Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004259.1 Hibiscus syriacus cultivar Beakdansim tig00009330_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: 191420
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:6445 original size:65 final size:63
Alignment explanation
Indices: 6372--6533 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 63
6362 GAATTAATTG
* * * * * * *
6372 AACATCGAATGCAGTTCATGCATCGATGCACTCTCCATGCATCGATGCACT-TGGGTTTTAATGA
1 AACATCGAATGCAGTTAATGCATCGATGCACT-ACCATACATCAATGCACTCAGGCTTTT--TCA
6436 A
63 A
*
6437 AACATCGAATGCAGTTAATGCATCGATACACATACCATACATCAATGCACTCAGGCTTTTTCAA
1 AACATCGAATGCAGTTAATGCATCGATGCAC-TACCATACATCAATGCACTCAGGCTTTTTCAA
* * *
6501 AACATCGAATGCATTTTATGCACCGATGCACTA
1 AACATCGAATGCAGTTAATGCATCGATGCACTA
6534 AGGGTCCAAC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.02
64 30 0.36
65 44 0.53
66 7 0.08
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCAGTTAATGCATCGATGCACTACCATACATCAATGCACTCAGGCTTTTTCAA
Found at i:12334 original size:23 final size:23
Alignment explanation
Indices: 12265--12344 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
12255 ACACTTAACA
*
12265 GTGCATCAATGCA-TCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
* * *
12287 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
12308 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
12331 GTGCATCGATGCAC
1 GTGCATCGATGCAC
12345 AAGGACATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 9 0.20
23 21 0.46
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:12362 original size:43 final size:42
Alignment explanation
Indices: 12264--12366 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
12254 TACACTTAAC
* * *
12264 AGTGCATCAATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACAAGGA
* *
12306 AGGTGCACCGATGCACTCCTTGAATGTGCATCGATGCACAAGGA
1 A-GTGCATCGATGCA-TCCTTGAATGTGCATCGATACACAAGGA
12350 CA-TGCATCGATGCATCC
1 -AGTGCATCGATGCATCC
12367 GTCAAGTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 4 0.08
43 22 0.42
44 25 0.48
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (42 bp):
AGTGCATCGATGCATCCTTGAATGTGCATCGATACACAAGGA
Found at i:14991 original size:20 final size:20
Alignment explanation
Indices: 14962--14999 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14952 TTTCAAAGGG
14962 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
14982 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
15000 GAATTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:15038 original size:65 final size:64
Alignment explanation
Indices: 14962--15127 Score: 169
Period size: 65 Copynumber: 2.6 Consensus size: 64
14952 TTTCAAAGGG
* *
14962 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATTAATTG-AACATCGAATGCAGT
1 ATGCATCGATGCACC-ATCCATGCATCGATGCACTC-AGGAATTAA-TGAAACATCGAATGCAGT
15025 TC
63 TC
* * ** *
15027 ATGCATCGATGCACTC-TCCATGCATTGATGCACTCGGGTTTTAATGAAAACATCGAATGCATTT
1 ATGCATCGATGCAC-CATCCATGCATCGATGCACTCAGGAATTAATG-AAACATCGAATGCAGTT
*
15091 G
64 C
*
15092 ATGCATCGATGCA-CATACCATGCATCAATGCACTCA
1 ATGCATCGATGCACCAT-CCATGCATCGATGCACTCA
15128 TGCTTTTTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
63 3 0.04
64 22 0.26
65 58 0.69
66 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACCATCCATGCATCGATGCACTCAGGAATTAATGAAACATCGAATGCAGTTC
Found at i:15168 original size:64 final size:64
Alignment explanation
Indices: 15010--15171 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 64
15000 GAATTAATTG
* * ** * *
15010 AACATCGAATGCAGTTCATGCATCGATGCACTCTCCATGCATTGATGCACTCGGGTTTTAATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACTCACCATGCATCAATGCACTCGGCTTTT-ATCAA
* *
15075 AACATCGAATGCATTTGATGCATCGATGCACAT-ACCATGCATCAATGCACTCATGCTTTT-TCA
1 AACATCGAATGCATTTCATGCATCGATGCAC-TCACCATGCATCAATGCACTC-GGCTTTTATCA
15138 A
64 A
* *
15139 AACATCGAATCCATTTTATGCATCGATGCACTC
1 AACATCGAATGCATTTCATGCATCGATGCACTC
15172 TTAGTGCACC
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 32 0.38
65 45 0.54
66 6 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACTCACCATGCATCAATGCACTCGGCTTTTATCAA
Found at i:17410 original size:10 final size:10
Alignment explanation
Indices: 17387--17419 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
17377 AACAAATTTC
17387 TTTTA-TTA-
1 TTTTATTTAT
17395 TTTTATTTAT
1 TTTTATTTAT
17405 TTTTATTTAT
1 TTTTATTTAT
17415 TTTTA
1 TTTTA
17420 ACTTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 15 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:25770 original size:18 final size:17
Alignment explanation
Indices: 25749--25787 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
25739 TAATTAATTA
25749 AAAATATATAAATGTGAT
1 AAAATATATAAA-GTGAT
*
25767 AAAATATATAAAGTGTT
1 AAAATATATAAAGTGAT
25784 AAAA
1 AAAA
25788 GTCATACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
AAAATATATAAAGTGAT
Found at i:31470 original size:42 final size:43
Alignment explanation
Indices: 31423--31505 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 43
31413 ATTTGAGAAT
**
31423 TTAAAATATAAAT-AATTTGT-TAAAATA-AATGTAAAATTAATC
1 TTAAAA-ATAAATAAATTT-TATAAAATATAATAAAAAATTAATC
*
31465 TTAAAAATGAATAAATTTTATAAAATATAATAAAAAATTAA
1 TTAAAAATAAATAAATTTTATAAAATATAATAAAAAATTAA
31506 AATACATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.17
42 18 0.51
43 11 0.31
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (43 bp):
TTAAAAATAAATAAATTTTATAAAATATAATAAAAAATTAATC
Found at i:32817 original size:25 final size:26
Alignment explanation
Indices: 32788--32847 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
32778 AATTTAAAAA
*
32788 ATAAAATAAAAATA-TTATATATATT
1 ATAAAATAAAAATATTTAAATATATT
* *
32813 GTAAAAT-AATATATTTAAATATATT
1 ATAAAATAAAAATATTTAAATATATT
*
32838 AAAAAATAAA
1 ATAAAATAAA
32848 TATAAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 5 0.18
25 21 0.75
26 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
ATAAAATAAAAATATTTAAATATATT
Found at i:32845 original size:22 final size:22
Alignment explanation
Indices: 32814--32875 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
32804 ATATATATTG
*
32814 TAAAATAATATATTTAAATATAT-
1 TAAAA-AATATATATAAA-ATATC
*
32837 TAAAAAATAAATATAAAATATC
1 TAAAAAATATATATAAAATATC
*
32859 TATAAAATAT-TA-AAAAT
1 TAAAAAATATATATAAAAT
32876 TAAACACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.15
21 6 0.18
22 18 0.53
23 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAATATATATAAAATATC
Found at i:32873 original size:55 final size:53
Alignment explanation
Indices: 32752--32873 Score: 135
Period size: 55 Copynumber: 2.2 Consensus size: 53
32742 TTTATTTTAA
32752 AAAATATTAAAATAAATTACTTTTAAAATTTAAAAAATAAAATAAAAATATTAT
1 AAAATATTAAAATAAATTAC-TTTAAAATTTAAAAAATAAAATAAAAATATTAT
*
