAAAGATTGGATGGTGG
* * * *
219654 CTTCAATCTGCCCCTCTGGATT-GGAGGTAAAAGATTGGATGGCTTGAATCTGCCCCTCTAGATT
1 CTTCAATCTGCCCCTTTGGATTAGG-GGTAAAAGATTGGATGGCTTCAATCTACCTC-CTAGATT
219718 AGGGGTAAAAGATTCGG-TGGTGG
64 AGGGGTAAAAGATT-GGATGGTGG
* *
219741 TTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCTCACTAGATTA
1 CTTCAATCTGCCCCTTTGGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCTC-CTAGATTA
*
219806 GGTGTAAAAGATTGGATGGTG
65 GGGGTAAAAGATTGGATGGTG
219827 ATGTAACTTC
Statistics
Matches: 150, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
86 3 0.02
87 139 0.93
88 6 0.04
89 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (86 bp):
CTTCAATCTGCCCCTTTGGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCTCCTAGATTAG
GGGTAAAAGATTGGATGGTGG
Found at i:220049 original size:99 final size:98
Alignment explanation
Indices: 219894--220076 Score: 233
Period size: 99 Copynumber: 1.8 Consensus size: 98
219884 TTTTAATTTG
* *
219894 CTTCACTGTAACTTCAAGAAGTTAAGATTTGGCATGGTAACTTCACTCCATCCCACTGCAACTTC
1 CTTCACTGTAACTTCAAGAAGATAAGATTTGG-ATGGTAACTTCACTCCATCCCACTGCAACCTC
*
219959 AGGGAGATTGAGATCTGTTACTTGTTTGTATACA
65 AGGGAGATTGAGATATGTTACTTGTTTGTATACA
* * * * * * *
219993 CTTCACTGTAACTTCAGGAAGATAGGATTTGG-TGTTGAAGCTTCTCTCTATTCCACTGTAACCT
1 CTTCACTGTAACTTCAAGAAGATAAGATTTGGATGGT-AA-CTTCACTCCATCCCACTGCAACCT
*
220057 CAGGGATATTGAGATATGTT
64 CAGGGAGATTGAGATATGTT
220077 TCATTATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
97 3 0.04
98 2 0.03
99 66 0.93
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (98 bp):
CTTCACTGTAACTTCAAGAAGATAAGATTTGGATGGTAACTTCACTCCATCCCACTGCAACCTCA
GGGAGATTGAGATATGTTACTTGTTTGTATACA
Found at i:222639 original size:19 final size:20
Alignment explanation
Indices: 222603--222640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
222593 GGGTTTCTTA
*
222603 GAAAAAGTCAACTGGTCAAC
1 GAAAAAGTCAACTAGTCAAC
222623 GAAAAAGTCAAC-AGTCAA
1 GAAAAAGTCAACTAGTCAA
222641 AGTCAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.13
Consensus pattern (20 bp):
GAAAAAGTCAACTAGTCAAC
Found at i:227521 original size:45 final size:45
Alignment explanation
Indices: 227457--227547 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
227447 GAGCCTCCAG
*
227457 ACTCTTAGCAGACCTACCTCGACTAACCAAATTAGTAAACACCTT
1 ACTCTTAGCAGACCTACCTCGACTAACCAAATCAGTAAACACCTT
227502 ACTCTTAGCAGACCTACCTCGACTAACCAAATCAGTAAACACCTT
1 ACTCTTAGCAGACCTACCTCGACTAACCAAATCAGTAAACACCTT
227547 A
1 A
227548 TCATGGTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (45 bp):
ACTCTTAGCAGACCTACCTCGACTAACCAAATCAGTAAACACCTT
Found at i:230056 original size:20 final size:20
Alignment explanation
Indices: 230033--230075 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
230023 CGGCTCGGAC
*
230033 TTGGGTCAAACGGGTTTGTT
1 TTGGGTCAAACGGGTTTGGT
**
230053 TTGGGTTTAACGGGTTTGGT
1 TTGGGTCAAACGGGTTTGGT
230073 TTG
1 TTG
230076 TGTTTAAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.37, T:0.44
Consensus pattern (20 bp):
TTGGGTCAAACGGGTTTGGT
Found at i:230080 original size:20 final size:20
Alignment explanation
Indices: 230041--230082 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
230031 ACTTGGGTCA
*
230041 AACGGGTTTGTTTTGGGTTT
1 AACGGGTTTGGTTTGGGTTT
*
230061 AACGGGTTTGGTTTGTGTTT
1 AACGGGTTTGGTTTGGGTTT
230081 AA
1 AA
230083 GGTTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.48
Consensus pattern (20 bp):
AACGGGTTTGGTTTGGGTTT
Found at i:230723 original size:26 final size:26
Alignment explanation
Indices: 230693--230743 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
230683 CTCAAGAATG
* *
230693 TCGCTGCATGAACATTTTCAGAATTA
1 TCGCTGCATGAACATGTCCAGAATTA
230719 TCGCTGCATGAACATGTCCAGAATT
1 TCGCTGCATGAACATGTCCAGAATT
230744 GCGCCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (26 bp):
TCGCTGCATGAACATGTCCAGAATTA
Found at i:233087 original size:61 final size:62
Alignment explanation
Indices: 232958--233088 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 62
232948 GCCATTGACT
* * * *
232958 TTTTCTTTTTCCTTTTCTTTCTTTGGGTTTCAAGATTCCTCTTCGCGAGTTTTTATCTCGACC
1 TTTT-TTTTTCCTTTTCTTTCTTTGGGTTTCAAGATGCCTCTTCACAAGTTTTCATCTCGACC
* * * *
233021 CTTTTTTTT-CTTTTTTTTCTTTGGGTTTCAAGATGCC-CTTTACAAGTTTTCATCTTGATCC
1 TTTTTTTTTCCTTTTCTTTCTTTGGGTTTCAAGATGCCTCTTCACAAGTTTTCATCTCGA-CC
233082 TTTTTTT
1 TTTTTTT
233089 GTTTTCTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
60 16 0.28
61 34 0.59
62 5 0.09
63 3 0.05
ACGTcount: A:0.11, C:0.21, G:0.11, T:0.57
Consensus pattern (62 bp):
TTTTTTTTTCCTTTTCTTTCTTTGGGTTTCAAGATGCCTCTTCACAAGTTTTCATCTCGACC
Found at i:237441 original size:5 final size:5
Alignment explanation
Indices: 237395--237477 Score: 50
Period size: 5 Copynumber: 17.4 Consensus size: 5
237385 TACACATTAG
* * * * * * *
237395 AATAA AATAA TAGAA CATAA AACAG AATAG AATAA TACTAA AAT-A AAT-A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA
*
237444 AAT-A AAT-A AAT-A TATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
