Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold417
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: 511691
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
File 2 of 6
Found at i:95985 original size:13 final size:13
Alignment explanation
Indices: 95967--96011 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
95957 CTAGACACGA
95967 TTAATATGATTAT
1 TTAATATGATTAT
* *
95980 TTAATA-GACATAA
1 TTAATATGA-TTAT
95993 TTAATATGATTAT
1 TTAATATGATTAT
96006 TTAATA
1 TTAATA
96012 CAGATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (13 bp):
TTAATATGATTAT
Found at i:95988 original size:26 final size:26
Alignment explanation
Indices: 95958--96011 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
95948 AAGTACAAAC
*
95958 TAGACACGATTAATATGATTATTTAA
1 TAGACACAATTAATATGATTATTTAA
*
95984 TAGACATAATTAATATGATTATTTAA
1 TAGACACAATTAATATGATTATTTAA
96010 TA
1 TA
96012 CAGATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (26 bp):
TAGACACAATTAATATGATTATTTAA
Found at i:96982 original size:24 final size:24
Alignment explanation
Indices: 96933--96982 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
96923 CTTTAAGATT
* *
96933 TATTTCGATGTTTAAATCAATAAA
1 TATTTCGATATTTAAATCAAGAAA
*
96957 TATTTTGATATTTAAAT-AAGAGAA
1 TATTTCGATATTTAAATCAAGA-AA
96981 TA
1 TA
96983 ATGATCGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (24 bp):
TATTTCGATATTTAAATCAAGAAA
Found at i:97170 original size:25 final size:25
Alignment explanation
Indices: 97136--97190 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
97126 TCCAAGTAGC
97136 CATTAGATATAATAATT-CAATTAGT
1 CATTAGATATAATAATTACAATTA-T
*
97161 CATTAGATATAATAATTATAATTAT
1 CATTAGATATAATAATTACAATTAT
97186 CATTA
1 CATTA
97191 TTAAGTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (25 bp):
CATTAGATATAATAATTACAATTAT
Found at i:97962 original size:14 final size:14
Alignment explanation
Indices: 97943--97969 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97933 TTTAAAGATT
97943 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
97957 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
97970 GGAAATGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:98117 original size:5 final size:5
Alignment explanation
Indices: 98098--98152 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
98088 ATATTATTAT
* * * *
98098 TATAT TATAA GTATAA TATAA -AAAA TATAA TATAA TATAA TACAA TATGA
1 TATAA TATAA -TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
98148 TATAA
1 TATAA
98153 AAAATAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
4 3 0.07
5 33 0.80
6 5 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (5 bp):
TATAA
Found at i:98144 original size:20 final size:19
Alignment explanation
Indices: 98103--98152 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
98093 ATTATTATAT
98103 TATAAGTATAATATAAAAAA
1 TATAA-TATAATATAAAAAA
*
98123 TATAATATAATATAATACAA
1 TATAATATAATATAA-AAAA
*
98143 TATGATATAA
1 TATAATATAA
98153 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
TATAATATAATATAAAAAA
Found at i:98547 original size:3 final size:3
Alignment explanation
Indices: 98534--98566 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
98524 CTTTTGTTTA
98534 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
98567 ATATAGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:108010 original size:2 final size:2
Alignment explanation
Indices: 108003--108035 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
107993 CTCATGATAG
108003 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
108036 CCCTGAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:110031 original size:102 final size:102
Alignment explanation
Indices: 109872--110074 Score: 318
Period size: 102 Copynumber: 2.0 Consensus size: 102
109862 AATTTTGAGT
* * * *
109872 TAAAGTTAGGAAATAATACATATCAACTAGCTTAAACTTAAATCGCAACTATTTCACTAACTTTT
1 TAAAGTTAGGAAACAATACAAATCAACTACCTTAAACTTAAATCGCAACTATGTCACTAACTTTT
109937 AGCTTAAAAAAACTGCAACTTTTAACGAATTTTGCAC
66 AGCTTAAAAAAACTGCAACTTTTAACGAATTTTGCAC
* *
109974 TAAATTTAGGAAACAATACAAATCAACTACCTTAAACTTAAATCGTAAC-ACTGTCACTAACTTT
1 TAAAGTTAGGAAACAATACAAATCAACTACCTTAAACTTAAATCGCAACTA-TGTCACTAACTTT
* *
110038 TAGCTTAAAAAAATTGCAACTTTTAATGAATTTTGCA
65 TAGCTTAAAAAAACTGCAACTTTTAACGAATTTTGCA
110075 ACCTGGAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 1 0.01
102 91 0.99
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (102 bp):
TAAAGTTAGGAAACAATACAAATCAACTACCTTAAACTTAAATCGCAACTATGTCACTAACTTTT
AGCTTAAAAAAACTGCAACTTTTAACGAATTTTGCAC
Found at i:112650 original size:241 final size:238
Alignment explanation
Indices: 112219--112810 Score: 661
Period size: 241 Copynumber: 2.5 Consensus size: 238
112209 TACATTATGC
* * * * *
112219 TAAAAGTTTAGAATACTTAACTGGCCTTCAATGGGGACAAATGTGGTAGCAAGGACAAAAGGGAG
1 TAAAAGTTTAGAATACTCAAGTGGCCCTCAATGGGGAC-AATGTGGTAGCAATGACCAAAGGGAG
* * * * * ** *
112284 ATGACAGGCTTGTTTTCTACAAATGTTTGCGGTGATTGGACAAAAAAATAGAGGGTAAAAACTGC
65 TTGACAAGCTTGTATTCTACAAATGTTTGTGGTGATTGGAC---AAAATAAAGGACAAAAACTAC
* * ** *
112349 ATTCACAATGTAATCTAACAAGTCTAGGGTTCAAATCCAATATCTGCAATCCCTTTTA-TTTCTA
127 ATACACAATGTAATCCAACAAGTCTAGGGTTCAAATCCAATATCCACAATCCCCTTTATTTTC-A
* * * *
112413 GACTGTGACCTCCTTTGTAGCAAAAATAAAAA-TTAGGACGCATGAGGT
191 GACTATGACCTCCCTTGTA-AAAAAAAAAAAACTTAGGACGCATGAGGT
* * * *
112461 TAAAAGTTTAGAATACTCCAGTAGCCCTCAATGGGGACAATTGTGGTTGCAATGACCAAA-GCAG
1 TAAAAGTTTAGAATACTCAAGTGGCCCTCAATGGGGACAA-TGTGGTAGCAATGACCAAAGGGAG
*
112525 TTGACAAGCTTGTATACTACAAATGTTTGTGGTGATTGGACAAAATAAAGGACAAAAACTACATA
65 TTGACAAGCTTGTATTCTACAAATGTTTGTGGTGATTGGACAAAATAAAGGACAAAAACTACATA
* * * * * *
112590 CACAATGTTATCCAAGAGGTCTGGGGTTCTAGTCCAATATCCACAATCACTTCCTTTATTTTCAG
130 CACAATGTAATCCAACAAGTCTAGGGTTCAAATCCAATATCCACAATC-C--CCTTTATTTTCAG
* * *
112655 ACTATGACCTCCCTTGTAAAAAAAAAAAAACTTATGATGCATGATGT
192 ACTATGACCTCCCTTGTAAAAAAAAAAAAACTTAGGACGCATGAGGT
* * ** * *
112702 TAAGAGTTTAGATTACTCAAGTGGCCCTTGATGGGGGGCAATGTGGTAGCAATGA-CAAAGGGAA
1 TAAAAGTTTAGAATACTCAAGTGGCCCTCAAT-GGGGACAATGTGGTAGCAATGACCAAAGGGAG
* *
112766 TTGACAAGCTGGTATTCTACAAATGTTTGTGGTGATTGAACAAAA
65 TTGACAAGCTTGTATTCTACAAATGTTTGTGGTGATTGGACAAAA
112811 ACTGCATTTC
Statistics
Matches: 293, Mismatches: 49, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
238 58 0.20
239 1 0.00
240 14 0.05
241 160 0.55
242 60 0.20
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (238 bp):
TAAAAGTTTAGAATACTCAAGTGGCCCTCAATGGGGACAATGTGGTAGCAATGACCAAAGGGAGT
TGACAAGCTTGTATTCTACAAATGTTTGTGGTGATTGGACAAAATAAAGGACAAAAACTACATAC
ACAATGTAATCCAACAAGTCTAGGGTTCAAATCCAATATCCACAATCCCCTTTATTTTCAGACTA
TGACCTCCCTTGTAAAAAAAAAAAAACTTAGGACGCATGAGGT
Found at i:115642 original size:16 final size:17
Alignment explanation
Indices: 115614--115649 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
115604 AAAATGAATT
115614 ATTTAATTTTTAAATAA
1 ATTTAATTTTTAAATAA
*
115631 ATTTAA-TTTTAAATTA
1 ATTTAATTTTTAAATAA
115647 ATT
1 ATT
115650 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATTTTTAAATAA
Found at i:116220 original size:21 final size:22
Alignment explanation
Indices: 116186--116243 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
116176 TTAATTAAAA
**
116186 TAATATATTTTTATTTAAAT-T
1 TAATATAAATTTATTTAAATAT
*
116207 TAATTATAAA-TTA-TAAAATAT
1 TAA-TATAAATTTATTTAAATAT
116228 TAATATAAATTTATTT
1 TAATATAAATTTATTT
116244 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 11 0.38
21 13 0.45
22 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATATAAATTTATTTAAATAT
Found at i:116948 original size:21 final size:21
Alignment explanation
Indices: 116912--116974 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
116902 TATGTATTTT
*
116912 ATAATTAAAATTAAATAAATA
1 ATAATTTAAATTAAATAAATA
*
116933 TATTATTTAAA-TAAATAAATA
1 -ATAATTTAAATTAAATAAATA
116954 ATAATTTAAATTAAATCAAAT
1 ATAATTTAAATTAAAT-AAAT
116975 TAATTCGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 9 0.25
21 15 0.42
22 12 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATTTAAATTAAATAAATA
Found at i:117758 original size:16 final size:16
Alignment explanation
Indices: 117737--117776 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
117727 TACGATATAA
*
117737 AAATATAATATTTAAT
1 AAATATAAAATTTAAT
*
117753 AAATATAAAATTTAGT
1 AAATATAAAATTTAAT
117769 ATAATATA
1 A-AATATA
117777 TTTGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATATAAAATTTAAT
Found at i:119153 original size:26 final size:27
Alignment explanation
Indices: 119105--119156 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
119095 TAATGAGATA
*
119105 TTTTTATTATATTAATTGAATATATTAT
1 TTTTTATTATATTAAAT-AATATATTAT
*
119133 TTTTTATTATTTTAAAT-ATATATT
1 TTTTTATTATATTAAATAATATATT
119157 TAAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
28 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTATTATATTAAATAATATATTAT
Found at i:119302 original size:10 final size:10
Alignment explanation
Indices: 119272--119306 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
119262 TAAACAAAAT
119272 AAATTATATA
1 AAATTATATA
*
119282 AAAAT-TATA
1 AAATTATATA
119291 AAATTATATA
1 AAATTATATA
119301 AAATTA
1 AAATTA
119307 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATTATATA
Found at i:119770 original size:19 final size:18
Alignment explanation
Indices: 119742--119782 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
119732 GAAATTATAA
*
119742 AATTATAATTTAATAATTT
1 AATTAAAATTTAATAA-TT
*
119761 AATTAAAATTTTATAATT
1 AATTAAAATTTAATAATT
119779 AATT
1 AATT
119783 GTTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAAAATTTAATAATT
Found at i:120883 original size:15 final size:15
Alignment explanation
Indices: 120863--120895 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
120853 TATTTTTAAA
120863 TAAAA-TATAAATGTT
1 TAAAATTATAAAT-TT
120878 TAAAATTATAAATTT
1 TAAAATTATAAATTT
120893 TAA
1 TAA
120896 TATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TAAAATTATAAATTT
Found at i:121377 original size:32 final size:31
Alignment explanation
Indices: 121339--121399 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 31
121329 ATATACGAAC
121339 ATATTAAAATTTATATTAAATA-AATTATAAAA
1 ATATTAAAATTTATA-TAAATATAA-TATAAAA
121371 ATATTAAAATTTATATAAATATAATATAA
1 ATATTAAAATTTATATAAATATAATATAA
121400 TTATGATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATTAAAATTTATATAAATATAATATAAAA
Found at i:121387 original size:20 final size:22
Alignment explanation
Indices: 121364--121412 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
121354 TTAAATAAAT
*
121364 TATAAAAATATTAAAATT-T-A
1 TATAAAAATAATAAAATTATGA
* *
121384 TATAAATATAATATAATTATGA
1 TATAAAAATAATAAAATTATGA
121406 TATAAAA
1 TATAAAA
121413 TGACATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 15 0.65
21 1 0.04
22 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TATAAAAATAATAAAATTATGA
Found at i:121766 original size:10 final size:9
Alignment explanation
Indices: 121739--121873 Score: 76
Period size: 8 Copynumber: 15.6 Consensus size: 9
121729 TAAAATTTTA
121739 ATATTAT-T
1 ATATTATAT
121747 ATATT-T-T
1 ATATTATAT
121754 ATATTATAAT
1 ATATTAT-AT
121764 ATATTATAT
1 ATATTATAT
121773 AT-TTATAT
1 ATATTATAT
* *
121781 AAATTTTAAT
1 ATATTAT-AT
121791 ATATTA-AT
1 ATATTATAT
121799 A-A-T-T-T
1 ATATTATAT
121804 ATATTATAT
1 ATATTATAT
* *
121813 AAATTTTGAT
1 ATATTAT-AT
121823 ATATT-TAT
1 ATATTATAT
*
121831 ATATT-TTT
1 ATATTATAT
* *
121839 ATTTTATTT
1 ATATTATAT
121848 ATATTATTTAT
1 ATATTA--TAT
121859 ATATTATAAT
1 ATATTAT-AT
121869 ATATT
1 ATATT
121874 TTAATTATTT
Statistics
Matches: 101, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 9 0.09
8 30 0.30
9 23 0.23
10 27 0.27
11 8 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
ATATTATAT
Found at i:121788 original size:50 final size:51
Alignment explanation
Indices: 121726--121873 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 51
121716 TTAATTTTTA
121726 ATATAAAATTTTAATATTATTATATTTTATATTATAATATATT-ATATATTT
1 ATAT-AAATTTTAATATTATTATATTTTATATTATAATATATTGATATATTT
* * *
121777 ATATAAATTTTAATA-TATTAATAATTTATATTATATAAATTTTGATATATTT
1 ATATAAATTTTAATATTATT-ATATTTTATATTATA-ATATATTGATATATTT
* *
121829 ATAT--ATTTTTATTTTATTTATATTATTTATATATTATAATATATT
1 ATATAAATTTTAATATTA--T-TA-TATTT-TATATTATAATATATT
121874 TTAATTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
49 4 0.05
50 32 0.40
51 11 0.14
52 12 0.15
53 2 0.03
54 10 0.12
55 9 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (51 bp):
ATATAAATTTTAATATTATTATATTTTATATTATAATATATTGATATATTT
Found at i:121816 original size:32 final size:32
Alignment explanation
Indices: 121739--121841 Score: 113
Period size: 32 Copynumber: 3.2 Consensus size: 32
121729 TAAAATTTTA
*
121739 ATATTAT-TATATTTTATAT-TATAATATATTAT
1 ATATTATATAAATTTTATATAT-TAATATATT-T
121771 ATATTTATATAAATTTTAATATATTAATA-ATTT
1 ATA-TTATATAAATTTT-ATATATTAATATATTT
*
121804 ATATTATATAAATTTTGATATATTTATATATTT
1 ATATTATATAAATTTT-ATATATTAATATATTT
*
121837 TTATT
1 ATATT
121842 TTATTTATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
32 26 0.42
33 16 0.26
34 10 0.16
35 9 0.15
36 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
ATATTATATAAATTTTATATATTAATATATTT
Found at i:121838 original size:19 final size:18
Alignment explanation
Indices: 121767--121875 Score: 75
Period size: 18 Copynumber: 6.1 Consensus size: 18
121757 TTATAATATA
*
121767 TTATATATTTATATAAATT
1 TTATATATTTATAT-ATTT
*
121786 TTA-ATATATTA-ATA-AT
1 TTATATAT-TTATATATTT
* *
121802 TTATAT-TATATAAATTT
1 TTATATATTTATATATTT
*
121819 TGATATATTTATATATTT
1 TTATATATTTATATATTT
* *
121837 TTATTTTATTTATAT-TAT
1 TTA-TATATTTATATATTT
121855 TTATATATTATAATATATTT
1 TTATATATT-T-ATATATTT
121875 T
1 T
121876 AATTATTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
15 2 0.03
16 7 0.10
17 14 0.20
18 23 0.33
19 20 0.29
20 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (18 bp):
TTATATATTTATATATTT
Found at i:121873 original size:27 final size:27
Alignment explanation
Indices: 121748--121883 Score: 103
Period size: 27 Copynumber: 5.2 Consensus size: 27
121738 AATATTATTA
121748 TATTT-TATATTATAATATA-TTATA-
1 TATTTATATATTATAATATATTTATAT
*
121772 TATTTATATAAATTTTAATATA-TTA-AT
1 TATTTATAT--ATTATAATATATTTATAT
*
121799 AATTTATAT-TATATAA-AT-TTTGATA-
1 TATTTATATAT-TATAATATATTT-ATAT
* * *
121824 TATTTATATATTTTTATTTTATTTATAT
1 TATTTATATA-TTATAATATATTTATAT
121852 TATTTATATATTATAATATATTT-TAAT
1 TATTTATATATTATAATATATTTAT-AT
121879 TATTT
1 TATTT
121884 TTTAAATTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
24 10 0.11
25 16 0.18
26 6 0.07
27 43 0.49
28 13 0.15
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TATTTATATATTATAATATATTTATAT
Found at i:121878 original size:10 final size:10
Alignment explanation
Indices: 121753--121884 Score: 52
Period size: 10 Copynumber: 13.8 Consensus size: 10
121743 TATTATATTT
*
121753 TATATTATAA
1 TATATTTTAA
121763 TATA--TT-A
1 TATATTTTAA
121770 TATA-TTTATA
1 TATATTTTA-A
*
121780 TAAATTTTAA
1 TATATTTTAA
*
121790 TATATTAATAA