32806 -ATATATTGTAAAAT-AATATA-TTTAAATATATTAAAAAAT-AAATATAAAATATCTAT
1 AAAATA-T-TAAAATAAAT-TACTTTAAA-AT-TTAAAAAATAAAATA-AAAATAT-TAT
32862 AAAATATTAAAA
1 AAAATATTAAAA
32874 ATTAAACACT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
53 10 0.17
54 11 0.19
55 29 0.50
56 4 0.07
57 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (53 bp):
AAAATATTAAAATAAATTACTTTAAAATTTAAAAAATAAAATAAAAATATTAT
Found at i:33314 original size:19 final size:19
Alignment explanation
Indices: 33266--33319 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
33256 CTACTAGTGG
*
33266 ATTTTTAAATTTTT-ATTT
1 ATTTTTAAATTTTTAATAT
33284 ATTTTTCAAATTTTTAATAAT
1 ATTTTT-AAATTTTTAAT-AT
33305 ATTTTT-AATTTTTAA
1 ATTTTTAAATTTTTAA
33320 AATTACAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.19
19 17 0.53
20 2 0.06
21 7 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAAATTTTTAATAT
Found at i:33729 original size:21 final size:20
Alignment explanation
Indices: 33696--33734 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33686 TATAATTAAT
*
33696 ATTTTTCGTAAAATTAATTAC
1 ATTTTTCG-AAAAATAATTAC
*
33717 ATTTTTTGAAAAATAATT
1 ATTTTTCGAAAAATAATT
33735 TTAAAAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTTCGAAAAATAATTAC
Found at i:33914 original size:14 final size:14
Alignment explanation
Indices: 33895--33943 Score: 98
Period size: 14 Copynumber: 3.5 Consensus size: 14
33885 AAATAATTTA
33895 TTTATTATTATAAT
1 TTTATTATTATAAT
33909 TTTATTATTATAAT
1 TTTATTATTATAAT
33923 TTTATTATTATAAT
1 TTTATTATTATAAT
33937 TTTATTA
1 TTTATTA
33944 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTATTATAAT
Found at i:34094 original size:19 final size:19
Alignment explanation
Indices: 34027--34106 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
34017 AATAGTGTTA
34027 TATTAA-AATATTATTAGAT
1 TATTAATAATATTATTA-AT
34046 TATTATATTAATATTA--AAT
1 TATTA-A-TAATATTATTAAT
* *
34065 ATATAAATAATATTATTCAT
1 -TATTAATAATATTATTAAT
*
34085 TATTAATAAT-TTAATAA-
1 TATTAATAATATTATTAAT
34102 TATTA
1 TATTA
34107 TTTCTATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.26
19 17 0.34
20 8 0.16
22 7 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TATTAATAATATTATTAAT
Found at i:34238 original size:22 final size:22
Alignment explanation
Indices: 34188--34255 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
34178 TATCTTATAT
34188 TATTATAATA-TAATATAATTATT-
1 TATTATAATATTAA-A-AA-TATTA
34211 TCATTATAATATTAAAAATATTA
1 T-ATTATAATATTAAAAATATTA
* *
34234 TATTATATTATTAGAAATATTA
1 TATTATAATATTAAAAATATTA
34256 ATAAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 23 0.57
23 4 0.10
24 10 0.25
25 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TATTATAATATTAAAAATATTA
Found at i:34263 original size:22 final size:21
Alignment explanation
Indices: 34220--34288 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
34210 TTCATTATAA
*
34220 TATTAAAAATATTATATTATAT
1 TATTAAAAATATTATA-AATAT
*
34242 TATTAGAAATATTAATAAATA-
1 TATTAAAAATATT-ATAAATAT
** *
34263 TATTTTAAATATTTTAAATAT
1 TATTAAAAATATTATAAATAT
34284 T-TTAA
1 TATTAA
34289 TAATTAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 8 0.21
21 12 0.32
22 15 0.39
23 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
TATTAAAAATATTATAAATAT
Found at i:34274 original size:9 final size:9
Alignment explanation
Indices: 34262--34288 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
34252 ATTAATAAAT
34262 ATATTTTAA
1 ATATTTTAA
34271 ATATTTTAA
1 ATATTTTAA
34280 ATATTTTAA
1 ATATTTTAA
34289 TAATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTTTAA
Found at i:34341 original size:24 final size:24
Alignment explanation
Indices: 34290--34341 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34280 ATATTTTAAT
34290 AATT-AATATTTTGATTAAAATGA
1 AATTAAATATTTTGATTAAAATGA
* * * *
34313 TATTAAATATTTTTATTAATATTA
1 AATTAAATATTTTGATTAAAATGA
34337 AATTA
1 AATTA
34342 TAAAATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AATTAAATATTTTGATTAAAATGA
Found at i:34793 original size:15 final size:15
Alignment explanation
Indices: 34775--34805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34765 AAATTCTAAA
34775 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
34790 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
34805 T
1 T
34806 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:49148 original size:27 final size:26
Alignment explanation
Indices: 49110--49166 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
49100 AACACAAATG
49110 CTAGCTATATATATTTCAGCTTGTAAC
1 CTAG-TATATATATTTCAGCTTGTAAC
49137 CTAGT-TATATATTTCAGCTTGTAAC
1 CTAGTATATATATTTCAGCTTGTAAC
49162 CTAGT
1 CTAGT
49167 TAGCCAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.83
26 1 0.03
27 4 0.13
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
CTAGTATATATATTTCAGCTTGTAAC
Found at i:49151 original size:25 final size:25
Alignment explanation
Indices: 49117--49168 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
49107 ATGCTAGCTA
49117 TATATATTTCAGCTTGTAACCTAGT
1 TATATATTTCAGCTTGTAACCTAGT
49142 TATATATTTCAGCTTGTAACCTAGT
1 TATATATTTCAGCTTGTAACCTAGT
49167 TA
1 TA
49169 GCCAGATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (25 bp):
TATATATTTCAGCTTGTAACCTAGT
Found at i:54850 original size:18 final size:20
Alignment explanation
Indices: 54817--54853 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
54807 TTTCTTTAGA
54817 TTAATATAAGTATTTTCATT
1 TTAATATAAGTATTTTCATT
54837 TTAATAT-A-TATTTTCAT
1 TTAATATAAGTATTTTCAT
54854 ATTATGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
TTAATATAAGTATTTTCATT
Found at i:67537 original size:19 final size:20
Alignment explanation
Indices: 67500--67540 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
67490 TGAGACCATG
67500 AATTTCAAATATACAAAATT
1 AATTTCAAATATACAAAATT
67520 AATTTCAAA-ACT-CAAAATT
1 AATTTCAAATA-TACAAAATT
67539 AA
1 AA
67541 AGATAAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTTCAAATATACAAAATT
Found at i:74219 original size:20 final size:21
Alignment explanation
Indices: 74152--74221 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
74142 ATATCTAGAG
**
74152 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATAATTTAA
* *
74173 -TAATCATGAATATTTAATTTCAA
1 TTAAT--TAAATATATAATTT-AA
74196 TTAATTAAATATAT-ATTTAA
1 TTAATTAAATATATAATTTAA
74216 TTAATT
1 TTAATT
74222 TGAAATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 12 0.31
21 4 0.10
22 17 0.44
23 2 0.05
24 4 0.10
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATAATTTAA
Found at i:74304 original size:90 final size:88
Alignment explanation
Indices: 74186--74359 Score: 294
Period size: 89 Copynumber: 2.0 Consensus size: 88
74176 TCATGAATAT
* *
74186 TTAATTTCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