237478 ACAATGATTC
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
4 19 0.30
5 40 0.63
6 4 0.06
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:237446 original size:8 final size:9
Alignment explanation
Indices: 237433--237476 Score: 56
Period size: 8 Copynumber: 5.0 Consensus size: 9
237423 AGAATAATAC
237433 TAAAATAAA
1 TAAAATAAA
237442 T-AAATAAA
1 TAAAATAAA
*
237450 T-AAATATA
1 TAAAATAAA
237458 TAAAATAAAA
1 TAAAAT-AAA
237468 TAAAATAAA
1 TAAAATAAA
237477 AACAATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 15 0.48
9 8 0.26
10 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAAATAAA
Found at i:239652 original size:42 final size:42
Alignment explanation
Indices: 239605--239691 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
239595 ACGTGATACG
*
239605 AAAACGAAAAGTAAGTATATTCTTACAGTATTTGAAAGAGTT
1 AAAACGAAAAGTAAGTATATTCTTACAATATTTGAAAGAGTT
239647 AAAACGAAAAGTAAGTATATTCTTACAATATTTGAAAGAGTT
1 AAAACGAAAAGTAAGTATATTCTTACAATATTTGAAAGAGTT
239689 AAA
1 AAA
239692 TATAAAGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (42 bp):
AAAACGAAAAGTAAGTATATTCTTACAATATTTGAAAGAGTT
Found at i:239944 original size:3 final size:3
Alignment explanation
Indices: 239936--239968 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
239926 TCGTCCCTTT
*
239936 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
239969 AAGTTGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:257828 original size:27 final size:28
Alignment explanation
Indices: 257798--257854 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
257788 ACCCTAAAGA
257798 ACAAAGA-AAAACGTGCTAAACTAGCAG
1 ACAAAGAGAAAACGTGCTAAACTAGCAG
* *
257825 ACAAAGAGAAAATGTGCTAAACTAGTAG
1 ACAAAGAGAAAACGTGCTAAACTAGCAG
257853 AC
1 AC
257855 CAATTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (28 bp):
ACAAAGAGAAAACGTGCTAAACTAGCAG
Found at i:259929 original size:18 final size:19
Alignment explanation
Indices: 259906--259948 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
259896 CGAAACAAAA
*
259906 AAAAAAATTAA-CTTTTCC
1 AAAAAAATAAATCTTTTCC
*
259924 AAAAAAATAAATCTTTTTC
1 AAAAAAATAAATCTTTTCC
259943 AAAAAA
1 AAAAAA
259949 TCAATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAATAAATCTTTTCC
Found at i:259929 original size:19 final size:20
Alignment explanation
Indices: 259905--259948 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
259895 TCGAAACAAA
*
259905 AAAAAAAATTAA-CTTTTCC
1 AAAAAAAATAAATCTTTTCC
*
259924 -AAAAAAATAAATCTTTTTC
1 AAAAAAAATAAATCTTTTCC
259943 AAAAAA
1 AAAAAA
259949 TCAATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAAATAAATCTTTTCC
Found at i:261885 original size:14 final size:15
Alignment explanation
Indices: 261846--261879 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
261836 AGGGTTAAAG
*
261846 TTAAAAA-ATTTGTA
1 TTAAAAATATTTATA
261860 TTAAAAATATTTATA
1 TTAAAAATATTTATA
261875 TTAAA
1 TTAAA
261880 TTATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAAAAATATTTATA
Found at i:265767 original size:24 final size:24
Alignment explanation
Indices: 265740--265787 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
265730 ACAATCAATT
265740 CATTTTATATTACAGTTCCACTGA
1 CATTTTATATTACAGTTCCACTGA
* * *
265764 CATTTTGTATTACATTTGCACTGA
1 CATTTTATATTACAGTTCCACTGA
265788 TAATTTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (24 bp):
CATTTTATATTACAGTTCCACTGA
Found at i:280526 original size:120 final size:120
Alignment explanation
Indices: 280306--280541 Score: 294
Period size: 120 Copynumber: 2.0 Consensus size: 120
280296 GCACAAATAC
* * * *
280306 CGTATCGATGGTTACGGTACCGCTTATGTTACAAGTCCTCGATAGCTCATGTAAGCAGCATCGTA
1 CGTATCGATGGTGACGGTACCGCATATGTTACAAGTCCTCGACAGCTCATGTAAGCAGCATCATA
* * **
280371 TACTGGTAACAGAGTTGATACAAATATAAGCATGAAATTCGGGATTATAGCATAT
66 TACTGGTAACAAAGTTGATACAAACATAAGCATGAAATTCAAGATTATAGCATAT
* * * * * *
280426 CGTATCGATGGCTGA-GGTATCGCATATGTTGCGAGTCCTTGACAGCTCCTGTGAGCAGCATCAT
1 CGTATCGATGG-TGACGGTACCGCATATGTTACAAGTCCTCGACAGCTCATGTAAGCAGCATCAT
* * * *
280490 ATATTGGTAACAAAGTTGATACAGACATGAGGATGAAATTCAAGATTATAGC
65 ATACTGGTAACAAAGTTGATACAAACATAAGCATGAAATTCAAGATTATAGC
280542 TTGTGGATGC
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
120 95 0.98
121 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (120 bp):
CGTATCGATGGTGACGGTACCGCATATGTTACAAGTCCTCGACAGCTCATGTAAGCAGCATCATA
TACTGGTAACAAAGTTGATACAAACATAAGCATGAAATTCAAGATTATAGCATAT
Found at i:283369 original size:23 final size:23
Alignment explanation
Indices: 283343--283387 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
283333 TCAAGAAGAT
283343 GTGTAGCCGGAGTTAATGAAGTC
1 GTGTAGCCGGAGTTAATGAAGTC
*
283366 GTGTAGCCGGAGTTCATGAAGT
1 GTGTAGCCGGAGTTAATGAAGT
283388 TGATGCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (23 bp):
GTGTAGCCGGAGTTAATGAAGTC
Found at i:288013 original size:25 final size:24
Alignment explanation
Indices: 287978--288026 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