1 TATATT-TTAA
* *
121801 TTTATATTATA
1 TATATTTTA-A
* *
121812 TAAATTTTGA
1 TATATTTTAA
121822 TATA-TTT-A
1 TATATTTTAA
121830 TATA-TTT--
1 TATATTTTAA
*
121837 T-TATTTTATT
1 TATATTTTA-A
*
121847 TATATTATTTA
1 TATATT-TTAA
*
121858 TATATTATAA
1 TATATTTTAA
121868 TATATTTTAA
1 TATATTTTAA
121878 T-TATTTT
1 TATATTTT
121885 TTAAATTAAG
Statistics
Matches: 93, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
6 2 0.02
7 9 0.10
8 11 0.12
9 9 0.10
10 33 0.35
11 27 0.29
12 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (10 bp):
TATATTTTAA
Found at i:122147 original size:4 final size:4
Alignment explanation
Indices: 122138--122188 Score: 59
Period size: 4 Copynumber: 12.2 Consensus size: 4
122128 TTAAGTATAA
*
122138 ATTT ATTT ATTT ATTT ATTTT ATTT ATTTT AAATT ATTT -TTT ATTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT ATTT A-TTT -ATTT ATTT ATTT ATTT ATTT
122188 A
1 A
122189 AATTAATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 3 0.07
4 28 0.68
5 9 0.22
6 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:122188 original size:20 final size:20
Alignment explanation
Indices: 122139--122211 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
122129 TAAGTATAAA
122139 TTTATTTATTT--ATT-TAT
1 TTTATTTATTTAAATTATAT
*
122156 TTTATTTATTTTAAATTATTT
1 TTTATTTA-TTTAAATTATAT
122177 TTTATTTATTTAAATTA-AT
1 TTTATTTATTTAAATTATAT
*
122196 TTGATTTGATTTAAAT
1 TTTATTT-ATTTAAAT
122212 AGATATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
17 8 0.17
18 3 0.06
19 7 0.15
20 20 0.42
21 10 0.21
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTAAATTATAT
Found at i:122197 original size:21 final size:21
Alignment explanation
Indices: 122138--122197 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
122128 TTAAGTATAA
* *
122138 ATTTATTT-ATTTATTTATTTT
1 ATTTATTTAAATTAATT-TTTT
122159 ATTTATTTTAAATT-ATTTTTT
1 ATTTA-TTTAAATTAATTTTTT
122180 ATTTATTTAAATTAATTT
1 ATTTATTTAAATTAATTT
122198 GATTTGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.24
21 18 0.53
22 5 0.15
23 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTATTTAAATTAATTTTTT
Found at i:122275 original size:14 final size:14
Alignment explanation
Indices: 122256--122283 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
122246 TTAATTATAA
122256 AATATAAAAATATT
1 AATATAAAAATATT
122270 AATATAAAAATATT
1 AATATAAAAATATT
122284 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:122513 original size:14 final size:14
Alignment explanation
Indices: 122496--122522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
122486 AAAAATAATT
122496 ATTAAAGATATTAG
1 ATTAAAGATATTAG
122510 ATTAAAGATATTA
1 ATTAAAGATATTA
122523 AATAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATTAAAGATATTAG
Found at i:122591 original size:28 final size:27
Alignment explanation
Indices: 122560--122647 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 27
122550 TATGATGGAT
*
122560 AATACTTAAAAATTATATTTACATTTAA
1 AATA-TTAAAAATTATATTTAAATTTAA
**
122588 AATATTAAAAA-TATATTTTTATTTAAA
1 AATATTAAAAATTATATTTAAATTT-AA
* *
122615 TAATATTTAAAATTATTATTTAAATTAAA
1 -AATATTAAAAATTA-TATTTAAATTTAA
122644 AATA
1 AATA
122648 AATTAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 11 0.22
27 9 0.18
28 18 0.36
29 4 0.08
30 8 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AATATTAAAAATTATATTTAAATTTAA
Found at i:122649 original size:24 final size:24
Alignment explanation
Indices: 122591--122649 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
122581 CATTTAAAAT
* *
122591 ATTAAAAAT-ATATTTTTATTTAA
1 ATTAAAAATAAAATTATTATTTAA
**
122614 A-TAATATTTAAAATTATTATTTAA
1 ATTAA-AAATAAAATTATTATTTAA
122638 ATTAAAAATAAA
1 ATTAAAAATAAA
122650 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
22 3 0.11
23 3 0.11
24 18 0.67
25 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAAAAATAAAATTATTATTTAA
Found at i:122956 original size:34 final size:32
Alignment explanation
Indices: 122918--122982 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
122908 AAAATATTTT
*
122918 TATTAAATTTAAT-TATAAAATATATAAATATAAA
1 TATTAAA-ATAATATATAAAATAT-TAAA-ATAAA
*
122952 TATTAAAATAATATTTAAAATATTAAAATAA
1 TATTAAAATAATATATAAAATATTAAAATAA
122983 CAATAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
33 8 0.29
34 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
TATTAAAATAATATATAAAATATTAAAATAAA
Found at i:123202 original size:20 final size:20
Alignment explanation
Indices: 123179--123221 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
123169 TTATATTGAT
*
123179 ATTT-ATATATTTATTATTAA
1 ATTTAATATATTT-TTAATAA
123199 ATTTAAATATATTTTTAATAA
1 ATTT-AATATATTTTTAATAA
123220 AT
1 AT
123222 AATAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAATATATTTTTAATAA
Found at i:123313 original size:25 final size:24
Alignment explanation
Indices: 123271--123320 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 24
123261 ATTATATTTA
123271 AATTTAATATAAACTAAATTTATT
1 AATTTAATATAAACTAAATTTATT
123295 AATTTAATTCATAAA-TAAATTTATT
1 AATTTAA-T-ATAAACTAAATTTATT
123320 A
1 A
123321 TAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.29
25 12 0.50
26 5 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTAATATAAACTAAATTTATT
Found at i:123317 original size:17 final size:18
Alignment explanation
Indices: 123295--123335 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
123285 TAAATTTATT
123295 AATTTAATTCAT-AA-ATA
1 AATTTAATT-ATAAAGATA
123312 AATTT-ATTATAAAGATA
1 AATTTAATTATAAAGATA
123329 AATTTAA
1 AATTTAA
123336 GCTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 5 0.24
17 13 0.62
18 1 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTTAATTATAAAGATA
Found at i:123646 original size:21 final size:21
Alignment explanation
Indices: 123620--123665 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
123610 TTTATTTATT
**
123620 TTAATTTGTTTAAATTAAAAA
1 TTAATTTAATTAAATTAAAAA
* *
123641 TTAATTTAATTAAATTTAATA
1 TTAATTTAATTAAATTAAAAA
123662 TTAA
1 TTAA
123666 AATTGATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTTAATTAAATTAAAAA
Found at i:123668 original size:27 final size:26
Alignment explanation
Indices: 123628--123690 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
123618 TTTTAATTTG
*
123628 TTTAA-ATTAAAAATTAATTTAATTAAA
1 TTTAATATT-AAAATTAATTGAA-TAAA
* *
123655 TTTAATATTAAAATTGATTGAATAGA
1 TTTAATATTAAAATTAATTGAATAAA
123681 -TTAATATTAA
1 TTTAATATTAA
123691 TTTTTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 10 0.31
26 3 0.09
27 16 0.50
28 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (26 bp):
TTTAATATTAAAATTAATTGAATAAA
Found at i:123793 original size:30 final size:31
Alignment explanation
Indices: 123749--123815 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
123739 TATTTTTTTG
* *
123749 TTTTAAATATATTTATAT-TTTATTAAATATA
1 TTTTAAATATATTTAAATATTAATTAAAT-TA
*
123780 TTTTAAATA-ATTTAAATATTAATTTAATTA
1 TTTTAAATATATTTAAATATTAATTAAATTA
123810 TTTTAA
1 TTTTAA
123816 TTTATTCGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTAAATATATTTAAATATTAATTAAATTA
Found at i:123812 original size:20 final size:19
Alignment explanation
Indices: 123750--123812 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
123740 ATTTTTTTGT
*
123750 TTTAAATAT-ATTTATATTT
1 TTTAAATATAATTTA-ATTA
* *
123769 TATTAAATATATTTTAAATAA
1 T-TTAAATATAATTT-AATTA
123790 TTTAAATATTAATTTAATTA
1 TTTAAATA-TAATTTAATTA
123810 TTT
1 TTT
123813 TAATTTATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.03