74251 GATAACTTGGATATAAAAGGATTA
65 GATAACTTGGATATAAAAGGATTA
74275 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
* *
74340 GGTAACTTGGCTATAAAAGG
65 GATAACTTGGATATAAAAGG
74360 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 40 0.50
90 40 0.50
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
ATAACTTGGATATAAAAGGATTA
Found at i:77727 original size:3 final size:3
Alignment explanation
Indices: 77714--77766 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
77704 ATTTTAATTC
*
77714 ATT ACT ATT ATT ATT -TT AATT ATT ATT ATTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT ATT ATT
77760 ATT ATT A
1 ATT ATT A
77767 ATACAAATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:77729 original size:22 final size:21
Alignment explanation
Indices: 77703--77766 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
77693 GGGTCTTTTC
*
77703 TATTTTAATTCATTACTATTAT
1 TATTTTAATT-ATTATTATTAT
77725 TATTTTAATTATTATTATTTAT
1 TATTTTAATTATTATTA-TTAT
77747 TATTATT-ATTATTATTATTA
1 TATT-TTAATTATTATTATTA
77767 ATACAAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 9 0.23
22 28 0.72
23 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTAATTATTATTATTAT
Found at i:77753 original size:25 final size:25
Alignment explanation
Indices: 77719--77766 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
77709 AATTCATTAC
77719 TATTATTATT-TTAATTATTATTATT
1 TATTATTATTATT-ATTATTATTATT
77744 TATTATTATTATTATTATTATTA
1 TATTATTATTATTATTATTATTA
77767 ATACAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTATTATTATTATTATTATTATT
Found at i:90802 original size:14 final size:14
Alignment explanation
Indices: 90762--90808 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
90752 ATATGATGGA
*
90762 AAAATG-AAAAATG
1 AAAATGAAAAAAAG
90775 AAAAATGAAGAAAAAG
1 -AAAATGAA-AAAAAG
90791 AAAATGAAAAAAAG
1 AAAATGAAAAAAAG
90805 AAAA
1 AAAA
90809 AAATAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 16 0.53
15 9 0.30
16 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (14 bp):
AAAATGAAAAAAAG
Found at i:90810 original size:7 final size:7
Alignment explanation
Indices: 90760--90801 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
90750 AAATATGATG
90760 GAAAAAT
1 GAAAAAT
90767 GAAAAAT
1 GAAAAAT
90774 GAAAAAT
1 GAAAAAT
90781 GAAGAAA-
1 GAA-AAAT
*
90788 AAGAAAAT
1 GA-AAAAT
90796 GAAAAA
1 GAAAAA
90802 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (7 bp):
GAAAAAT
Found at i:90810 original size:22 final size:22
Alignment explanation
Indices: 90760--90811 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
90750 AAATATGATG
*
90760 GAAAAATGAAAAATGAAAAATGAA
1 GAAAAA-G-AAAATGAAAAAAGAA
90784 GAAAAAGAAAATGAAAAAAAGAA
1 GAAAAAGAAAATG-AAAAAAGAA
90807 -AAAAA
1 GAAAAA
90812 TAAATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.42
23 9 0.35
24 6 0.23
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAAAAGAAAATGAAAAAAGAA
Found at i:92228 original size:3 final size:3
Alignment explanation
Indices: 92215--92267 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
92205 ATTTTAATTC
*
92215 ATT ACT ATT ATT ATT -TT AATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT A-TT ATT ATT ATT ATT ATT ATT
92261 ATT ATT A
1 ATT ATT A
92268 CAAATGGACA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:92230 original size:22 final size:20
Alignment explanation
Indices: 92204--92267 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 20
92194 GGGTCTTTTC
92204 TATTTTAATTCATTACTATTAT
1 TATTTTAATT-ATTA-TATTAT
92226 TATTTTAATTATTAT-TTAT
1 TATTTTAATTATTATATTAT
92245 TATTATT-ATTATTATTATTAT
1 TATT-TTAATTATTA-TATTAT
92266 TA
1 TA
92268 CAAATGGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
19 15 0.38
20 4 0.10
21 10 0.26
22 10 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTAATTATTATATTAT
Found at i:96895 original size:35 final size:35
Alignment explanation
Indices: 96856--96924 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
96846 TTCATATTCA
96856 AAATTCCAAAACACTTCAATTACATTATAAACCCC
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
* *
96891 AAATTCCAAAATACTTCAATTACATTCTAAACCC
1 AAATTCCAAAACACTTCAATTACATTATAAACCC
96925 TAAACTAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTATAAACCCC
Found at i:98950 original size:31 final size:30
Alignment explanation
Indices: 98915--99018 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 30
98905 GAAAGCAAAC
98915 CAAAGAAAACAGAAACCCACCACAACAAAAA
1 CAAAGAAAACA-AAACCCACCACAACAAAAA
* *
98946 CAAAGAAAACAAAAACCC-CCACAGA-AGAAG
1 CAAAGAAAAC-AAAACCCACCACA-ACAAAAA
* *
98976 CAAAGGAAACAAAAGCCCATCACAACAAAAA
1 CAAAGAAAACAAAA-CCCACCACAACAAAAA
99007 CAAAG-AAACAAA
1 CAAAGAAAACAAA
99019 TATAGGGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
29 4 0.06
30 28 0.45
31 29 0.47
32 1 0.02
ACGTcount: A:0.63, C:0.26, G:0.10, T:0.01
Consensus pattern (30 bp):
CAAAGAAAACAAAACCCACCACAACAAAAA
Found at i:98980 original size:30 final size:31
Alignment explanation
Indices: 98915--99018 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 31
98905 GAAAGCAAAC
*
98915 CAAAGAAAACAGAAACCCACCACAACAAAAA
1 CAAAGAAAACAAAAACCCACCACAACAAAAA
* *
98946 CAAAGAAAACAAAAACCC-CCACAGA-AGAAG
1 CAAAGAAAACAAAAACCCACCACA-ACAAAAA
* * *
98976 CAAAGGAAACAAAAGCCCATCACAACAAAAA
1 CAAAGAAAACAAAAACCCACCACAACAAAAA
99007 CAAAG-AAACAAA
1 CAAAGAAAACAAA
99019 TATAGGGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 32 0.52
31 30 0.48
ACGTcount: A:0.63, C:0.26, G:0.10, T:0.01
Consensus pattern (31 bp):
CAAAGAAAACAAAAACCCACCACAACAAAAA
Found at i:101324 original size:3 final size:3
Alignment explanation
Indices: 101318--101377 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
101308 TTCATTCTAA
* * *
101318 TAT TAT T-T ATAT T-T TAT TAT TAT AAT TAT AAT TAT AAT TAT TA-
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101361 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
101378 AATAATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.11
3 41 0.87
4 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:102860 original size:20 final size:19
Alignment explanation
Indices: 102835--102876 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
102825 CTATTTTATA
102835 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
102855 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
102874 AAT
1 AAT
102877 ATTGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:102958 original size:23 final size:25
Alignment explanation
Indices: 102923--102971 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
102913 CCTTTTCTGA
*
102923 TATTTCTAAATAAA-TAA-ATATTT
1 TATTTATAAATAAATTAATATATTT
*
102946 TATTTATATATAAATTAATATATTT
1 TATTTATAAATAAATTAATATATTT
102971 T
1 T