287968 TAATTTTTAA
287978 ATTTTTATTTTCA-TTTTAATTGTT
1 ATTTTTATTTT-AGTTTTAATTGTT
*
288002 ATTTTTAATTTTAGTTTTATTTGTT
1 ATTTTT-ATTTTAGTTTTAATTGTT
288027 TAATAAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.71
Consensus pattern (24 bp):
ATTTTTATTTTAGTTTTAATTGTT
Found at i:288021 original size:18 final size:18
Alignment explanation
Indices: 287980--288023 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
287970 ATTTTTAAAT
*
287980 TTTTA-TTTTCATTTTAA
1 TTTTATTTTTAATTTTAA
*
287997 TTGTTATTTTTAATTTTAG
1 TT-TTATTTTTAATTTTAA
288016 TTTTATTT
1 TTTTATTT
288024 GTTTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 12 0.52
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTATTTTTAATTTTAA
Found at i:294631 original size:25 final size:25
Alignment explanation
Indices: 294597--294647 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
294587 TGCAAAACTC
* *
294597 CTCCGGAGAGGATAAAAACCATGGG
1 CTCCGAAGAGGACAAAAACCATGGG
294622 CTCCGAAGAGGACAAAAACCATGGG
1 CTCCGAAGAGGACAAAAACCATGGG
294647 C
1 C
294648 AAAGGAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.29, T:0.10
Consensus pattern (25 bp):
CTCCGAAGAGGACAAAAACCATGGG
Found at i:299934 original size:46 final size:46
Alignment explanation
Indices: 299867--299962 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
299857 AAGTTTCAAG
299867 AAGCCATCCAGCTTCAAACTGAAAATGCCATTCGCGAATGTTACAC
1 AAGCCATCCAGCTTCAAACTGAAAATGCCATTCGCGAATGTTACAC
299913 AAGCCATCCAGCTTCAAACTGAAAATGCCATTCGCGAATGTTACAC
1 AAGCCATCCAGCTTCAAACTGAAAATGCCATTCGCGAATGTTACAC
299959 AAGC
1 AAGC
299963 TATCATCCGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (46 bp):
AAGCCATCCAGCTTCAAACTGAAAATGCCATTCGCGAATGTTACAC
Found at i:305521 original size:3 final size:3
Alignment explanation
Indices: 305513--305542 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
305503 CTAGCAAGAC
305513 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
305543 AGTTGCCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:311084 original size:93 final size:93
Alignment explanation
Indices: 310925--311108 Score: 305
Period size: 93 Copynumber: 2.0 Consensus size: 93
310915 ACCACCCGAC
* *
310925 GTTTCTATTCTCACACCAACAAGTGATTAAACCCCATGAATGGCTACTACCCGGTATATTTATTT
1 GTTTCTATTCTCACACCAACAAATGATTAAACCCCATGAATGGCTACCACCCGGTATATTTATTT
310990 ATACATGCACATCTATGTAAGCCTGAAT
66 ATACATGCACATCTATGTAAGCCTGAAT
* *
311018 GTTTCTATTCTCACACCAACAAATGATTACACCTCATGAATGGCTACCACCCGGTATATTTATTT
1 GTTTCTATTCTCACACCAACAAATGATTAAACCCCATGAATGGCTACCACCCGGTATATTTATTT
* * *
311083 ATGCATGCATATCTATGTGAGCCTGA
66 ATACATGCACATCTATGTAAGCCTGA
311109 GAAAAAGAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (93 bp):
GTTTCTATTCTCACACCAACAAATGATTAAACCCCATGAATGGCTACCACCCGGTATATTTATTT
ATACATGCACATCTATGTAAGCCTGAAT
Found at i:315425 original size:44 final size:43
Alignment explanation
Indices: 315350--315436 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
315340 GTCCATTTTC
* * *
315350 CTTGAACTTTTCTGGGTGGTTAAAATTTTAAAGCAACTAGTTT
1 CTTGAACTTTGCTGAGCGGTTAAAATTTTAAAGCAACTAGTTT
*
315393 CTTGAACTTTGCTAGAGCGGTTTAAATTTTAAAGCAACTAGTTT
1 CTTGAACTTTGCT-GAGCGGTTAAAATTTTAAAGCAACTAGTTT
315437 AACTTGTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 12 0.31
44 27 0.69
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (43 bp):
CTTGAACTTTGCTGAGCGGTTAAAATTTTAAAGCAACTAGTTT
Found at i:320154 original size:83 final size:83
Alignment explanation
Indices: 320011--320177 Score: 280
Period size: 83 Copynumber: 2.0 Consensus size: 83
320001 AGACATTTCA
* * *
320011 TACATCTCATAAAGTATGTATATCAAATTGAACTAGAATACAATATTATGTTCAATATTTAACTA
1 TACATCTCATAAAGTATGTATATCAAATTAAACTAGAATACAAGATTATGTTCAACATTTAACTA
320076 AAATTCACAACAAGGAAT
66 AAATTCACAACAAGGAAT
* *
320094 TACATCTCATAAAGTATGTATATCAGATTAAACTAGCATACAAGATTATGTTCAACATTTAACTA
1 TACATCTCATAAAGTATGTATATCAAATTAAACTAGAATACAAGATTATGTTCAACATTTAACTA
*
320159 AAGTTCACAACAAGGAAT
66 AAATTCACAACAAGGAAT
320177 T
1 T
320178 CAATAATCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (83 bp):
TACATCTCATAAAGTATGTATATCAAATTAAACTAGAATACAAGATTATGTTCAACATTTAACTA
AAATTCACAACAAGGAAT
Found at i:327886 original size:25 final size:25
Alignment explanation
Indices: 327821--327888 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
327811 ATCAACGATC
* **
327821 AAAGGACTAAATTGAAAATAAAATA
1 AAAGGAATAAATAAAAAATAAAATA
** *
327846 AAATAAACAAGA-AAAAAATAAAATA
1 AAAGGAATAA-ATAAAAAATAAAATA
327871 AAAGGAATAAATAAAAAA
1 AAAGGAATAAATAAAAAA
327889 AGGGCAAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (25 bp):
AAAGGAATAAATAAAAAATAAAATA
Found at i:328851 original size:7 final size:7
Alignment explanation
Indices: 328841--328912 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
328831 TGGGGTAGTA
328841 GGTATTG
1 GGTATTG
328848 GGTATTG
1 GGTATTG
*
328855 GGTAATTT
1 GGT-ATTG
*
328863 GGT-TTT
1 GGTATTG
328869 GGT-TTG
1 GGTATTG
328875 GGT-TT-
1 GGTATTG
*
328880 GATATTTG
1 GGTA-TTG