20 22 0.63
21 11 0.31
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAATATAATTTAATTA
Found at i:124111 original size:9 final size:9
Alignment explanation
Indices: 124083--124147 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 9
124073 ATATATTTGG
*
124083 TAATTAATA
1 TAATTTATA
124092 TAATTT-T-
1 TAATTTATA
124099 TAATATTA-A
1 TAAT-TTATA
124108 TAATTTATA
1 TAATTTATA
124117 TAATTTTTATA
1 TAA--TTTATA
124128 TAA-TTATA
1 TAATTTATA
*
124136 T-ATTTTTA
1 TAATTTATA
124144 TAAT
1 TAAT
124148 ATTTATATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
7 5 0.11
8 17 0.37
9 15 0.33
11 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TAATTTATA
Found at i:124145 original size:27 final size:26
Alignment explanation
Indices: 124068--124155 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
124058 TATTAATATT
** *
124068 TTTTTATATATTTGGTAATTAATATAA
1 TTTTTATATA-TTAATAATTTATATAA
124095 TTTTTA-ATATTAATAATTTATATAA
1 TTTTTATATATTAATAATTTATATAA
*
124120 TTTTTATATAATT-ATATATTTTTATAA
1 TTTTTATAT-ATTAATA-ATTTATATAA
*
124147 TATTTATAT
1 TTTTTATAT
124156 TTTTGTGTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
25 19 0.36
26 8 0.15
27 26 0.49
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTTATATATTAATAATTTATATAA
Found at i:125100 original size:4 final size:4
Alignment explanation
Indices: 125091--125130 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
125081 CTCATTACTA
125091 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
125131 TCTTAATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:125450 original size:35 final size:35
Alignment explanation
Indices: 125403--125540 Score: 105
Period size: 35 Copynumber: 3.7 Consensus size: 35
125393 GATATGTGTG
* * *
125403 TATATATATATATAATATAATAAAAAATTATTAAAAA
1 TATATTTATAT-TAA-ATAATAAAAAATAAATAAAAA
* * *
125440 TATATTTATATTAAATAGTAAAATATAAATAAAAT
1 TATATTTATATTAAATAATAAAAAATAAATAAAAA
* *
125475 TATATTTATCTTGAATAATAATTAAAAAATAAAATATTAAAGT
1 TATATTTATATT--A-AATAA-TAAAAAAT-AAATA--AAA-A
*
125518 TGTATTTATATTAAATAATAAAA
1 TATATTTATATTAAATAATAAAA
125541 TAAATAGTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
35 27 0.33
36 3 0.04
37 11 0.13
38 4 0.05
39 12 0.15
40 10 0.12
41 1 0.01
42 3 0.04
43 11 0.13
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.40
Consensus pattern (35 bp):
TATATTTATATTAAATAATAAAAAATAAATAAAAA
Found at i:125575 original size:15 final size:16
Alignment explanation
Indices: 125557--125590 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
125547 GTAAAAACAA
125557 AAATA-TACTTATATT
1 AAATATTACTTATATT
*
125572 AAATATTATTTATATT
1 AAATATTACTTATATT
125588 AAA
1 AAA
125591 AAATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATTACTTATATT
Found at i:126792 original size:21 final size:23
Alignment explanation
Indices: 126759--126804 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
126749 TTTAAATTTA
126759 ATTTAATTATATTAT-ATTA-AT
1 ATTTAATTATATTATAATTATAT
* *
126780 ATTTTATTTTATTATAATTATAT
1 ATTTAATTATATTATAATTATAT
126803 AT
1 AT
126805 AAAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 4 0.19
23 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTAATTATATTATAATTATAT
Found at i:126849 original size:48 final size:47
Alignment explanation
Indices: 126765--126876 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 47
126755 TTTAATTTAA
* *
126765 TTATA-TTATATTAATATTTTATTTTATTATAATTAT-ATATAAAATAT
1 TTATATTTATATT-ATATTTTAATATATTATAATTATAATATAAAAT-T
126812 TTATATTTATATTA-ATTTTAATATATTAATAATTTATAAATATAAAATT
1 TTATATTTATATTATATTTTAATATATT-ATAA-TTAT-AATATAAAATT
*
126861 TTACATTATATATTAT
1 TTATATT-TATATTAT
126877 TTATAGAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
46 11 0.20
47 10 0.18
48 11 0.20
49 7 0.13
50 16 0.29
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (47 bp):
TTATATTTATATTATATTTTAATATATTATAATTATAATATAAAATT
Found at i:126996 original size:18 final size:18
Alignment explanation
Indices: 126975--127034 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
126965 ATTATATTTA
*
126975 AAATATTAATAATTATAT
1 AAATTTTAATAATTATAT
126993 AAATTTTAATATATTA-AT
1 AAATTTTAATA-ATTATAT
*
127011 -AA-TTT-ATATTTATAT
1 AAATTTTAATAATTATAT
127026 AAATTTTAA
1 AAATTTTAA
127035 ATATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 3 0.09
15 5 0.14
16 5 0.14
17 5 0.14
18 13 0.37
19 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTTAATAATTATAT
Found at i:127033 original size:17 final size:18
Alignment explanation
Indices: 126986--127051 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
126976 AATATTAATA
126986 ATTATATAAATTTTAATAT
1 ATTATATAAATTTT-ATAT
127005 ATTA-AT-AA-TTTATAT
1 ATTATATAAATTTTATAT
*
127020 -TTATATAAATTTTAAAT
1 ATTATATAAATTTTATAT
*
127037 ATTATTATTAATTTT
1 ATTA-TATAAATTTT
127052 CATGTCCGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.08
15 6 0.15
16 5 0.12
17 8 0.20
18 5 0.12
19 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATATAAATTTTATAT
Found at i:130305 original size:8 final size:8
Alignment explanation
Indices: 130270--130323 Score: 54
Period size: 9 Copynumber: 6.2 Consensus size: 8
130260 TAAAAAGTTG
130270 AAATATCAA
1 AAATAT-AA
*
130279 AAATATTTA
1 AAATA-TAA
*
130288 AATTATTAA
1 AAATA-TAA
130297 AAATATAA
1 AAATATAA
130305 AAATATAA
1 AAATATAA
130313 AAATAATAA
1 AAAT-ATAA
130322 AA
1 AA
130324 TTATTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 15 0.38
9 23 0.59
10 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AAATATAA
Found at i:130321 original size:17 final size:17
Alignment explanation
Indices: 130270--130323 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
130260 TAAAAAGTTG
* *
130270 AAATATCAAAAATATTTA
1 AAATAT-AAAAATAATAA
*
130288 AATTATTAAAAAT-ATAA
1 AAATA-TAAAAATAATAA
130305 AAATATAAAAATAATAA
1 AAATATAAAAATAATAA
130322 AA
1 AA
130324 TTATTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 7 0.23
17 12 0.40
18 10 0.33
19 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATAAAAATAATAA
Found at i:130402 original size:21 final size:20
Alignment explanation
Indices: 130378--130421 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
130368 ATTTATTTTA
*
130378 TTTAAATTATCAAAATAAAAT
1 TTTAAA-TATAAAAATAAAAT
* *
130399 TTTAGATATAAAAATCAAAT
1 TTTAAATATAAAAATAAAAT
130419 TTT
1 TTT
130422 TTTATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAATATAAAAATAAAAT
Found at i:131133 original size:22 final size:22
Alignment explanation
Indices: 131099--131140 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
131089 ATTTTTATTT
131099 TAATTTAATTATAAAAATATAC
1 TAATTTAATTATAAAAATATAC
*
131121 TAATATTAA-TATAAACATAT
1 TAAT-TTAATTATAAAAATAT
131141 TATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTAATTATAAAAATATAC
Found at i:131448 original size:14 final size:14
Alignment explanation
Indices: 131372--131448 Score: 51
Period size: 14 Copynumber: 5.9 Consensus size: 14
131362 TTCGTTAAAA
*
131372 ATAT-TATATTTTT
1 ATATATATATATTT
* *
131385 ATAAATATTTATTT
1 ATATATATATATTT
131399 ACTA-ATA-AT-TTGT
1 A-TATATATATATT-T
*
131412 AT-TATATAAATTT
1 ATATATATATATTT
131425 -TA-ATATATATTT
1 ATATATATATATTT
131437 ATATATATATAT
1 ATATATATATAT
131449 CTAATTTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
12 16 0.33
13 10 0.20
14 21 0.43
15 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (14 bp):
ATATATATATATTT
Found at i:131686 original size:2 final size:2
Alignment explanation
Indices: 131679--131703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131669 TTAAAGCTAC