102972 TCATAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTATAAATAAATTAATATATTT
Found at i:103515 original size:24 final size:24
Alignment explanation
Indices: 103458--103515 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
103448 AATGTTTATA
* *
103458 TATACTTATTATTTTCATAGTATT
1 TATATTTATTATTTTCATAATATT
*
103482 TATATATATTATTTT-ATTAATATT
1 TATATTTATTATTTTCA-TAATATT
103506 TCAT-TTTATT
1 T-ATATTTATT
103516 TACAAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTATTATTTTCATAATATT
Found at i:106824 original size:15 final size:15
Alignment explanation
Indices: 106804--106835 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
106794 GATCAATACC
106804 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
106819 TTTTGCATACATTCA
1 TTTTGCATACATGCA
106834 TT
1 TT
106836 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:114172 original size:20 final size:20
Alignment explanation
Indices: 114173--114216 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
114163 AAAAAAGAAG
114173 AAGAAGAAAAAATGA-AAAAA
1 AAGAAG-AAAAATGAGAAAAA
* *
114193 AAGAAGGAGAATGAGAAAAA
1 AAGAAGAAAAATGAGAAAAA
114213 AAGA
1 AAGA
114217 GAGGGGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AAGAAGAAAAATGAGAAAAA
Found at i:114213 original size:29 final size:26
Alignment explanation
Indices: 114149--114212 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
114139 TATTATGCTT
114149 GAAGAAAAAATGAAAAAAAAGAAGAA
1 GAAGAAAAAATGAAAAAAAAGAAGAA
*
114175 GAAGAAAAAATGAAAAAAAAGAAGGA
1 GAAGAAAAAATGAAAAAAAAGAAGAA
114201 GAATGAGAAAAA
1 GAA-GA-AAAAA
114213 AAGAGAGGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 28 0.80
27 2 0.06
28 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (26 bp):
GAAGAAAAAATGAAAAAAAAGAAGAA
Found at i:114613 original size:19 final size:17
Alignment explanation
Indices: 114571--114619 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
114561 TATTTTCTCT
114571 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
114587 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
114605 AAAATTCAACTTATT
1 -AAATTCAATTTATT
114620 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:115946 original size:113 final size:113
Alignment explanation
Indices: 115757--116416 Score: 1061
Period size: 113 Copynumber: 5.8 Consensus size: 113
115747 CCATCACTCA
* *
115757 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
115822 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
*
115870 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
115935 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
*
115983 ATGGATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* ** ** * *
116048 TCATAATGAGAAGAGCTTGTTCAACCTTTTCCTCAAATCCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
*
116096 ATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * ** *
116161 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
116209 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
116274 TCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
* * ** * *
116322 ATGGATCAGCATTGCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAATT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
116386 TCATAATGAAAAGAACTTGTTCAACCTTTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTG
116417 CATAACTCTA
Statistics
Matches: 513, Mismatches: 34, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
112 69 0.13
113 444 0.87
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTG
Found at i:118253 original size:20 final size:19
Alignment explanation
Indices: 118228--118269 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
118218 CTATTTTATA
118228 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
118248 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
118267 AAT
1 AAT
118270 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:118351 original size:23 final size:25
Alignment explanation
Indices: 118316--118364 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
118306 CCTTTTCTGA
*
118316 TATTTCTAAATAAA-TAA-ATATTT
1 TATTTATAAATAAACTAATATATTT
*
118339 TATTTATATATAAACTAATATATTT
1 TATTTATAAATAAACTAATATATTT
118364 T
1 T
118365 TCATAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTATAAATAAACTAATATATTT
Found at i:128036 original size:31 final size:31
Alignment explanation
Indices: 127998--128058 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
127988 AAAGGTAAGA
127998 ACAAACTAGTGAATTTGTTAGAAAATCCTTC
1 ACAAACTAGTGAATTTGTTAGAAAATCCTTC
128029 ACAAACTAGTGAATTTGTTAGAAAATCCTT
1 ACAAACTAGTGAATTTGTTAGAAAATCCTT
128059 AGTGTGGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (31 bp):
ACAAACTAGTGAATTTGTTAGAAAATCCTTC
Found at i:130835 original size:54 final size:54
Alignment explanation
Indices: 130745--130915 Score: 243
Period size: 54 Copynumber: 3.2 Consensus size: 54
130735 TTGTCAATGC
* * * * * *
130745 TGCTCTGAGTGGAATTGTTCTCGTTCTGCCCAGCACTTTCATTGGTTTCAGTGT
1 TGCTCTGAGCGGCATTGTTCTCGTTCTGACCTGCACTTTCATTGTTTTCGGTGT
*
130799 TTCTCTGAGCGGCATTGTTCTCGTTCTGACCTGCACTTTCATTGTTTTCGGTGT
1 TGCTCTGAGCGGCATTGTTCTCGTTCTGACCTGCACTTTCATTGTTTTCGGTGT
* * * *
130853 TGCTCTGATCGGCATTGTTCTCGTTCTGACCTTCAGTTTCATTGTTTTTGGTGT
1 TGCTCTGAGCGGCATTGTTCTCGTTCTGACCTGCACTTTCATTGTTTTCGGTGT
130907 TGCTCTGAG
1 TGCTCTGAG
130916 TGTCATTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.44
Consensus pattern (54 bp):
TGCTCTGAGCGGCATTGTTCTCGTTCTGACCTGCACTTTCATTGTTTTCGGTGT
Found at i:131697 original size:29 final size:29
Alignment explanation
Indices: 131664--131733 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
131654 AAATAAGTTC
131664 ACATCTAAATTA-ATTTGATGTCATTGCTT
1 ACATC-AAATTAGATTTGATGTCATTGCTT
* *
131693 ACATCAATTTAGTTTTGATGTCATTGCTT
1 ACATCAAATTAGATTTGATGTCATTGCTT
*
131722 ACATCAATTTAG
1 ACATCAAATTAG
131734 TTAGGTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (29 bp):
ACATCAAATTAGATTTGATGTCATTGCTT
Found at i:131734 original size:29 final size:29
Alignment explanation
Indices: 131677--131735 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
131667 TCTAAATTAA
131677 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
131706 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
131735 T
1 T
131736 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:134385 original size:2 final size:2
Alignment explanation
Indices: 134378--134432 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
134368 TCATTGGTGC
134378 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
134420 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
134433 GTATGTGTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:135361 original size:21 final size:19
Alignment explanation
Indices: 135321--135361 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
135311 TGGCGACTCC
*