328888 GGTATTG
1 GGTATTG
328895 GGTATTG
1 GGTATTG
*
328902 GGTAATG
1 GGTATTG
328909 GGTA
1 GGTA
328913 ATTTGGGTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
5 2 0.04
6 13 0.23
7 32 0.57
8 9 0.16
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GGTATTG
Found at i:328976 original size:14 final size:14
Alignment explanation
Indices: 328957--328989 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
328947 TAAATGGACT
328957 TTTTATTTTTTTTG
1 TTTTATTTTTTTTG
328971 TTTTATTTTTTTTG
1 TTTTATTTTTTTTG
328985 TTTTA
1 TTTTA
328990 GGCCGGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTTTTG
Found at i:329473 original size:50 final size:51
Alignment explanation
Indices: 329343--329497 Score: 156
Period size: 50 Copynumber: 3.1 Consensus size: 51
329333 AAGAAGACAA
* * *
329343 GATTTGACATTGTAAC-TCTATCTTGCTCCTCTGCATCTTCAGGGAGATAG
1 GATTTGATATTGTAACTTCAATCTTGCTCCACTGCATCTTCAGGGAGATAG
* * * ** * * *
329393 GACTTGCTAATGTAGTTTCAATC-TGATCCACTGCAGCTTCAGGGATATAG
1 GATTTGATATTGTAACTTCAATCTTGCTCCACTGCATCTTCAGGGAGATAG
* * *
329443 GATTTGATGTTGTAACTTC-ATCTTGCTCCACTGCATC-TCAGGGAGGTAA
1 GATTTGATATTGTAACTTCAATCTTGCTCCACTGCATCTTCAGGGAGATAG
329492 GATTTG
1 GATTTG
329498 CTTCTATAGC
Statistics
Matches: 81, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
49 18 0.22
50 58 0.72
51 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (51 bp):
GATTTGATATTGTAACTTCAATCTTGCTCCACTGCATCTTCAGGGAGATAG
Found at i:329680 original size:100 final size:100
Alignment explanation
Indices: 329354--329673 Score: 317
Period size: 99 Copynumber: 3.2 Consensus size: 100
329344 ATTTGACATT
* * * * *
329354 GTAAC-TCTATCTTGCTCCTCTGCATCTTCAGGGAGATAGGACTTGCTAATGTAGTTTCAAT-CT
1 GTAACTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTACTGTAGTTTCAATCCT
* * *
329417 GATCCACTGCAGCTTCAGGGATATAGGATTTGATGTT
65 -ATCCACTGCAACTCCAGGGATATAGGATTTGATGTC
* * * * * *
329454 GTAACTTCATCTTGCTCCACTGCATC-TCAGGGAGGTAAGATTTGCTTCTATAGCTTCAATCCGA
1 GTAACTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTACTGTAGTTTCAATCCTA
* * * *
329518 CCCACTACAACTTCAAGGG-TATAGGATTTGATGTG
66 TCCACTGCAAC-TCCAGGGATATAGGATTTGATGTC
* ** * * *
329553 GTAGCTTCATCTCACTCTACTGCAACTTCAGAGAGATAAAGATTTGCTACTGTAGTTTTAATCCT
1 GTAACTTCATCTTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGCTACTGTAGTTTCAATCCT
* *
329618 ATCTA-TGCAACTCCAGGGATATAAGATTTGATGTC
65 ATCCACTGCAACTCCAGGGATATAGGATTTGATGTC
* *
329653 ATAACTTTATCTTGCTCCACT
1 GTAACTTCATCTTGCTCCACT
329674 CTAACTTTAG
Statistics
Matches: 175, Mismatches: 39, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
99 78 0.45
100 70 0.40
101 27 0.15
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (100 bp):
GTAACTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTACTGTAGTTTCAATCCTA
TCCACTGCAACTCCAGGGATATAGGATTTGATGTC
Found at i:343822 original size:17 final size:16
Alignment explanation
Indices: 343789--343833 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
343779 AAAAATCACA
343789 AAAAG-AAAGAAAAAG
1 AAAAGAAAAGAAAAAG
343804 -AAAGAAGAAGAAAACAG
1 AAAAGAA-AAGAAAA-AG
343821 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
343834 TACATTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.15
15 1 0.04
16 7 0.27
17 8 0.31
18 6 0.23
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:348213 original size:19 final size:19
Alignment explanation
Indices: 348189--348229 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
348179 TCTCTGATGA
348189 GGTCCGGTGAACCCAAAAG
1 GGTCCGGTGAACCCAAAAG
348208 GGTCCGGTGAACCCAAAAG
1 GGTCCGGTGAACCCAAAAG
348227 GGT
1 GGT
348230 TCGGATGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.34, T:0.12
Consensus pattern (19 bp):
GGTCCGGTGAACCCAAAAG
Found at i:354993 original size:24 final size:24
Alignment explanation
Indices: 354965--355051 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
354955 GGACACCAGT
354965 GCCAACACCACCACCAGCTCCACC
1 GCCAACACCACCACCAGCTCCACC
* *
354989 GCCAACAGCACC-CCCGACTCCACC
1 GCCAACACCACCACCAG-CTCCACC
* * * *
355013 GCCAACACCACCTCCAACACCTCC
1 GCCAACACCACCACCAGCTCCACC
*
355037 GCCAGCACCACCACC
1 GCCAACACCACCACC
355052 GCCACCCAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 3 0.06
24 47 0.90
25 2 0.04
ACGTcount: A:0.28, C:0.59, G:0.09, T:0.05
Consensus pattern (24 bp):
GCCAACACCACCACCAGCTCCACC
Found at i:355057 original size:12 final size:12
Alignment explanation
Indices: 354965--355048 Score: 78
Period size: 12 Copynumber: 7.0 Consensus size: 12
354955 GGACACCAGT
354965 GCCAACACCACC
1 GCCAACACCACC
* * *
354977 ACCAGCTCCACC
1 GCCAACACCACC
*
354989 GCCAACAGCACC
1 GCCAACACCACC
* * *
355001 CCCGACTCCACC
1 GCCAACACCACC
355013 GCCAACACCACC
1 GCCAACACCACC
* *
355025 TCCAACACCTCC
1 GCCAACACCACC
*
355037 GCCAGCACCACC
1 GCCAACACCACC
355049 ACCGCCACCC
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.27, C:0.58, G:0.10, T:0.05
Consensus pattern (12 bp):
GCCAACACCACC
Found at i:355117 original size:18 final size:18