131679 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
131704 ACCACAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131749 original size:27 final size:27
Alignment explanation
Indices: 131716--131796 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
131706 CACAACTATT
* *
131716 TTATTTT-GTTAATTTTTTATATTTTTA
1 TTATTTTAGATAAATTTTTAT-TTTTTA
131743 TTATTTTCAGATAAATTTTTATTTTTTA
1 TTATTTT-AGATAAATTTTTATTTTTTA
* *
131771 TTTGTATTTAAATAAATTTTTATTTT
1 -TTAT-TTTAGATAAATTTTTATTTT
131797 AATTAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.15
28 6 0.13
29 30 0.65
30 3 0.07
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (27 bp):
TTATTTTAGATAAATTTTTATTTTTTA
Found at i:131770 original size:28 final size:29
Alignment explanation
Indices: 131729--131796 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
131719 TTTTGTTAAT
*
131729 TTTTTATATTTTTATTAT-T-TTCAGATAAA
1 TTTTTAT-TTTTTATT-TGTATTCAAATAAA
*
131758 TTTTTATTTTTTATTTGTATTTAAATAAA
1 TTTTTATTTTTTATTTGTATTCAAATAAA
131787 TTTTTATTTT
1 TTTTTATTTT
131797 AATTAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 9 0.26
29 25 0.71
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTTATTTTTTATTTGTATTCAAATAAA
Found at i:131859 original size:30 final size:30
Alignment explanation
Indices: 131825--131918 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
131815 TGTTAGGAGT
131825 TTTATTTAAATATAAATTAAAAATTAAAAA
1 TTTATTTAAATATAAATTAAAAATTAAAAA
* * **
131855 TTTATTTGAGTATAAATTAAAAATTAAGTA
1 TTTATTTAAATATAAATTAAAAATTAAAAA
* * * *
131885 TTTATTTATATATAATTTAAAAGTTAATAA
1 TTTATTTAAATATAAATTAAAAATTAAAAA
131915 TTTA
1 TTTA
131919 CTTGAGTATA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTATTTAAATATAAATTAAAAATTAAAAA
Found at i:132153 original size:26 final size:26
Alignment explanation
Indices: 132116--132189 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
132106 TCAGATTCGA
* *
132116 AAATTTAAATTACTTTTTTTAAAATT
1 AAATTTAAATTAATATTTTTAAAATT
* * *
132142 AATTTTATATTAATATTTTTATAATT
1 AAATTTAAATTAATATTTTTAAAATT
*
132168 AAATTTAAATAAAATATTTTTA
1 AAATTTAAAT-TAATATTTTTA
132190 TTAGTTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 29 0.74
27 10 0.26
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
AAATTTAAATTAATATTTTTAAAATT
Found at i:132172 original size:27 final size:28
Alignment explanation
Indices: 132131--132199 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
132121 TAAATTACTT
* * *
132131 TTTTTAAAATT-AATTTTATAT-TAATA
1 TTTTTATAATTAAATTTTAAATAAAATA
132157 TTTTTATAATTAAA-TTTAAATAAAATA
1 TTTTTATAATTAAATTTTAAATAAAATA
*
132184 TTTTTATTAGTTAAAT
1 TTTTTA-TAATTAAAT
132200 AATGATAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 16 0.46
27 12 0.34
28 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTTTATAATTAAATTTTAAATAAAATA
Found at i:141221 original size:15 final size:15
Alignment explanation
Indices: 141197--141226 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
141187 GGTATGAGTT
141197 TTGGAGATGGTATGA
1 TTGGAGATGGTATGA
*
141212 TTGGATATGGTATGA
1 TTGGAGATGGTATGA
141227 GCCCGACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (15 bp):
TTGGAGATGGTATGA
Found at i:142620 original size:16 final size:15
Alignment explanation
Indices: 142594--142623 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
142584 GCAAAGGCTG
142594 AGAACCATCTCCAGA
1 AGAACCATCTCCAGA
142609 AGAACTCATCTCCAG
1 AGAAC-CATCTCCAG
142624 CTTTTCTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (15 bp):
AGAACCATCTCCAGA
Found at i:145943 original size:128 final size:128
Alignment explanation
Indices: 145795--146055 Score: 495
Period size: 128 Copynumber: 2.0 Consensus size: 128
145785 AAATGACACG
145795 AGCAACTGCAGCTCCACCAATCGTATACTCCAGTATGAGAGCCCAACCAATCAACCAGGCAACAC
1 AGCAACTGCAGCTCCACCAATCGTATACTCCAGTATGAGAGCCCAACCAATCAACCAGGCAACAC
145860 TACAAAATAATATTGATTATAACAGTGGCTGAAAACAAATGATAAATCTTCGAGAAGCAAGAA
66 TACAAAATAATATTGATTATAACAGTGGCTGAAAACAAATGATAAATCTTCGAGAAGCAAGAA
* *
145923 AGCAACTGCAGCTCCACCAATCGTATACTCCAGTATGAGAGCCCAACCAATCAACGAGGCAACGC
1 AGCAACTGCAGCTCCACCAATCGTATACTCCAGTATGAGAGCCCAACCAATCAACCAGGCAACAC
*
145988 TACAAAATGATATTGATTATAACAGTGGCTGAAAACAAATGATAAATCTTCGAGAAGCAAGAA
66 TACAAAATAATATTGATTATAACAGTGGCTGAAAACAAATGATAAATCTTCGAGAAGCAAGAA
146051 AGCAA
1 AGCAA
146056 AAGGATTATA
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 130 1.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (128 bp):
AGCAACTGCAGCTCCACCAATCGTATACTCCAGTATGAGAGCCCAACCAATCAACCAGGCAACAC
TACAAAATAATATTGATTATAACAGTGGCTGAAAACAAATGATAAATCTTCGAGAAGCAAGAA
Found at i:146384 original size:14 final size:14
Alignment explanation
Indices: 146365--146391 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
146355 AGAATATAAA
146365 CTCAGCATAGCAAG
1 CTCAGCATAGCAAG
146379 CTCAGCATAGCAA
1 CTCAGCATAGCAA
146392 AACGCAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (14 bp):
CTCAGCATAGCAAG
Found at i:146468 original size:124 final size:124
Alignment explanation
Indices: 146248--146491 Score: 488
Period size: 124 Copynumber: 2.0 Consensus size: 124
146238 GGGCAACGAC
146248 TAGCAAGCTCAGCATAGCAAAACGCAGAGAGGGCAGCAGCAATTCCGGCTATTAGAAAGGAAATG
1 TAGCAAGCTCAGCATAGCAAAACGCAGAGAGGGCAGCAGCAATTCCGGCTATTAGAAAGGAAATG
146313 GTGAGAGCAGGCCCTGAATGCTCTCTAGCAACTGTTCCAACAAGAATATAAACTCAGCA
66 GTGAGAGCAGGCCCTGAATGCTCTCTAGCAACTGTTCCAACAAGAATATAAACTCAGCA
146372 TAGCAAGCTCAGCATAGCAAAACGCAGAGAGGGCAGCAGCAATTCCGGCTATTAGAAAGGAAATG
1 TAGCAAGCTCAGCATAGCAAAACGCAGAGAGGGCAGCAGCAATTCCGGCTATTAGAAAGGAAATG
146437 GTGAGAGCAGGCCCTGAATGCTCTCTAGCAACTGTTCCAACAAGAATATAAACTC
66 GTGAGAGCAGGCCCTGAATGCTCTCTAGCAACTGTTCCAACAAGAATATAAACTC
146492 CAGCTCCAAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (124 bp):
TAGCAAGCTCAGCATAGCAAAACGCAGAGAGGGCAGCAGCAATTCCGGCTATTAGAAAGGAAATG
GTGAGAGCAGGCCCTGAATGCTCTCTAGCAACTGTTCCAACAAGAATATAAACTCAGCA
Found at i:148076 original size:14 final size:14
Alignment explanation
Indices: 148053--148086 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
148043 AATTATATAC
148053 ATAATAAAAATAAA
1 ATAATAAAAATAAA
*
148067 ATAATTAAAATAAA
1 ATAATAAAAATAAA
*
148081 AAAATA
1 ATAATA
148087 TATAAATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAATAAAAATAAA
Found at i:148343 original size:37 final size:37
Alignment explanation
Indices: 148288--148375 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
148278 GAAGTCAAAT
*
148288 CGATTAAATTTTTTATTTTTTAATATAATTAATTAGA
1 CGATCAAATTTTTTATTTTTTAATATAATTAATTAGA
*
148325 CGATCAAATTTTTTATTTTTTAATATAATTAGTTAGA
1 CGATCAAATTTTTTATTTTTTAATATAATTAATTAGA
148362 CGATCAAATTTTTT
1 CGATCAAATTTTTT
148376 TATAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (37 bp):
CGATCAAATTTTTTATTTTTTAATATAATTAATTAGA
Found at i:148803 original size:29 final size:33
Alignment explanation
Indices: 148756--148820 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 33
148746 TTATATTATT
148756 ATTTAAATAATAAAAAAT-AATT-ATA-TTTAA
1 ATTTAAATAATAAAAAATAAATTAATATTTTAA
148786 ATTT-AATAATAAAAAATAAATTAATATTTTAA
1 ATTTAAATAATAAAAAATAAATTAATATTTTAA
148818 ATT
1 ATT
148821 AATTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 13 0.41
30 8 0.25
31 3 0.09
32 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
ATTTAAATAATAAAAAATAAATTAATATTTTAA
Found at i:148805 original size:36 final size:36
Alignment explanation
Indices: 148759--148835 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
148749 TATTATTATT
* *