135321 AATTCAAAATTTTTAAATT
1 AATTCAAAATTTTCAAATT
135340 AATTCAAAAATTTTCCAAATT
1 AATTC-AAAATTTT-CAAATT
135361 A
1 A
135362 GTCATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATTTTCAAATT
Found at i:142085 original size:19 final size:20
Alignment explanation
Indices: 142062--142106 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
142052 TGCATATTTC
142062 ATTTTTA-TATATTTTTTAT
1 ATTTTTATTATATTTTTTAT
*
142081 -TTTTTATTTTATTTTTTATT
1 ATTTTTATTATATTTTTTA-T
142101 ATTTTT
1 ATTTTT
142107 TTACTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 1 0.05
21 5 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTATTATATTTTTTAT
Found at i:142088 original size:29 final size:30
Alignment explanation
Indices: 142042--142107 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
142032 TTTTATTTTA
142042 ATTTTTTATTTGCATATTTCA-TTTTTATAT
1 ATTTTTTATTTGCATATTTCATTTTTTAT-T
** *
142072 ATTTTTTATTT-TTTATTTTATTTTTTATT
1 ATTTTTTATTTGCATATTTCATTTTTTATT
142101 ATTTTTT
1 ATTTTTT
142108 TACTTTTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.76
Consensus pattern (30 bp):
ATTTTTTATTTGCATATTTCATTTTTTATT
Found at i:142108 original size:30 final size:29
Alignment explanation
Indices: 142056--142114 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
142046 TTTATTTGCA
*
142056 TATTTCATTTTTATATATTTTTTATTTTT
1 TATTTCATTTTTATATATTTTTTACTTTT
*
142085 TATTTTATTTTT-TATTATTTTTTTACTTTT
1 TATTTCATTTTTATA-TA-TTTTTTACTTTT
142115 GGGTTTGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.50
30 11 0.42
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (29 bp):
TATTTCATTTTTATATATTTTTTACTTTT
Found at i:142114 original size:19 final size:19
Alignment explanation
Indices: 142071--142114 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
142061 CATTTTTATA
*
142071 TATTTTTTATTTTTTATTT
1 TATTTTTTATTATTTATTT
142090 TATTTTTTATTATTT-TTT
1 TATTTTTTATTATTTATTT
*
142108 TACTTTT
1 TATTTTT
142115 GGGTTTGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (19 bp):
TATTTTTTATTATTTATTT
Found at i:142217 original size:20 final size:19
Alignment explanation
Indices: 142165--142219 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
142155 CTTATTTTAA
142165 TTAT-TTTC-TTTATTTTT
1 TTATCTTTCTTTTATTTTT
*
142182 TTATCTTT-TGTATATTTCTT
1 TTATCTTTCT-TTTATTT-TT
142202 TTATCTTTCTTTTATTTT
1 TTATCTTTCTTTTATTTT
142220 ATTCCTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 7 0.23
20 16 0.52
21 1 0.03
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATCTTTCTTTTATTTTT
Found at i:142311 original size:7 final size:7
Alignment explanation
Indices: 142299--142341 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
142289 TACTATAATT
142299 TTTTGTA
1 TTTTGTA
142306 TTTTGTA
1 TTTTGTA
142313 TTTTGTA
1 TTTTGTA
142320 TTTTGTA
1 TTTTGTA
142327 TTTT-TA
1 TTTTGTA
142333 TTTT-TA
1 TTTTGTA
142339 TTT
1 TTT
142342 CTTTTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (7 bp):
TTTTGTA
Found at i:142336 original size:6 final size:6
Alignment explanation
Indices: 142299--142356 Score: 57
Period size: 7 Copynumber: 9.3 Consensus size: 6
142289 TACTATAATT
*
142299 TTTTGTA TTTTGTA TTTTGTA TTTTGTA TTTTTA TTTTTA --TTTC TTTTTA
1 TTTT-TA TTTT-TA TTTT-TA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
142349 TTTTTA TT
1 TTTTTA TT
142357 ATTTTGCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.06
6 19 0.40
7 25 0.53
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:143617 original size:19 final size:18
Alignment explanation
Indices: 143593--143630 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
143583 AAAACTTTAA
143593 AATTTTAATATAATATATT
1 AATTTTAATATAATA-ATT
*
143612 AATTTTGATATAATAATT
1 AATTTTAATATAATAATT
143630 A
1 A
143631 TATATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTTTAATATAATAATT
Found at i:143686 original size:26 final size:27
Alignment explanation
Indices: 143619--143689 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
143609 ATTAATTTTG
*
143619 ATATAATA-ATTATATATAAAAGTGTA
1 ATATTATATATTATATATAAAAGTGTA
143645 ATTATTATATATTATATATAAAAGTGTA
1 A-TATTATATATTATATATAAAAGTGTA
143673 A-A-TATATATGTATATAT
1 ATATTATATAT-TATATAT
143690 TATGTATAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 7 0.17
26 9 0.22
27 6 0.15
28 19 0.46
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (27 bp):
ATATTATATATTATATATAAAAGTGTA
Found at i:143698 original size:33 final size:28
Alignment explanation
Indices: 143627--143689 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
143617 TGATATAATA
143627 ATTATATATAAAAGTGTAATTATTATAT
1 ATTATATATAAAAGTGTAATTATTATAT
143655 ATTATATATAAAAGTGTAA--A-TATAT
1 ATTATATATAAAAGTGTAATTATTATAT
143680 ATGTATATAT
1 AT-TATATAT
143690 TATGTATAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 7 0.21
26 8 0.24
28 19 0.56
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
ATTATATATAAAAGTGTAATTATTATAT
Found at i:143824 original size:20 final size:20
Alignment explanation
Indices: 143799--143836 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
143789 TTTTTCATTA
*
143799 ATTTAATTTTTATTTTTAAT
1 ATTTAATATTTATTTTTAAT
143819 ATTTAATATTTATTTTTA
1 ATTTAATATTTATTTTTA
143837 TACTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTAATATTTATTTTTAAT
Found at i:146217 original size:20 final size:20
Alignment explanation
Indices: 146188--146239 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
146178 AACAGGTAAA
*
146188 AAATGACAAAACCGATTTAT
1 AAATGACAAAACCGATCTAT
* *
146208 AAATGGCAAAACCGGTCTAT
1 AAATGACAAAACCGATCTAT
146228 AAATGACAAAAC
1 AAATGACAAAAC
146240 AGGTAAAGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.19
Consensus pattern (20 bp):
AAATGACAAAACCGATCTAT
Found at i:146411 original size:112 final size:112
Alignment explanation
Indices: 146214--146506 Score: 480
Period size: 112 Copynumber: 2.6 Consensus size: 112
146204 TTATAAATGG
146214 CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACT
1 CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACT
*
146279 TTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATAA
66 TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATAA
* * * * *
146326 CAAAATCGGTCTATAAATGACAAAACATGTAAAGCACTACCAGATATATTGAAAGTGTTGATACT
1 CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACT
* **
146391 TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGG
66 TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATAA
*
146438 CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTT-AATAGTGTCGATAC
1 CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAA-AGTGTCGATAC
146502 TTTAT
65 TTTAT
146507 TATAAGTATC
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
111 2 0.01
112 163 0.99
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (112 bp):
CAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACT
TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATAA
Found at i:146724 original size:162 final size:162
Alignment explanation
Indices: 146454--146791 Score: 516
Period size: 162 Copynumber: 2.1 Consensus size: 162
146444 CGGTCTATAA
* *
146454 ATGACAAAACAGGTAAAGCGCTACCGGATATGTTAATAGTGTCGATACTTTATTATAAGTATCGA
1 ATGACAAAACCGGTAAAGAGCTACCGGATATGTTAATAGTGTCGATACTTTATTATAAGTATCGA
* * *
146519 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACTAATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
* *
146584 TATTGATCTATAACAATATAACAGGTAAAAAT
131 TATCGATCCATAACAATATAACAGGTAAAAAT
* * *
146616 ATGACAAAACCGGTAAAGAGTTACCGGATATGTTGAA-AGTTTCTATACTTTATTATAAGTATCG
1 ATGACAAAACCGGTAAAGAGCTACCGGATATGTT-AATAGTGTCGATACTTTATTATAAGTATCG
*
146680 ACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAAT
65 ACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAAT
* * * *
146745 TTATCGATCCATAACAATCTAATATGTAAAAAT
130 GTATCGATCCATAACAATATAACAGGTAAAAAT
*
146778 ATGACAAAATCGGT
1 ATGACAAAACCGGT
146792 CTCGAAATGA
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
162 157 0.99
163 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (162 bp):
ATGACAAAACCGGTAAAGAGCTACCGGATATGTTAATAGTGTCGATACTTTATTATAAGTATCGA
CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAAT
Found at i:148605 original size:132 final size:132
Alignment explanation
Indices: 148411--148658 Score: 451
Period size: 132 Copynumber: 1.9 Consensus size: 132
148401 ATCAAACCAC
* *
148411 TAGCCGTTAATATTTGATAGAAATGTTGACGTGGTAATTAAAATAATTGGTATATTTTTACATTT
1 TAGCCGTTAATATTTGACAGAAATGTTGACGTGGTAATTAAAATAATTGATATATTTTTACATTT
148476 AGTCCTTAATATTTATATATTCTCTCAATTTGGTCATAAATTTAATTTAATTTAATAAATTAATC
66 AGTCCTTAATATTTATATATTCTCTCAATTTGGTCATAAATTTAATTTAATTTAATAAATTAATC
148541 AT
131 AT
* * *
148543 TAGCCGTTAATATTTGACGGAAATGTTGATGTGGTAGTTAAAATAATTGATATATTTTTACATTT
1 TAGCCGTTAATATTTGACAGAAATGTTGACGTGGTAATTAAAATAATTGATATATTTTTACATTT
148608 AGTCCTTAATATTTATATATTCTCTCAATTTGGTCATAAATTTAATTTAAT
66 AGTCCTTAATATTTATATATTCTCTCAATTTGGTCATAAATTTAATTTAAT
148659 AAATTAACCA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 111 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (132 bp):
TAGCCGTTAATATTTGACAGAAATGTTGACGTGGTAATTAAAATAATTGATATATTTTTACATTT
AGTCCTTAATATTTATATATTCTCTCAATTTGGTCATAAATTTAATTTAATTTAATAAATTAATC
AT
Found at i:149196 original size:23 final size:26
Alignment explanation
Indices: 149149--149197 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
149139 ATTGAGAATG
149149 TAAAAATTTATATATTGTAATTAAAAA
1 TAAAAATTTATATA-TGTAATTAAAAA
149176 TAAAAATTTA-ATA-G-AATTAAAA
1 TAAAAATTTATATATGTAATTAAAA
149198 TTATGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
26 3 0.14
27 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
TAAAAATTTATATATGTAATTAAAAA
Found at i:151893 original size:35 final size:35
Alignment explanation
Indices: 151847--151916 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
151837 GACGGGACTA
151847 CATTTTCTCTTGATTCAAAACAATTCCGACCAAAC
1 CATTTTCTCTTGATTCAAAACAATTCCGACCAAAC
151882 CATTTTCTCTTGATTCAAAACAATTCCGACCAAAC
1 CATTTTCTCTTGATTCAAAACAATTCCGACCAAAC
151917 GTGAAAGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (35 bp):
CATTTTCTCTTGATTCAAAACAATTCCGACCAAAC
Found at i:159385 original size:21 final size:21
Alignment explanation
Indices: 159359--159463 Score: 95
Period size: 22 Copynumber: 4.8 Consensus size: 21
159349 TTTAGTGCAG
*
159359 AGGGAATCGATACCCCCTTAA
1 AGGGAATCGATTCCCCCTTAA
*
159380 AGGGAAACCGATTCCCCCTTAA
1 AGGG-AATCGATTCCCCCTTAA
*
159402 AGGGAAACCGATTCCCCCTTTGAA
1 AGGG-AATCGATTCCCCC-TT-AA
* *
159426 TGGGAATCGATTCCCTCCTT-T
1 AGGGAATCGATTCCC-CCTTAA
* *
159447 AGGGAATTGATACCCCC
1 AGGGAATCGATTCCCCC
159464 ACGAGTTCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
20 2 0.03
21 16 0.22
22 33 0.46
23 14 0.19
24 7 0.10
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATTCCCCCTTAA
Found at i:159396 original size:22 final size:22
Alignment explanation
Indices: 159366--159421 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
159356 CAGAGGGAAT
*
159366 CGATACCCCCTTAAAGGGAAAC
1 CGATTCCCCCTTAAAGGGAAAC
159388 CGATTCCCCCTTAAAGGGAAAC
1 CGATTCCCCCTTAAAGGGAAAC
159410 CGATTCCCCCTT
1 CGATTCCCCCTT
159422 TGAATGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.20
Consensus pattern (22 bp):
CGATTCCCCCTTAAAGGGAAAC
Found at i:161352 original size:11 final size:12
Alignment explanation
Indices: 161336--161368 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
161326 TAAGGGGAAG
161336 TAATTTCAAAC-
1 TAATTTCAAACT
161347 TAATTTCAAACT
1 TAATTTCAAACT
*
161359 TGATTTCAAA
1 TAATTTCAAA
161369 ATCTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (12 bp):
TAATTTCAAACT
Found at i:164015 original size:31 final size:31
Alignment explanation
Indices: 163980--164039 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
163970 AAACATAAAC
*
163980 TATGACCATTTTTATTTTTATTTAATTAATA
1 TATGACCACTTTTATTTTTATTTAATTAATA
* *
164011 TATGATCACTTTTGTTTTTATTTAATTAA
1 TATGACCACTTTTATTTTTATTTAATTAA
164040 GATGTGGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (31 bp):
TATGACCACTTTTATTTTTATTTAATTAATA
Found at i:164212 original size:29 final size:29
Alignment explanation
Indices: 164156--164216 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
164146 TTAGTCATAC
* * *
164156 TTTTAAATAAAATTTAACATAGAAATATAT
1 TTTTAAATAAAAATAAAAATAGAAATAT-T
*
164186 TTTTAAATAAAAATAAAAAT-GGAATATT
1 TTTTAAATAAAAATAAAAATAGAAATATT
164214 TTT
1 TTT
164217 AGATTAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 6 0.22
30 17 0.63
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (29 bp):
TTTTAAATAAAAATAAAAATAGAAATATT
Found at i:164325 original size:28 final size:28
Alignment explanation
Indices: 164283--164374 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
164273 CAAGTTAATA
*
164283 TATATAAAATATTATGAGTTTAAGTATT
1 TATACAAAATATTATGAGTTTAAGTATT
*** * * *
164311 TATACATTTTTTTAT-ACTTTCAAGTTAATA
1 TATACAAAATATTATGAGTTT-AAG-T-ATT
*
164341 TATATAAAATATTATGAGTTTAAGTATT
1 TATACAAAATATTATGAGTTTAAGTATT
164369 TATACA
1 TATACA
164375 CTAAGTGACT
Statistics
Matches: 45, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
27 4 0.09
28 20 0.44
29 2 0.04
30 15 0.33
31 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (28 bp):
TATACAAAATATTATGAGTTTAAGTATT
Found at i:164326 original size:58 final size:58
Alignment explanation
Indices: 164254--164374 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
164244 AATAAGTTAA
164254 TATA-ATTTTTTTATACTTTCAAGTTAATATATATAAAATATTATGAGTTTAAGTATT
1 TATACATTTTTTTATACTTTCAAGTTAATATATATAAAATATTATGAGTTTAAGTATT
164311 TATACATTTTTTTATACTTTCAAGTTAATATATATAAAATATTATGAGTTTAAGTATT