Alignment explanation
Indices: 355080--355122 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
355070 TCCTCCGAGC
*
355080 CCACCGAGTCCACTACCT
1 CCACCAAGTCCACTACCT
*
355098 CCTCCAAGTCCACCTA-CT
1 CCACCAAGTCCA-CTACCT
355116 CCACCAA
1 CCACCAA
355123 CGCCCCCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.26, C:0.51, G:0.07, T:0.16
Consensus pattern (18 bp):
CCACCAAGTCCACTACCT
Found at i:357300 original size:28 final size:28
Alignment explanation
Indices: 357170--357362 Score: 200
Period size: 28 Copynumber: 7.0 Consensus size: 28
357160 GTCTGTCCCT
* *
357170 TATTTTTCAAATTTTATAATTTTGCCCC
1 TATTTTTTAGATTTTATAATTTTGCCCC
*
357198 TTGATTTTTTAGATTTTACAA-TTT-CCCC
1 -T-ATTTTTTAGATTTTATAATTTTGCCCC
357226 TATTTTTTAGA-TTTATAATTTT--CCC
1 TATTTTTTAGATTTTATAATTTTGCCCC
* *
357251 T-TTTTTTAGATTTTTTAGTTTTGCCCC
1 TATTTTTTAGATTTTATAATTTTGCCCC
* * *
357278 TATTTTTTAGATTTCACAATTTTACCCC
1 TATTTTTTAGATTTTATAATTTTGCCCC
* *
357306 TATTTTTTAGATTTTATAGTTTTGCCCT
1 TATTTTTTAGATTTTATAATTTTGCCCC
* * *
357334 TATTTTTCAGATTTCATAGTTTTGTCCCC
1 TATTTTTTAGATTTTATAATTTTG-CCCC
357363 CAATTTCTCA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.07
25 19 0.14
26 13 0.09
27 5 0.04
28 70 0.51
29 7 0.05
30 15 0.11
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (28 bp):
TATTTTTTAGATTTTATAATTTTGCCCC
Found at i:359129 original size:41 final size:41
Alignment explanation
Indices: 359072--359224 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 41
359062 CGTTTACGAG
* * *
359072 AAAAACGCCACAAAAGGTAAGAGCATTAGTGGAGTTTTCTC
1 AAAAATGCCGCAAAAGGTAAGAGCATTAGCGGAGTTTTCTC
** * * *
359113 AAAAATGGTGCGAAAGGCAAGAGCATTAGCGGCGTTTTCTC
1 AAAAATGCCGCAAAAGGTAAGAGCATTAGCGGAGTTTTCTC
* * *
359154 AAAAATGCCGCAAAAAGTAAGAGCATTAGCGGCA--TTTATG
1 AAAAATGCCGCAAAAGGTAAGAGCATTAGCGG-AGTTTTCTC
* *
359194 AGAAAACGCCGCAAAAGGTAAGAACATTAGC
1 A-AAAATGCCGCAAAAGGTAAGAGCATTAGC
359225 AGCGTTTATG
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 5 0.05
41 86 0.95
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (41 bp):
AAAAATGCCGCAAAAGGTAAGAGCATTAGCGGAGTTTTCTC
Found at i:359233 original size:41 final size:42
Alignment explanation
Indices: 359154--359254 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 42
359144 GCGTTTTCTC
* * * *
359154 AAAAATGCCGCAAAAAGTAAGAGCATTAGCGGCATTTATGAG
1 AAAAACGCCGCAAAAGGTAAGAACATTAGCAGCATTTATGAG
* *
359196 -AAAACGCCGCAAAAGGTAAGAACATTAGCAGCGTTTATGGG
1 AAAAACGCCGCAAAAGGTAAGAACATTAGCAGCATTTATGAG
* *
359237 AAAAACGACGCTAAAGGT
1 AAAAACGCCGCAAAAGGT
359255 TAAGTAATAG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 35 0.70
42 15 0.30
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.17
Consensus pattern (42 bp):
AAAAACGCCGCAAAAGGTAAGAACATTAGCAGCATTTATGAG
Found at i:363767 original size:26 final size:26
Alignment explanation
Indices: 363738--363830 Score: 98
Period size: 26 Copynumber: 3.4 Consensus size: 26
363728 TTATTTAATT
363738 ATATTTAATTATTAAAAACAATCCAA
1 ATATTTAATTATTAAAAACAATCCAA
** *
363764 ATATTTAATTATTTAATTATATTTAAT-TAA
1 ATATTTAATTA-TTAA--A-A-ACAATCCAA
*
363794 ATATTTAATTATTAAAAACAACCCAA
1 ATATTTAATTATTAAAAACAATCCAA
363820 ATATTTAATTA
1 ATATTTAATTA
363831 AATATTTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
25 2 0.04
26 25 0.46
27 5 0.09
29 5 0.09
30 14 0.26
31 3 0.06
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTTAATTATTAAAAACAATCCAA
Found at i:363782 original size:34 final size:34
Alignment explanation
Indices: 363729--363935 Score: 188
Period size: 34 Copynumber: 6.3 Consensus size: 34
363719 AATATTTAAT
363729 TATTTAATTATATTTAATTATTAAAAACAATCCAAA
1 TATTTAA-T-TATTTAATTATTAAAAACAATCCAAA
*** *
363765 TATTTAATTATTTAATTA-T--ATTTAAT-TAAA
1 TATTTAATTATTTAATTATTAAAAACAATCCAAA
*
363795 TATTT-A--A--T--T-ATTAAAAACAACCCAAA
1 TATTTAATTATTTAATTATTAAAAACAATCCAAA
363821 TATTTAATTAAATATTTAATTATTAAAAACAATCCAAA
1 TATTTAA-T---TATTTAATTATTAAAAACAATCCAAA
*
363859 TATTTAATTATTTAATTATTAAAATCAA-CCTAAA
1 TATTTAATTATTTAATTATTAAAAACAATCC-AAA
* *
363893 TATTTATTTATTTAATTATTAAAAACAACCCAAA
1 TATTTAATTATTTAATTATTAAAAACAATCCAAA
363927 TATTTAATT
1 TATTTAATT
363936 CAAAATGAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.01
23 2 0.01
25 4 0.03
26 8 0.06
27 2 0.01
29 1 0.01
30 8 0.06
31 4 0.03
33 4 0.03
34 69 0.50
35 4 0.03
36 7 0.05
37 2 0.01
38 23 0.17
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (34 bp):
TATTTAATTATTTAATTATTAAAAACAATCCAAA
Found at i:363804 original size:56 final size:52
Alignment explanation
Indices: 363721--363830 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 52
363711 ACAACACAAA
*
363721 TATTTAATTATTTAATTATATTTAATTATTAAAAACAATCCAAATATTTAAT
1 TATTTAATTATTTAATTATATTTAATTATTAAAAACAACCCAAATATTTAAT
363773 TATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAAT
1 TATTTAA-T-TATTTAATT--ATATTTAATTATTAAAAACAACCCAAATATTTAAT
363829 TA
1 TA
363831 AATATTTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
52 7 0.13
53 1 0.02
54 9 0.17
56 36 0.68