148759 TAAATAATAAA-AAATAATTAT-ATTTAAATTTAATAA
1 TAAAAAATAAATAAAT-ATTATAAATT-AATTTAATAA
* *
148795 TAAAAAATAAATTAATATTTTAAATTAATTTAATAA
1 TAAAAAATAAATAAATATTATAAATTAATTTAATAA
148831 TAAAA
1 TAAAA
148836 TCAAACTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 29 0.83
37 6 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (36 bp):
TAAAAAATAAATAAATATTATAAATTAATTTAATAA
Found at i:148811 original size:18 final size:18
Alignment explanation
Indices: 148783--148835 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
148773 TAATTATATT
148783 TAAATTTAATAATAAAAAA
1 TAAA-TTAATAATAAAAAA
* ** *
148802 TAAATTAATATTTTAAAT
1 TAAATTAATAATAAAAAA
*
148820 TAATTTAATAATAAAA
1 TAAATTAATAATAAAA
148836 TCAAACTTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTAATAATAAAAAA
Found at i:149055 original size:3 final size:3
Alignment explanation
Indices: 149049--149088 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
149039 AATAATAATA
**
149049 ATT ATT ATT ATT ACA ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
149089 GCTTTCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:149641 original size:16 final size:17
Alignment explanation
Indices: 149607--149638 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
149597 TATGAGTCTC
149607 AATTTCAAAATCAATGG
1 AATTTCAAAATCAATGG
149624 AATTT-AAAA-CAATGG
1 AATTTCAAAATCAATGG
149639 GAAAGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (17 bp):
AATTTCAAAATCAATGG
Found at i:151620 original size:18 final size:20
Alignment explanation
Indices: 151599--151639 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
151589 TATGTTAAAA
151599 TATTAAAATTTA-AT-TTTT
1 TATTAAAATTTATATATTTT
*
151617 TATTAATATTTATATATTTT
1 TATTAAAATTTATATATTTT
151637 TAT
1 TAT
151640 AATTATACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTAAAATTTATATATTTT
Found at i:152327 original size:19 final size:19
Alignment explanation
Indices: 152284--152321 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
152274 ATTTAAGCAT
* *
152284 ACTTATGTTGAGTACATAC
1 ACTTATATTGACTACATAC
152303 ACTTATATTGACTACATAC
1 ACTTATATTGACTACATAC
152322 GTTTATCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (19 bp):
ACTTATATTGACTACATAC
Found at i:157267 original size:2 final size:2
Alignment explanation
Indices: 157260--157289 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
157250 AAAATTCCAC
157260 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
157290 AACACAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:157833 original size:2 final size:2
Alignment explanation
Indices: 157826--157867 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
157816 ACATACATAC
*
157826 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
157868 TTCTTCGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:158176 original size:16 final size:16
Alignment explanation
Indices: 158155--158203 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
158145 AACATAGCTA
158155 ATATTTTTTAAAGTTG
1 ATATTTTTTAAAGTTG
* *
158171 ATATTTTTTTTACATTTG
1 ATA--TTTTTTAAAGTTG
*
158189 GTATTTTTTAAAGTT
1 ATATTTTTTAAAGTT
158204 ATTATTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (16 bp):
ATATTTTTTAAAGTTG
Found at i:158181 original size:18 final size:18
Alignment explanation
Indices: 158158--158197 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
158148 ATAGCTAATA
158158 TTTTTTAAAGTTGATATT
1 TTTTTTAAAGTTGATATT
* * *
158176 TTTTTTACATTTGGTATT
1 TTTTTTAAAGTTGATATT
158194 TTTT
1 TTTT
158198 AAAGTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTTTTAAAGTTGATATT
Found at i:164675 original size:14 final size:15
Alignment explanation
Indices: 164658--164700 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
164648 AAAAAGTTGC
164658 TATATT-ATTTTAAT
1 TATATTAATTTTAAT
*
164672 TATATTAATTTTTAT
1 TATATTAATTTTAAT
164687 TAT-TTAATATTTAA
1 TATATTAAT-TTTAA
164701 AAAAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTAATTTTAAT
Found at i:165426 original size:25 final size:26
Alignment explanation
Indices: 165401--165468 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
165391 TTTAATTTAT
*
165401 TTTA-ATTATTTTA-AAAAAAAATTA
1 TTTATATTATTATATAAAAAAAATTA
*
165425 TTTATATTATTATATAAAAATAATTTA
1 TTTATATTATTATATAAAAA-AAATTA
*
165452 TATTATA-TGTTATATAA
1 T-TTATATTATTATATAA
165469 TTTTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.11
25 8 0.22
26 5 0.14
27 15 0.41
28 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
TTTATATTATTATATAAAAAAAATTA
Found at i:166195 original size:13 final size:12
Alignment explanation
Indices: 166179--166230 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
166169 TAATAATTTT
*
166179 TTAAAATATTAAA
1 TTAAAA-ATCAAA
166192 TTAAAAATCAAA
1 TTAAAAATCAAA
*
166204 TTAAAAATTTAAA
1 TTAAAAA-TCAAA
*
166217 ATATAAAATCAAA
1 TTA-AAAATCAAA
166230 T
1 T
166231 GAGTATTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 12 0.38
13 16 0.50
14 4 0.12
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATCAAA
Found at i:166218 original size:26 final size:26
Alignment explanation
Indices: 166181--166230 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
166171 ATAATTTTTT
166181 AAAATATTAAAT-TAAAAATCAAATTA
1 AAAATATTAAATAT-AAAATCAAATTA
166207 AAAAT-TTAAAATATAAAATCAAAT
1 AAAATATT-AAATATAAAATCAAAT
166231 GAGTATTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 19 0.86
27 1 0.05
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAATATTAAATATAAAATCAAATTA
Found at i:166490 original size:27 final size:29
Alignment explanation
Indices: 166441--166495 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
166431 TCAACGTCGA
166441 ATATAAATATATATTCAACATAAATATTT
1 ATATAAATATATATTCAACATAAATATTT
* *
166470 ATATAAATAT-T-TTTAATATAAATATT
1 ATATAAATATATATTCAACATAAATATT
166496 AATTAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 1 0.04
29 10 0.42
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATAAATATATATTCAACATAAATATTT
Found at i:166648 original size:24 final size:24
Alignment explanation
Indices: 166591--166653 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
166581 CAAATAAAGA
166591 TATATATATATTTAATATAAATATTTT
1 TATAT-TATATTT-A-ATAAATATTTT
166618 T-TA-TATATTTAAT-AATATTTT
1 TATATTATATTTAATAAATATTTT
166639 TATATCTATATTTAA
1 TATAT-TATATTTAA
166654 ATATACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 9 0.27
22 4 0.12
23 1 0.03
24 16 0.48
26 2 0.06
27 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATTATATTTAATAAATATTTT
Found at i:166656 original size:22 final size:19
Alignment explanation
Indices: 166608--166657 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
166598 ATATTTAATA
166608 TAAATATTTTTTATATATT
1 TAAATATTTTTTATATATT
166627 TAATAATATTTTTATATCTATATT
1 T-A-AATATTTTT-TA--TATATT
166651 TAAATAT
1 TAAATAT
166658 ACATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 9 0.35
22 7 0.27
23 1 0.04
24 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAATATTTTTTATATATT
Found at i:166700 original size:20 final size:22
Alignment explanation
Indices: 166661--166701 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
166651 TAAATATACA
*
166661 TTAAAAATAAATATTCAACATT
1 TTAAAAATAAATAATCAACATT
166683 TTAAAAA-AAATAAT-AACAT
1 TTAAAAATAAATAATCAACAT
166702 AAGATCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATAAATAATCAACATT
Found at i:167255 original size:14 final size:14
Alignment explanation
Indices: 167236--167273 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