1 TATACATTTTTTTATACTTTCAAGTTAATATATATAAAATATTATGAGTTTAAGTATT
164369 TATACA
1 TATACA
164375 CTAAGTGACT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 4 0.06
58 59 0.94
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (58 bp):
TATACATTTTTTTATACTTTCAAGTTAATATATATAAAATATTATGAGTTTAAGTATT
Found at i:164921 original size:26 final size:27
Alignment explanation
Indices: 164871--164927 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
164861 ATGGCAACGT
*
164871 AATATAAGTATATTTTTTTATCATTCA
1 AATATAAGTATATCTTTTTATCATTCA
164898 AATATAAGTAT-TCTTTTTATCATTCA
1 AATATAAGTATATCTTTTTATCATTCA
164924 AATA
1 AATA
164928 CATTTTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (27 bp):
AATATAAGTATATCTTTTTATCATTCA
Found at i:168194 original size:3 final size:3
Alignment explanation
Indices: 168180--168259 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
168170 TTTGTATCTG
* * * *
168180 TAA TAA -AA TAA TAA TAA TAA TAT TAT TAT TAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
168227 TAA TAG TAA TAA TAA TAA -AA -AA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
168260 AAAAAAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 8 0.12
3 60 0.88
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:168253 original size:15 final size:15
Alignment explanation
Indices: 168235--168263 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
168225 AATAATAGTA
168235 ATAATAATAAAAAAT
1 ATAATAATAAAAAAT
168250 ATAATAATAAAAAA
1 ATAATAATAAAAAA
168264 AAACCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAATAATAAAAAAT
Found at i:168264 original size:18 final size:19
Alignment explanation
Indices: 168210--168266 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
168200 TATTATTATT
* *
168210 AATACTAATAAT-AATAAT
1 AATACTAATAATAAAAAAA
* *
168228 AATAGTAATAATAATAAAA
1 AATACTAATAATAAAAAAA
168247 AATA-TAATAATAAAAAAA
1 AATACTAATAATAAAAAAA
168265 AA
1 AA
168267 CCAAATGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 26 0.79
19 7 0.21
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AATACTAATAATAAAAAAA
Found at i:168734 original size:110 final size:117
Alignment explanation
Indices: 168608--169101 Score: 525
Period size: 123 Copynumber: 4.2 Consensus size: 117
168598 TTAAGGCAAT
*
168608 GTTGAACAAATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
*
168673 C-TT-TCTGGAAAAGTTGAT-C-C-A-T-CGAATGATGAATTCAAACAAAAA
66 CTTTCTCTGGAAAAGTTGATACTCTACTCCGAGTGATGAATTCAAACAAAAA
*
168718 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
** * *
168783 CTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAGTT-AAACAAAAG
66 CTTTCTCTGGAAAAGTTGATAC---TCTA-CTCC--GAGTGAT-GAATTCAAACAAAAA
* * *
168841 GTTAAATAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* ** * ** *
168906 CTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGAT-AGAGTCATGCAAAAG
66 CTTTCTCTGGAAAAGTTGATAC---TCTA-CTCC--GAGTGATGA-ATTCAAACAAAAA
** * *
168964 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTACTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* * *
169029 C-TT-TCTGGAAAAGTTG--A-TCTA-T-CGAGTGATGAATTCGAGCATAAA
66 CTTTCTCTGGAAAAGTTGATACTCTACTCCGAGTGATGAATTCAAACAAAAA
*
169074 GTTGAACAAGTTCTTCTCATTATGAACT
1 GTTGAACAAATTCTTCTCATTATGAACT
169102 CGCCCTGGCA
Statistics
Matches: 337, Mismatches: 30, Indels: 34
0.84 0.07 0.08
Matches are distributed among these distances:
110 104 0.31
111 3 0.01
112 16 0.05
113 2 0.01
115 4 0.01
117 1 0.00
118 1 0.00
120 1 0.00
121 15 0.04
122 3 0.01
123 183 0.54
124 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (117 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
CTTTCTCTGGAAAAGTTGATACTCTACTCCGAGTGATGAATTCAAACAAAAA
Found at i:168872 original size:123 final size:123
Alignment explanation
Indices: 168707--169046 Score: 558
Period size: 123 Copynumber: 2.8 Consensus size: 123
168697 AATGATGAAT
* * *
168707 TCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTT
1 TCAAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
168772 CTCATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAG
66 CTCATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAG
* * *
168830 TTAAACAAAAGGTTAAATAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
1 TCAAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
*
168895 CTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAG
66 CTCATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAG
** * * *
168953 TCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTACTT
1 TCAAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
169018 CTCATTATGAAC-TT-TCTGGAAAAGTTGAT
66 CTCATTATGAACTTTCTCTGGAAAAGTTGAT
169047 CTATCGAGTG
Statistics
Matches: 202, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
121 15 0.07
122 2 0.01
123 185 0.92
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (123 bp):
TCAAACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
CTCATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAG
Found at i:169094 original size:71 final size:71
Alignment explanation
Indices: 169010--169176 Score: 219
Period size: 73 Copynumber: 2.3 Consensus size: 71
169000 CTTTTCAGAT
* * * * * *
169010 AAGTACTTCTCATTATGAACTTTCTGGAAAAGTTGATCTATCGAGTGATGAATTCGAGC-ATAAA
1 AAGTTCTTCTCATTATGAACTTCCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCGA-AAA
169074 GTTGAAC
65 GTTGAAC
* * *
169081 AAGTTCTTCTCATTATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAA
1 AAGTTCTTCTCATTATGAACT--TCCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCGAAA
169146 AGTTGAAC
64 AGTTGAAC
169154 AAGTTCTTCTCATTATGAACTTC
1 AAGTTCTTCTCATTATGAACTTC
169177 TTCTTCCTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 21 0.25
73 61 0.73
74 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (71 bp):
AAGTTCTTCTCATTATGAACTTCCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCGAAAAG
TTGAAC
Found at i:169528 original size:113 final size:113
Alignment explanation
Indices: 169330--169809 Score: 861
Period size: 113 Copynumber: 4.2 Consensus size: 113
169320 AACTGGCACT
* * * * *
169330 GCTGATCCACCGAGTGATGAATTTGAGCAAAAGATTGAACAAATTATTCTCATTATGAATTTCTT
1 GCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
169395 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
66 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
*
169443 GCTGATTCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
1 GCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
*
169508 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTAGAAAA
66 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
*
169556 GCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT
1 GCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
*
169621 CTTCCTTCTTCAGATGAGTTCTTCTCATTATAAACTTTTTCTGGAAAA