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.46
Consensus pattern (52 bp):
TATTTAATTATTTAATTATATTTAATTATTAAAAACAACCCAAATATTTAAT
Found at i:363825 original size:38 final size:35
Alignment explanation
Indices: 363795--363935 Score: 214
Period size: 34 Copynumber: 4.0 Consensus size: 35
363785 TTTAATTAAA
363795 TATTTAATTATTAAAAACAACCCAAATATTTAATT
1 TATTTAATTATTAAAAACAACCCAAATATTTAATT
*
363830 AAATATTTAATTATTAAAAACAATCCAAATATTTAA-T
1 ---TATTTAATTATTAAAAACAACCCAAATATTTAATT
* *
363867 TATTTAATTATTAAAATCAACCTAAATATTT-ATT
1 TATTTAATTATTAAAAACAACCCAAATATTTAATT
363901 TATTTAATTATTAAAAACAACCCAAATATTTAATT
1 TATTTAATTATTAAAAACAACCCAAATATTTAATT
363936 CAAAATGAAT
Statistics
Matches: 95, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.01
34 58 0.61
35 3 0.03
37 1 0.01
38 32 0.34
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (35 bp):
TATTTAATTATTAAAAACAACCCAAATATTTAATT
Found at i:363835 original size:12 final size:12
Alignment explanation
Indices: 363818--363842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
363808 AAAACAACCC
363818 AAATATTTAATT
1 AAATATTTAATT
363830 AAATATTTAATT
1 AAATATTTAATT
363842 A
1 A
363843 TTAAAAACAA
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):
AAATATTTAATT
Found at i:363900 original size:94 final size:92
Alignment explanation
Indices: 363729--363900 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
363719 AATATTTAAT
** *
363729 TATTTAATTATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATTTAATTAA
1 TATTTAATTATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAATCAA
**
363794 ATATTTAATTATTAAAAACAACCCAAA
66 ATAAATAATTATTAAAAACAACCCAAA
363821 TATTTAATTAAATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTAT-TAAAATC
1 TATTTAATT--ATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAATC
* *
363885 AACCTAAATATTTATT
64 AA-ATAAATAATTATT
363901 TATTTAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 9 0.13
93 6 0.09
94 55 0.79
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (92 bp):
TATTTAATTATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAATCAA
ATAAATAATTATTAAAAACAACCCAAA
Found at i:370139 original size:15 final size:15
Alignment explanation
Indices: 370119--370151 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
370109 ATTTGAAGTT
*
370119 ATTGGTTGGATTTGA
1 ATTGGTTGGATTTAA
370134 ATTGGTTGGATTTAA
1 ATTGGTTGGATTTAA
370149 ATT
1 ATT
370152 TATAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTAA
Found at i:370274 original size:43 final size:43
Alignment explanation
Indices: 370220--370445 Score: 312
Period size: 43 Copynumber: 5.3 Consensus size: 43
370210 TTGTTAATGT
*
370220 TAGCGGCGTTTGTGGGAAAAACGCCACTAAAGAACATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGAACATGTTCTA
* * *
370263 TAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGAACATGTTCTA
* * *
370306 TAGCGGTGTTTGTGGGAAAAGTGCCACTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGAACATGTTCTA
*
370349 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-AACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGAA-CATGTTCTA
* * *
370392 TAGCGGCGCTTATGGGAAAAGC-CCAGCTAAAGATCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCA-CTAAAGAACATGTTCTA
*
370435 TAACGGCGTTT
1 TAGCGGCGTTT
370446 TTCCACATAA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 3 0.02
43 160 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGAACATGTTCTA
Found at i:375025 original size:43 final size:43
Alignment explanation
Indices: 374961--375217 Score: 327
Period size: 43 Copynumber: 6.0 Consensus size: 43
374951 TCTTTATATA
** *
374961 GTTTGTGGGAAAAGCTTCGCTAAAGACCATGTTCCATAGC-AGC
1 GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGA-C
* *
375004 GTTTGTGGGAAAATCACCGCTAAAGACCATGTTCTATAGCGAC
1 GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
*
375047 GTTTGTAGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
1 GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
* * * * *
375090 ATTTGTAGGAAAAGCGCCTCTAAAGACCATGTTCTTTAGCGAT
1 GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
* * *
375133 GTTTGTGAGAAAAGCGCTGCTAAAGATCATGTTCTATAGCGAC
1 GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
* * * *
375176 GTTTGTGGGAAAAGCGTCGCCTAAAGATCATATTTTATAGCG
1 GTTTGTGGGAAAAGCGCCG-CTAAAGACCATGTTCTATAGCG
375218 GCATTTTTCC
Statistics
Matches: 188, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
43 167 0.89
44 21 0.11
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
GTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGAC
Found at i:375668 original size:69 final size:68
Alignment explanation
Indices: 375557--375729 Score: 240
Period size: 69 Copynumber: 2.5 Consensus size: 68
375547 AACTGTCAAT
* *
375557 TTCTTCACTATTTTTATTAAAGAGTTAATTTTAATCATACATTGACTAGAGAATATTCTCATAGC
1 TTCTTCACTATTTTTATTAAA-AATTAATTTTAATCATACATTGACTAGAGAATACTCTCATAGC
**
375622 TTGC
65 TAAC
*
375626 TTCTTCACTATTTTTATTACAAAATTAATTTTAATC-TCACATTGATTAGAGAATACTCTCATAG