167226 AAAATTAAAA
*
167236 AATATTTTTATATT
1 AATATTTATATATT
167250 AATATTTATA-ATT
1 AATATTTATATATT
167263 AA-ATTTATATA
1 AATATTTATATA
167274 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:171443 original size:2 final size:2
Alignment explanation
Indices: 171438--171472 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
171428 AAAAGAGTTG
171438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
171473 GTGTATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:172520 original size:2 final size:2
Alignment explanation
Indices: 172513--172542 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
172503 CAAGACAGAA
172513 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
172543 GAGTCTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:175270 original size:6 final size:6
Alignment explanation
Indices: 175259--175285 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
175249 GGATTTGAGA
175259 AAAAGC AAAAGC AAAAGC AAAAGC AAA
1 AAAAGC AAAAGC AAAAGC AAAAGC AAA
175286 GCTGCAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGC
Found at i:175686 original size:19 final size:19
Alignment explanation
Indices: 175651--175688 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
175641 TTTTTATAAG
*
175651 TAATAGTTTATAAAAATTT
1 TAATAATTTATAAAAATTT
175670 TAATAATTT-TAATAAATTT
1 TAATAATTTATAA-AAATTT
175689 AATGTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATAATTTATAAAAATTT
Found at i:176282 original size:21 final size:20
Alignment explanation
Indices: 176244--176283 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
176234 ATTTAAATCG
* *
176244 ATTTAAAAATTTATATTATA
1 ATTTAAAAATTAAAATTATA
176264 ATTTAAAAAATTAAAATTAT
1 ATTT-AAAAATTAAAATTAT
176284 TTTTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAAAATTAAAATTATA
Found at i:176352 original size:20 final size:18
Alignment explanation
Indices: 176320--176359 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
176310 TTAAATTTAA
*
176320 AATAAAAATATTTTTATT
1 AATAAAAATATTTTAATT
176338 AATAAATAATAATTTTAATT
1 AATAAA-AAT-ATTTTAATT
176358 AA
1 AA
176360 ATTAAACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAAAAATATTTTAATT
Found at i:176636 original size:14 final size:14
Alignment explanation
Indices: 176612--176678 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
176602 ATTAAAAAAT
176612 TATTT-TATATTAA
1 TATTTATATATTAA
176625 TATTTATATA-T--
1 TATTTATATATTAA
176636 T-TTTATA-ATTAA
1 TATTTATATATTAA
* *
176648 -ATTTAAATAATAA
1 TATTTATATATTAA
176661 TATTTAT-TATTAAA
1 TATTTATATATT-AA
176675 TATT
1 TATT
176679 AATTTAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
9 1 0.02
10 7 0.17
11 1 0.02
12 5 0.12
13 13 0.31
14 15 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATATATTAA
Found at i:177280 original size:19 final size:21
Alignment explanation
Indices: 177245--177300 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
177235 AAAAAATTAA
**
177245 ATTAAATTAATCGATTAAT-T
1 ATTAAATTAATAAATTAATAT
177265 -TTAAATTAATAAATTAATAT
1 ATTAAATTAATAAATTAATAT
*
177285 ATAAAATTAATAAATT
1 ATTAAATTAATAAATT
177301 TTAAATCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.52
20 1 0.03
21 14 0.45
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAATTAATAAATTAATAT
Found at i:179395 original size:33 final size:33
Alignment explanation
Indices: 179355--179419 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
179345 AAATATGATT
179355 TAAATTTTAATATAT-TAAATAATTTATATTATA
1 TAAATTTTAATATATCTAAAT-ATTTATATTATA
*
179388 TAAATTTTAATATATCTATATATTTATATTAT
1 TAAATTTTAATATATCTAAATATTTATATTAT
179420 TTTTTTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (33 bp):
TAAATTTTAATATATCTAAATATTTATATTATA
Found at i:179401 original size:14 final size:14
Alignment explanation
Indices: 179355--179402 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
179345 AAATATGATT
179355 TAAATTTTAATATA
1 TAAATTTTAATATA
179369 TTAAATAATTTATATTATA
1 -TAAAT--TTTA-A-TATA
179388 TAAATTTTAATATA
1 TAAATTTTAATATA
179402 T
1 T
179403 CTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 5 0.17
15 6 0.21
16 4 0.14
17 4 0.14
18 6 0.21
19 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATTTTAATATA
Found at i:179407 original size:18 final size:17
Alignment explanation
Indices: 179346--179412 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 17
179336 ATAATACTTA
179346 AATATGATT-TAAATTTT
1 AATAT-ATTATAAATTTT
*
179363 AATATATTA-AATAATTT
1 AATATATTATAA-ATTTT
179380 -ATAT-TATATAAATTTT
1 AATATAT-TATAAATTTT
*
179396 AATATATCTATATATTT
1 AATATAT-TATAAATTT
179413 ATATTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 15 0.38
17 15 0.38
18 9 0.22
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
AATATATTATAAATTTT
Found at i:179966 original size:16 final size:16
Alignment explanation
Indices: 179928--179966 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
179918 AAATTTTTTT
*
179928 ATTTAAATTCGAATTA
1 ATTTAAATTCAAATTA
**
179944 AGCTAAATTCAAATTA
1 ATTTAAATTCAAATTA
179960 ATTTAAA
1 ATTTAAA
179967 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTTAAATTCAAATTA
Found at i:180595 original size:26 final size:28
Alignment explanation
Indices: 180566--180637 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
180556 ATTTAAATTC
180566 AATATAT-AATTAAATATAAAAATT-TA
1 AATATATAAATTAAATATAAAAATTATA
* *
180592 AATATATAAAATAATTA-AAAAATTATA
1 AATATATAAATTAAATATAAAAATTATA
*
180619 AATATTTAAATTAAATATA
1 AATATATAAATTAAATATA
180638 TATTTACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 14 0.37
27 23 0.61
28 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AATATATAAATTAAATATAAAAATTATA
Found at i:181062 original size:22 final size:22
Alignment explanation
Indices: 181008--181081 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
180998 AAATATAATT
181008 ATATAAA-TACTATAAA-AATAAA
1 ATATAAATTA-TATAAATAAT-AA
*
181030 ATAATTAAAATATAATAAATAATAA
1 AT-A-TAAATTAT-ATAAATAATAA
*
181055 ATATAAATTATATAAATAATTA
1 ATATAAATTATATAAATAATAA
181077 ATATA
1 ATATA
181082 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
22 17 0.38
23 8 0.18
24 6 0.13
25 11 0.24
26 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (22 bp):
ATATAAATTATATAAATAATAA
Found at i:181071 original size:15 final size:15
Alignment explanation
Indices: 181051--181124 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
181041 ATAATAAATA
181051 ATAAATATAAATTAT
1 ATAAATATAAATTAT
*
181066 ATAAATAATTAA-TAT
1 ATAAAT-ATAAATTAT
* *
181081 ATTAAA-AT--TTTTT
1 A-TAAATATAAATTAT
*
181094 ATAAATATAAAATATT
1 ATAAATATAAATTA-T
181110 ATAAATA-AAATTAT
1 ATAAATATAAATTAT
181124 A
1 A
181125 ATAGTTAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
12 4 0.09
13 5 0.11
14 4 0.09
15 16 0.36
16 16 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATATAAATTAT
Found at i:181125 original size:22 final size:22
Alignment explanation
Indices: 180991--181125 Score: 75
Period size: 25 Copynumber: 6.0 Consensus size: 22
180981 TATTTTTAAT
*
180991 AATATTA-AAATATAATTATATA
1 AATATTATAAATAAAATTATA-A
* *
181013 AATACTATAAAAATAAAATAATTAA
1 AATA-T-TATAAATAAAATTA-TAA
* *
181038 AATATAATAAATAATAAATATAA
1 AATATTATAAATAA-AATTATAA
*
181061 ATTA-TATAAATAATTAATATATTAA
1 AATATTATAAATAA--AAT-TA-TAA
**
181086 AAT-TT-TTTAT-AAA-TATAA
1 AATATTATAAATAAAATTATAA
181104 AATATTATAAATAAAATTATAA
1 AATATTATAAATAAAATTATAA
181126 TAGTTAAAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
18 6 0.07
19 4 0.05
20 3 0.03
21 5 0.06
22 17 0.20