66 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
*
169669 GCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT
1 GCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
169734 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAA
66 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTTTCTGGAAAA
169783 GCTGATCCATCAAATGATGGATTTGAG
1 GCTGATCCATCAAATGATGGATTTGAG
169810 TCTTTGCTAA
Statistics
Matches: 354, Mismatches: 12, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
113 314 0.89
114 40 0.11
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (113 bp):
GCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTT
CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
Found at i:170441 original size:50 final size:50
Alignment explanation
Indices: 170378--170479 Score: 145
Period size: 50 Copynumber: 2.0 Consensus size: 50
170368 TCACTGGTTC
* *
170378 GTAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-TCGAGAT
1 GTAAAACACTTGACAATACATTCATCCTTTT-CTGTGGCTTCTGCTC-AGAT
*
170428 GTAAAACACTTGACAATACCTTCATCCTTTTCTGTGGCTTCTGCTCAGAT
1 GTAAAACACTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
170478 GT
1 GT
170480 TCGTAAAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
50 40 0.85
51 7 0.15
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (50 bp):
GTAAAACACTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
Found at i:174980 original size:11 final size:11
Alignment explanation
Indices: 174964--174989 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
174954 CAATTTTCCT
174964 TTTTCTTTTTC
1 TTTTCTTTTTC
174975 TTTTCTTTTTC
1 TTTTCTTTTTC
174986 TTTT
1 TTTT
174990 TTCCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:174984 original size:17 final size:17
Alignment explanation
Indices: 174957--175017 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
174947 CTTAATTCAA
174957 TTTTCCTTTTTCTTTTTC
1 TTTT-CTTTTTCTTTTTC
174975 TTTTCTTTTTCTTTTT-
1 TTTTCTTTTTCTTTTTC
**
174991 TCCTCTTTTTTCTTTTTTC
1 TTTTC-TTTTTC-TTTTTC
*
175010 CTTTCTTT
1 TTTTCTTT
175018 GCTGGATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 12 0.34
19 2 0.06
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTC
Found at i:175007 original size:6 final size:6
Alignment explanation
Indices: 174957--174990 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
174947 CTTAATTCAA
*
174957 TTTTCC TTTTTC TTTTTC -TTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
174991 TCCTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:175034 original size:26 final size:27
Alignment explanation
Indices: 174997--175050 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
174987 TTTTTCCTCT
174997 TTTTTCTTTTTTCCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCCTTTCTTTGCTGGA
175024 TTTTTCTTTTTT-CTTTCTTTGCTGGA
1 TTTTTCTTTTTTCCTTTCTTTGCTGGA
175050 T
1 T
175051 GAGTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.04, C:0.17, G:0.11, T:0.69
Consensus pattern (27 bp):
TTTTTCTTTTTTCCTTTCTTTGCTGGA
Found at i:178315 original size:20 final size:20
Alignment explanation
Indices: 178287--178325 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
178277 GAATGTAATA
*
178287 ATAAGAATACAAAAGCAAAC
1 ATAAAAATACAAAAGCAAAC
*
178307 ATAAAAATACAAATGCAAA
1 ATAAAAATACAAAAGCAAA
178326 GATGCCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.13, G:0.08, T:0.13
Consensus pattern (20 bp):
ATAAAAATACAAAAGCAAAC
Found at i:178534 original size:28 final size:26
Alignment explanation
Indices: 178487--178538 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
178477 GATGTAAATT
*
178487 TAAAAATGTAAATGTAAATACAAACG
1 TAAAAATGTAAATGCAAATACAAACG
178513 TAAAAATGTACAAATGCAAATACAAA
1 TAAAAATGT--AAATGCAAATACAAA
178539 TGCATGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (26 bp):
TAAAAATGTAAATGCAAATACAAACG
Found at i:182137 original size:3 final size:3
Alignment explanation
Indices: 182123--182208 Score: 99
Period size: 3 Copynumber: 30.0 Consensus size: 3
182113 TTTGTATCTG
* * * *
182123 TAA TAA -AA TAA TAA TAA TAG TAA TAA TAT TAT TAA TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
182170 TAA TAG TAA TAA TAA TAA TAA TAA -AA -AA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
182209 AAAAAGACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 8 0.11
3 64 0.89
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:182202 original size:15 final size:15
Alignment explanation
Indices: 182184--182212 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
182174 AGTAATAATA
182184 ATAATAATAAAAAAT
1 ATAATAATAAAAAAT
182199 ATAATAATAAAAAA
1 ATAATAATAAAAAA
182213 AGACCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAATAATAAAAAAT
Found at i:183323 original size:36 final size:36
Alignment explanation
Indices: 183282--183382 Score: 166
Period size: 36 Copynumber: 2.8 Consensus size: 36
183272 AAGAAGCTCG
* * * *
183282 TTTATGAGTTCATATATGAGCTCGTTTATGAGTTCA
1 TTTATGAGCTCGTTTATTAGCTCGTTTATGAGTTCA
183318 TTTATGAGCTCGTTTATTAGCTCGTTTATGAGTTCA
1 TTTATGAGCTCGTTTATTAGCTCGTTTATGAGTTCA
183354 TTTATGAGCTCGTTTATTAGCTCGTTTAT
1 TTTATGAGCTCGTTTATTAGCTCGTTTAT
183383 CAACTCGATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.48
Consensus pattern (36 bp):
TTTATGAGCTCGTTTATTAGCTCGTTTATGAGTTCA
Found at i:183369 original size:12 final size:12
Alignment explanation
Indices: 183276--183382 Score: 133
Period size: 12 Copynumber: 8.9 Consensus size: 12
183266 TTCACGAAGA
183276 AGCTCGTTTATG
1 AGCTCGTTTATG
* * *
183288 AGTTCATATATG
1 AGCTCGTTTATG
183300 AGCTCGTTTATG
1 AGCTCGTTTATG
* *
183312 AGTTCATTTATG
1 AGCTCGTTTATG
*
183324 AGCTCGTTTATT
1 AGCTCGTTTATG
183336 AGCTCGTTTATG
1 AGCTCGTTTATG
* *
183348 AGTTCATTTATG
1 AGCTCGTTTATG
*
183360 AGCTCGTTTATT
1 AGCTCGTTTATG
183372 AGCTCGTTTAT
1 AGCTCGTTTAT
183383 CAACTCGATC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 78 1.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.46
Consensus pattern (12 bp):
AGCTCGTTTATG
Found at i:184050 original size:14 final size:17
Alignment explanation
Indices: 184008--184052 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
183998 ATTTAATTAA
184008 AAAAATATTATTTAGAG
1 AAAAATATTATTTAGAG
184025 AAAAATATTATTTAGAG
1 AAAAATATTATTTAGAG
184042 AAAAATATTAT
1 AAAAATATTAT
184053 AACAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAATATTATTTAGAG
Found at i:187883 original size:14 final size:14
Alignment explanation
Indices: 187859--187892 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
187849 CTCAAAGGCT
*
187859 TCGGCCGGCCTATTG
1 TCGG-CGGCCTATTA
187874 TCGGCGGCCTATTA
1 TCGGCGGCCTATTA
187888 TCGGC
1 TCGGC
187893 CGCCCCGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.09, C:0.32, G:0.32, T:0.26
Consensus pattern (14 bp):
TCGGCGGCCTATTA
Done.