1 TTCTTCACTATTTTTATTA-AAAATTAATTTTAATCAT-ACATTGACTAGAGAATACTCTCATAG
375690 CTAAC
64 CTAAC
* *
375695 TTCGATCACTATTTTCATTAAAAATTAATTTTAAT
1 TTC-TTCACTATTTTTATTAAAAATTAATTTTAAT
375730 TCCTTAAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
68 1 0.01
69 77 0.82
70 16 0.17
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (68 bp):
TTCTTCACTATTTTTATTAAAAATTAATTTTAATCATACATTGACTAGAGAATACTCTCATAGCT
AAC
Found at i:376271 original size:21 final size:22
Alignment explanation
Indices: 376234--376280 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
376224 GTCAAATCAA
*
376234 GAAA-TAGTGCAGACTTCTACC
1 GAAACTAGTGAAGACTTCTACC
376255 GAAACTAGTGAAG-CTTCTACC
1 GAAACTAGTGAAGACTTCTACC
376276 GAAAC
1 GAAAC
376281 AAATCATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (22 bp):
GAAACTAGTGAAGACTTCTACC
Found at i:377371 original size:195 final size:192
Alignment explanation
Indices: 376965--377400 Score: 491
Period size: 194 Copynumber: 2.3 Consensus size: 192
376955 TACCAGTACC
* * *
376965 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACATATACGGTACCAAGCCATCGACACGGTG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCAAGCCATCGACACGGTA
*** * * * *
377030 TCTATTTGTAAATTGTCCCCTAATGATGCTGCTCATACGAACTATCGAGAATATGCGTTCAAGCA
66 TCTATGCATAAACTGTCCCCTAACGATGCTGCTCACACGAACTATCGAGAATATGCCTTCAAGCA
* * ***
377095 TAAATCCCAACCATCGTAGGGCCTATAAACCATTTTGGATTTCATATCTCTTTTTTGACTCA
131 TAAATCCCAACCATCGTAAGACCTATAAACCATTTTGGATTTCATATCTCTTTCCCGACTCA
* *
377157 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACC-AAGCCATCGACACGGT
* * * * * * *
377222 ATCTGTGCATATAACTGTTCCCTAACGATGTTGCTCACATGAGCTGTCGAGAATATGCACTT-AT
65 ATCTATGCATA-AACTGTCCCCTAACGATGCTGCTCACACGAACTATCGAGAATATGC-CTTCAA
* * * * * *
377286 GCATAAATCTCAGCCATTGTAAGACTTATAATCCATTCTTGGA-TTC-TTTACTCGTTTCCCGAC
128 GCATAAATCCCAACCATCGTAAGACCTATAAACCATT-TTGGATTTCATAT-CTC-TTTCCCGAC
377349 TCA
190 TCA
* * * *
377352 CGATGCTACTCACACGAGCTGTCAAGGACTCACAACATATGCAGTACCA
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCA
377401 CAACTATCGC
Statistics
Matches: 203, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
192 46 0.23
193 22 0.11
194 75 0.37
195 60 0.30
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (192 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCAAGCCATCGACACGGTA
TCTATGCATAAACTGTCCCCTAACGATGCTGCTCACACGAACTATCGAGAATATGCCTTCAAGCA
TAAATCCCAACCATCGTAAGACCTATAAACCATTTTGGATTTCATATCTCTTTCCCGACTCA
Found at i:379527 original size:73 final size:69
Alignment explanation
Indices: 379367--379541 Score: 201
Period size: 69 Copynumber: 2.5 Consensus size: 69
379357 AAGTGACAAT
* * * * * *
379367 TTCTTCACTATTTTCATTAAAATTTTAATTTTAATTCCTCATTGACCATAGAATACTCTCATAAT
1 TTCTTCACTATTTTCATTAAAAATTTAATTTTAATTCCACATTGACCAGAAAAAACTCTCATAAC
379432 TCAC
66 TCAC
* * *
379436 TTCTTCATTATTTTCATTAAAAATTTAATTTTAATTTCACATTGACTAGAAAAAACTCCAATCTA
1 TTCTTCACTATTTTCATTAAAAATTTAATTTTAATTCCACATTGACCAGAAAAAACT-C--TC-A
*
379501 TAGCTCAC
62 TAACTCAC
*
379509 TTCTTCACTATTTCCATTAAAAA--TAATTTTAAT
1 TTCTTCACTATTTTCATTAAAAATTTAATTTTAAT
379542 CCCTTAAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 49 0.54
70 1 0.01
71 10 0.11
72 2 0.02
73 28 0.31
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (69 bp):
TTCTTCACTATTTTCATTAAAAATTTAATTTTAATTCCACATTGACCAGAAAAAACTCTCATAAC
TCAC
Found at i:379567 original size:20 final size:20
Alignment explanation
Indices: 379527--379569 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
379517 TATTTCCATT
379527 AAAAATAATTTTAATCCCTTA
1 AAAAATAATTTTAAT-CCTTA
379548 AAAAATTAATTTTAAT-CTTA
1 AAAAA-TAATTTTAATCCTTA
379568 AA
1 AA
379570 TTGGCTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATAATTTTAATCCTTA
Found at i:379768 original size:23 final size:21
Alignment explanation
Indices: 379720--379769 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
379710 TTTTATTTTA
379720 ATTATTAAATATAATTAAAAT
1 ATTATTAAATATAATTAAAAT
* *
379741 A-TATTAACTTATAAATTCAAAT
1 ATTATTAA-ATAT-AATTAAAAT
379763 ATTATTA
1 ATTATTA
379770 TAGAGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 9 0.38
23 5 0.21
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTATTAAATATAATTAAAAT
Found at i:380693 original size:58 final size:58
Alignment explanation
Indices: 380603--380714 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
380593 TCTTCCTTTA
*
380603 AAGAAATTTATGAAAGAGAGCTTATAGTTTAAACATTTATATAAATATATATATATAT
1 AAGAAATTTATGAAAGAGAGCTTATAGTTTAAACATATATATAAATATATATATATAT
* * *
380661 AAGAAATTTATGAAAGAGAGTTTATAGTTTAAATATATATATATATATATATAT
1 AAGAAATTTATGAAAGAGAGCTTATAGTTTAAACATATATATAAATATATATAT
380715 TATTGATATG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (58 bp):
AAGAAATTTATGAAAGAGAGCTTATAGTTTAAACATATATATAAATATATATATATAT
Found at i:382738 original size:15 final size:17
Alignment explanation
Indices: 382697--382738 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
382687 ACATGATTTC
*
382697 ATAATAGAAAACAATAT