23 18 0.21
24 11 0.13
25 20 0.23
26 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATTATAAATAAAATTATAA
Found at i:181398 original size:16 final size:17
Alignment explanation
Indices: 181360--181399 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
181350 TGAATTTAGA
*
181360 TCAAATTATCTTCAAAT
1 TCAAATTATCTTAAAAT
181377 TCAAATTA-CTTAAAAT
1 TCAAATTATCTTAAAAT
*
181393 TTAAATT
1 TCAAATT
181400 CATATTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAAATTATCTTAAAAT
Found at i:185774 original size:11 final size:11
Alignment explanation
Indices: 185756--185804 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
185746 TAAAATATTT
185756 TAAATATAA-A
1 TAAATATAATA
185766 TATAATATAATA
1 TA-AATATAATA
185778 -AAA-AT-ATA
1 TAAATATAATA
*
185786 TAAATATGATA
1 TAAATATAATA
185797 TAAATATA
1 TAAATATA
185805 TAAATTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 6 0.18
11 18 0.55
12 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:185790 original size:30 final size:30
Alignment explanation
Indices: 185747--185808 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
185737 AATAAAAAAT
*
185747 AAAATATTTTAAATATAA-ATATAATATAATA
1 AAAATATTATAAATATAATATA-AATAT-ATA
*
185778 AAAATA-TATAAATATGATATAAATATATA
1 AAAATATTATAAATATAATATAAATATATA
185807 AA
1 AA
185809 TTATCTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 14 0.50
31 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATATTATAAATATAATATAAATATATA
Found at i:185801 original size:19 final size:19
Alignment explanation
Indices: 185732--185809 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
185722 ATATATCTCA
185732 AAAT-TAATAAAAA-ATA-
1 AAATATAATAAAAATATAT
** * *
185748 AAATATTTTAAATATAAAT
1 AAATATAATAAAAATATAT
185767 ATAATATAATAAAAATATAT
1 A-AATATAATAAAAATATAT
* *
185787 AAATATGATATAAATATAT
1 AAATATAATAAAAATATAT
185806 AAAT
1 AAAT
185810 TATCTAACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 2 0.04
19 21 0.44
20 15 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
AAATATAATAAAAATATAT
Found at i:194269 original size:18 final size:18
Alignment explanation
Indices: 194246--194282 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
194236 CGAGTGAGCA
*
194246 TGGTTTGACAGAAATTAT
1 TGGTTTGACAGAAACTAT
194264 TGGTTTGACAGAAACTAT
1 TGGTTTGACAGAAACTAT
194282 T
1 T
194283 CATTTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (18 bp):
TGGTTTGACAGAAACTAT
Found at i:194288 original size:18 final size:18
Alignment explanation
Indices: 194249--194288 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
194239 GTGAGCATGG
* **
194249 TTTGACAGAAATTATTGG
1 TTTGACAGAAACTATTCA
194267 TTTGACAGAAACTATTCA
1 TTTGACAGAAACTATTCA
194285 TTTG
1 TTTG
194289 TGTAATGTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGACAGAAACTATTCA
Found at i:195673 original size:16 final size:16
Alignment explanation
Indices: 195639--195691 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
195629 TTTTAAACTA
*
195639 TATATTTTTATTGTAT
1 TATATTTTTATTATAT
*
195655 TATATTTTTATTATTT
1 TATATTTTTATTATAT
* *
195671 TATATATATATTATAT
1 TATATTTTTATTATAT
*
195687 CATAT
1 TATAT
195692 AATCATATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TATATTTTTATTATAT
Found at i:196018 original size:13 final size:15
Alignment explanation
Indices: 195991--196022 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
195981 TACATAAATT
195991 TAAATATATATTAAA
1 TAAATATATATTAAA
196006 TAAATAT-TA-TAAA
1 TAAATATATATTAAA
196019 TAAA
1 TAAA
196023 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:196142 original size:21 final size:20
Alignment explanation
Indices: 196116--196155 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
196106 TTAATTTTAT
196116 TATTTAAAAATATTTTATTAA
1 TATTTAAAAAT-TTTTATTAA
* *
196137 TATTTATATATTTTTATTA
1 TATTTAAAAATTTTTATTA
196156 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTAAAAATTTTTATTAA
Found at i:196207 original size:15 final size:14
Alignment explanation
Indices: 196162--196214 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
196152 ATTATTAAAT
196162 TTTAAATTAAAATATA
1 TTTAAATT-AAATA-A
*
196178 TTAATAATT-AATAA
1 TTTA-AATTAAATAA
196192 TTTAAATTAAATTAA
1 TTTAAATTAAA-TAA
196207 TTTAAATT
1 TTTAAATT
196215 TATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 4 0.12
14 6 0.19
15 15 0.47
16 3 0.09
17 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAATTAAATAA
Found at i:197528 original size:48 final size:52
Alignment explanation
Indices: 197426--197532 Score: 134
Period size: 48 Copynumber: 2.2 Consensus size: 52
197416 AAAATTATAT
* *
197426 TTAATA-ATTTTTAATATAATTATATAAATATAAAATTATAAAAATATAATA
1 TTAATATATTTTTAATATAATTATATAAATATAAAATTATAAAAATAAAAAA
* * *
197477 TTAATATATTTTTAA-A-ATTTATAT-AATA-AAAATTATTAATATAAAAAA
1 TTAATATATTTTTAATATAATTATATAAATATAAAATTATAAAAATAAAAAA
197525 TTAATATA
1 TTAATATA
197533 AATATAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 24 0.48
49 4 0.08
50 7 0.14
51 7 0.14
52 8 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (52 bp):
TTAATATATTTTTAATATAATTATATAAATATAAAATTATAAAAATAAAAAA
Found at i:197575 original size:23 final size:23
Alignment explanation
Indices: 197548--197618 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
197538 AAAATACTTT
197548 ATATATTATTATAATATAATAAA
1 ATATATTATTATAATATAATAAA
* *
197571 ATATATAAATATAATATAA-AAA
1 ATATATTATTATAATATAATAAA
* *
197593 TATTTATT-TTATAA-AT-TTAAA
1 -ATATATTATTATAATATAATAAA
197614 ATATA
1 ATATA
197619 AAATTTTTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.10
21 5 0.13
22 8 0.21
23 22 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATATTATTATAATATAATAAA
Found at i:197595 original size:13 final size:13
Alignment explanation
Indices: 197447--197595 Score: 52
Period size: 13 Copynumber: 10.9 Consensus size: 13
197437 TAATATAATT
* *
197447 ATATAAATATAAA
1 ATATAAAAATATA
197460 ATTATAAAAATATA
1 A-TATAAAAATATA
* *
197474 ATATTAATATAT-
1 ATATAAAAATATA
* *
197486 TTTTAAAATTTATATA
1 ATATAAAA---ATATA
*
197502 ATA-AAAATTATTA
1 ATATAAAAATA-TA
197515 ATATAAAAA-ATTA
1 ATATAAAAATA-TA
* *
197528 ATATAAATATAAA
1 ATATAAAAATATA
** *
197541 ATACTTTATATATTA
1 ATA-TAAAAATA-TA
* *
197556 TTATAATATAATAAA
1 ATATAA-A-AATATA
*
197571 ATATATAAATATA
1 ATATAAAAATATA
197584 ATATAAAAATAT
1 ATATAAAAATAT
197596 TTATTTTATA
Statistics
Matches: 98, Mismatches: 26, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
12 6 0.06
13 47 0.48
14 24 0.24
15 17 0.17
16 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAAAAATATA
Found at i:197980 original size:48 final size:48
Alignment explanation
Indices: 197928--198039 Score: 188
Period size: 48 Copynumber: 2.3 Consensus size: 48
197918 AAGCCATGAG
* *
197928 CATGGCGGACATGGTGGACATGAGGAGCACAAGGGAGAGGCTCACGGC
1 CATGGCGGACATGGCGGACATGAGGAGCACAAGGGAGAGGCCCACGGC
* *
197976 CATGGCGGACACGGCGGACATGAGGAGCACAAGGGAGAGGCCCACTGC
1 CATGGCGGACATGGCGGACATGAGGAGCACAAGGGAGAGGCCCACGGC
198024 CATGGCGGACATGGCG
1 CATGGCGGACATGGCG
198040 AGGAGCACAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.24, G:0.41, T:0.09
Consensus pattern (48 bp):
CATGGCGGACATGGCGGACATGAGGAGCACAAGGGAGAGGCCCACGGC
Found at i:198148 original size:15 final size:15
Alignment explanation
Indices: 198124--198155 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
198114 CATGATGGGG
198124 AGAAAAAGAAGAAGA
1 AGAAAAAGAAGAAGA
*
198139 AGAAAGAGAAGAAGA
1 AGAAAAAGAAGAAGA
198154 AG
1 AG
198156 CATGAGGATG
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAGA
Done.