1 ATAATAAAAAACAATAT
382714 ATACATAAAAAACAATA-
1 ATA-ATAAAAAACAATAT
382731 A-AATAAAA
1 ATAATAAAA
382739 TAATATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 1 0.04
17 4 0.17
18 12 0.52
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAATAAAAAACAATAT
Found at i:382918 original size:29 final size:29
Alignment explanation
Indices: 382791--382940 Score: 129
Period size: 30 Copynumber: 5.0 Consensus size: 29
382781 TTAAAACCAA
* * *
382791 GTCAGATTTGAATTTTTGGAAACGTTAGGG
1 GTCAAATTTGAATTTTTGGAAA-ATTTGGG
* *
382821 GTCAAATTAGAACTTTTGGAAAATTTGAGG
1 GTCAAATTTGAATTTTTGGAAAATTTG-GG
* *** ** * *
382851 GTTAAATCAAAAAATTTGGAAAGTTTTTGG
1 GTCAAATTTGAATTTTTGGAAA-ATTTGGG
*
382881 GTCAAATTTGAATTTTTAGAAAATTTGGG
1 GTCAAATTTGAATTTTTGGAAAATTTGGG
*
382910 GTCAAATTTGAATTTTTTGAAAATTTAGGG
1 GTCAAATTTGAATTTTTGGAAAATTT-GGG
382940 G
1 G
382941 CTTCACGGGC
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
29 33 0.35
30 59 0.62
31 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (29 bp):
GTCAAATTTGAATTTTTGGAAAATTTGGG
Found at i:383908 original size:18 final size:19
Alignment explanation
Indices: 383885--383925 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
383875 AATAATAAAT
*
383885 TTTATTTTA-TTATTTTTA
1 TTTATTTTATTTATTTATA
383903 TTTA-TTTATTTATTTATA
1 TTTATTTTATTTATTTATA
383921 TTTAT
1 TTTAT
383926 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTATTTATTTATA
Found at i:384628 original size:39 final size:39
Alignment explanation
Indices: 384523--384653 Score: 129
Period size: 39 Copynumber: 3.3 Consensus size: 39
384513 TATAGCTTTA
* * * *
384523 AGGGTAAAAGATTAAATTGCTTCAATTTGCCCCATGGTC
1 AGGGTAAAAGATTAGATTGCTTCAATCTGCCTCATAGTC
* * * * * *
384562 GGGGTAAAATATCAGATGGTCTTCAATCTGCCTTATAGTT
1 AGGGTAAAAGATTAGATTG-CTTCAATCTGCCTCATAGTC
* *
384602 AGGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTC
1 AGGGTAAAAGATTAGATTGCTTCAATCTGCCTCATAGTC
384641 -GAGGTAAAAGATT
1 AG-GGTAAAAGATT
384654 CGAGGTTGTA
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 42 0.58
40 29 0.40
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (39 bp):
AGGGTAAAAGATTAGATTGCTTCAATCTGCCTCATAGTC
Found at i:388441 original size:14 final size:15
Alignment explanation
Indices: 388424--388457 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
388414 ACTAAATTTT
388424 AATTCTGTAATT-AA
1 AATTCTGTAATTCAA
*
388438 AATTCTTTAATTCAA
1 AATTCTGTAATTCAA
388453 AATTC
1 AATTC
388458 CATATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTCTGTAATTCAA
Found at i:391092 original size:10 final size:10
Alignment explanation
Indices: 391074--391140 Score: 71
Period size: 10 Copynumber: 6.6 Consensus size: 10
391064 AAGTATACAG
* *
391074 AATAGAAAAC
1 AATATAAAAT
391084 AATATAAAAT
1 AATATAAAAT
*
391094 AAAATAAAAT
1 AATATAAAAT
*
391104 AAAATAAAAT
1 AATATAAAAT
391114 AATATAAAAT
1 AATATAAAAT
* *
391124 AAAATAATAT
1 AATATAAAAT
391134 ACATATA
1 A-ATATA
391141 TGATAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 45 0.92
11 4 0.08
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (10 bp):
AATATAAAAT
Found at i:391095 original size:5 final size:5
Alignment explanation
Indices: 391087--391130 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
391077 AGAAAACAAT
*
391087 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAT ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
391131 TATACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:391131 original size:15 final size:15
Alignment explanation
Indices: 391079--391134 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
391069 TACAGAATAG
*
391079 AAAACAATATAAAAT
1 AAAATAATATAAAAT
*
391094 AAAATAAAATAAAAT
1 AAAATAATATAAAAT
391109 AAAATAATATAAAAT
1 AAAATAATATAAAAT
391124 AAAATAATATA
1 AAAATAATATA
391135 CATATATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAATATAAAAT
Found at i:391217 original size:30 final size:29
Alignment explanation
Indices: 391179--391419 Score: 205
Period size: 30 Copynumber: 8.1 Consensus size: 29
391169 ATTAAAACCT
*
391179 GGTCAAATTTGAATTTTTGGAAACTTCAAG
1 GGTCAAATTTGAATTTTTGGAAAATT-AAG
* * * *
391209 GGTTAAATTGGAATTTTTGAAAAATTTAGG
1 GGTCAAATTTGAATTTTTGGAAAA-TTAAG
* ** * *
391239 GGCCAAATCAGAATTTTTGGAAAGTTCAAA
1 GGTCAAATTTGAATTTTTGGAAAATT-AAG
* *
391269 GGTCAAATTTGAATTTTTAGAAAATTTAGG
1 GGTCAAATTTGAATTTTTGGAAAA-TTAAG
* * *
391299 GGTCAAATTTAAATTTTTGGAAAGTTTAG
1 GGTCAAATTTGAATTTTTGGAAAATTAAG
* * *
391328 TGGTTAAATTTGAATTTTTAGAAAATTTAG
1 -GGTCAAATTTGAATTTTTGGAAAATTAAG
* * *
391358 GGTTAAATTTGAATTTTT-AAAAAGTGTAGG
1 GGTCAAATTTGAATTTTTGGAAAA-T-TAAG
*
391388 GGTCAAATTTAAATTTTTGGAAAAATTAAG
1 GGTCAAATTTGAATTTTTGG-AAAATTAAG
391418 GG
1 GG
391420 CTTCACGGGC
Statistics
Matches: 167, Mismatches: 36, Indels: 16
0.76 0.16 0.07
Matches are distributed among these distances:
28 4 0.02
29 24 0.14
30 130 0.78
31 5 0.03
32 4 0.02
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (29 bp):
GGTCAAATTTGAATTTTTGGAAAATTAAG
Done.