Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168426.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_64, 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: 138588
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
File 2 of 2
Found at i:102196 original size:20 final size:20
Alignment explanation
Indices: 102158--102197 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
102148 TTAGAAATTA
*
102158 AATATTAAATATTTTAATAT
1 AATATTAAATATTTAAATAT
102178 AATATTAAAT-TATTAAATAT
1 AATATTAAATAT-TTAAATAT
102198 CTTATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTAAATATTTAAATAT
Found at i:102245 original size:15 final size:15
Alignment explanation
Indices: 102225--102257 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
102215 ATTTAACTAT
102225 TAAATTAATATACAA
1 TAAATTAATATACAA
102240 TAAATTAATATACAA
1 TAAATTAATATACAA
102255 TAA
1 TAA
102258 GAATTAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATTAATATACAA
Found at i:102339 original size:17 final size:16
Alignment explanation
Indices: 102283--102339 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
102273 CAAGAATTAG
*
102283 TTATT-TTATAATAAT
1 TTATTATTAAAATAAT
*
102298 TAATTATTAAAA-AAT
1 TTATTATTAAAATAAT
102313 TGTATTTATTAAAATAAT
1 T-TA-TTATTAAAATAAT
102331 TTATATATT
1 TTAT-TATT
102340 TATTTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 8 0.24
16 7 0.21
17 15 0.44
18 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATTATTAAAATAAT
Found at i:102966 original size:15 final size:13
Alignment explanation
Indices: 102936--102982 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
102926 TAATTATCTA
102936 AAATTATAATAATT
1 AAATTA-AATAATT
102950 AAATTAAATAATTTT
1 AAATTAAATAA--TT
*
102965 AATTTAAAT-ATT
1 AAATTAAATAATT
102977 AAATTA
1 AAATTA
102983 TTAAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 7 0.24
15 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTAAATAATT
Found at i:103624 original size:181 final size:182
Alignment explanation
Indices: 103305--103646 Score: 422
Period size: 181 Copynumber: 1.9 Consensus size: 182
103295 TAATAATAGG
* * * * * *
103305 AGATTTAAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGACAATTATA
1 AGATTTAAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATGACAATTATA
* * * *
103370 TATTCCCAATCATTATAACCTTTTGTTTTGTCATAAAATAATTATTTATCTGCCATACAAGCTTA
66 TATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTGCCATACAAGCTTA
103435 TTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
131 TTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
* * *
103487 AGATTT-AAAAAATAAATTTGTTTACCAAACCAATTCAAATAGTTAAGGCTATATGAATAATTAT
1 AGATTTAAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATG-ACAATTAT
* * * * * *
103551 CTATTTCAAATCATTATGAA-CTTTTGTGTTGTCATAAAACAAATGTTT-T-TGTTCATATAAGT
65 ATATTCCAAATCATTAT-AACCTTTTGTGTTGTCATAAAACAAATATTTATCTG-CCATACAAGC
* * * *
103613 TTGTTCGAAATAAAATAATATTAATTTATTAATA
128 TTATTCGAAATAAAATAATACTAATATAGTAATA
103647 TTTCAAAAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
180 2 0.01
181 79 0.59
182 51 0.38
183 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (182 bp):
AGATTTAAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATGACAATTATA
TATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTGCCATACAAGCTTA
TTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
Found at i:103662 original size:181 final size:177
Alignment explanation
Indices: 103298--103707 Score: 416
Period size: 181 Copynumber: 2.3 Consensus size: 177
103288 AAGTTATTAA
* * * * * * *
103298 TAATAGGAGATTTAAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAC
1 TAATAAGAGATTT-AAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATATGAC
* * * *
103363 AATTATATATTCCCAATCATTATAACCTTTTGTTTTGTCATAAAATAATTATTTATCTGCCATAC
65 AATTATATATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTGCCATAC
* *
103428 AAGCTTATTCGAAATAAAATAATACTAATATAGTAATACTATGAAATT
130 AAGCTTATTCGAAATAAAATAATACTAATATAGTAATACTATAAAAAT
* *
103476 TAATAACTGATAGATTTAAAAAATAAATTTGTTTACCAAACCAATTCAAATAGTTAAGGCTATAT
1 TAATAA--G--AGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATAT
* * * *
103541 GAATAATTATCTATTTCAAATCATTATGAA-CTTTTGTGTTGTCATAAAACAAATGTTT-T-TGT
62 G-ACAATTATATATTCCAAATCATTAT-AACCTTTTGTGTTGTCATAAAACAAATATTTATCTG-
* * * * * * * *
103603 TCATATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAATA-TTTCAAAAAT
124 CCATACAAGCTTATTCGAAATAAAATAATACTAATATAGTAATACTAT-AAAAAT
* * * * *
103657 TAATAAGAGATTTAATAAATAAA-TTATTTACCATACTAGTTCAATTAGTTA
1 TAATAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTA
103708 TAACAATTTG
Statistics
Matches: 191, Mismatches: 33, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
176 23 0.12
177 15 0.08
178 5 0.03
179 1 0.01
180 5 0.03
181 89 0.47
182 51 0.27
183 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (177 bp):
TAATAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATATGACA
ATTATATATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTGCCATACA
AGCTTATTCGAAATAAAATAATACTAATATAGTAATACTATAAAAAT
Found at i:104421 original size:180 final size:178
Alignment explanation
Indices: 104138--104463 Score: 426
Period size: 180 Copynumber: 1.8 Consensus size: 178
104128 CTGTTTCCCA
* ** *
104138 AACCATTTCAAATAGTTTTGACTATTTCAATATTATTTATTTCAAATCATTATAACCTTTTATTT
1 AACCAGTTCAAATAGTTAAGACTATTTCAATATTATCTATTTCAAATCATTATAACCTTTTATTT
* * * *
104203 TATCATCAAACAATTGGTTCTGTTCATACTATTTTATTTAGAATAAAATAATACTAATTTAATAA
66 TATCATAAAACAATTGGTTCTGTTCATACAAATTTATTTAGAATAAAATAACACTAATTTAATAA
104268 TATTTTGAAACTTAATAACCAAAAAAATTAAAAAATAAATCTAATTGTAG
131 TATTTTG-AA-TTAATAACCAAAAAAATTAAAAAATAAATCTAATTGTAG
* * *
104318 AACCAGTTCAAATAGTTAAGACTCTATT-AATGATTATCTATTTCAAATCGTTATGAA-CTTTTC
1 AACCAGTTCAAATAGTTAAGACTAT-TTCAAT-ATTATCTATTTCAAATCATTAT-AACCTTTTA
* * * * *
104381 TTTTAAT-GTAAAACAATT-GTTTTGTTCGTACAAATTTATTTGGATTAAAATAACACTAATTTA
63 TTTT-ATCATAAAACAATTGGTTCTGTTCATACAAATTTATTTAGAATAAAATAACACTAATTTA
104444 ATAATATTTTGAATTAATAA
127 ATAATATTTTGAATTAATAA
104464 TAATTAATAA
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
178 7 0.06
179 2 0.02
180 73 0.58
181 40 0.32
182 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (178 bp):
AACCAGTTCAAATAGTTAAGACTATTTCAATATTATCTATTTCAAATCATTATAACCTTTTATTT
TATCATAAAACAATTGGTTCTGTTCATACAAATTTATTTAGAATAAAATAACACTAATTTAATAA
TATTTTGAATTAATAACCAAAAAAATTAAAAAATAAATCTAATTGTAG
Found at i:104722 original size:14 final size:13
Alignment explanation
Indices: 104691--104724 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
104681 ACTAAATGAA
104691 TATAATATTAAAT
1 TATAATATTAAAT
*
104704 TATAATATTTAAT
1 TATAATATTAAAT
104717 TCATAATA
1 T-ATAATA
104725 CGAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATATTAAAT
Found at i:106787 original size:16 final size:16
Alignment explanation
Indices: 106766--106816 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
106756 TTTATATTAA
106766 TATTTATAAAATAAAT
1 TATTTATAAAATAAAT
**
106782 TATTTATTTAATAATATT
1 TATTTATAAAATAA-A-T
106800 TATTT-TGAAAATAAAT
1 TATTTAT-AAAATAAAT
106816 T
1 T
106817 CAAATAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 14 0.50
17 3 0.11
18 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTATAAAATAAAT
Found at i:106948 original size:15 final size:15
Alignment explanation
Indices: 106928--106969 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
106918 AATTAATATC
106928 AATTAATTATTATTT
1 AATTAATTATTATTT
* *
106943 AATTAA-TAATAATT
1 AATTAATTATTATTT
*
106957 AATTTATTATTAT
1 AATTAATTATTAT
106970 ATTATTATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTATTATTT
Found at i:106948 original size:25 final size:26
Alignment explanation
Indices: 106917--106967 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
106907 TTATTTGAGA
106917 TAATTAAT-ATCAATTAA-TTATTATT
1 TAATTAATAAT-AATTAATTTATTATT
106942 TAATTAATAATAATTAATTTATTATT
1 TAATTAATAATAATTAATTTATTATT
106968 ATATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATTAATAATAATTAATTTATTATT
Found at i:106979 original size:25 final size:24
Alignment explanation
Indices: 106917--106979 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
106907 TTATTTGAGA
*
106917 TAATTAATATCAATTAATTATTATT
1 TAATTATTAT-AATTAATTATTATT
*
106942 TAATTAATAATAATTAATTTATTA-T
1 TAATT-ATTATAATTAA-TTATTATT
106967 TATATTATTATAA
1 TA-ATTATTATAA
106980 ACAAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TAATTATTATAATTAATTATTATT
Found at i:109065 original size:13 final size:12
Alignment explanation
Indices: 109015--109068 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 12
109005 GAATTAGAAT
*
109015 AATAATTATCAAA
1 AATAATTAT-TAA
*
109028 AATAATTATTTA
1 AATAATTATTAA
109040 AATAATTATTAA
1 AATAATTATTAA
*
109052 AATCAATAATTAA
1 AAT-AATTATTAA
109065 AATA
1 AATA
109069 TTTTGAGATC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 16 0.44
13 20 0.56
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAATTATTAA
Found at i:109067 original size:25 final size:25
Alignment explanation
Indices: 109015--109068 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
109005 GAATTAGAAT
* *
109015 AATAATTATCAAAAATAATTATTTA
1 AATAATTATCAAAAATAATAATTAA
*
109040 AATAATTAT-TAAAATCAATAATTAA
1 AATAATTATCAAAAAT-AATAATTAA
109065 AATA
1 AATA
109069 TTTTGAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATTATCAAAAATAATAATTAA
Found at i:109924 original size:20 final size:20
Alignment explanation
Indices: 109866--109929 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
109856 ATAATTATTT
*
109866 TATAA-TTTAATAATT-TCAA
1 TATAATTTTATTAATTAT-AA
*
109885 TAATAATATTATCTAA-TATAA
1 T-ATAATTTTAT-TAATTATAA
*
109906 TATAATTTTATTAATTATAT
1 TATAATTTTATTAATTATAA
109926 TATA
1 TATA
109930 CTTAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 4 0.11
20 21 0.58
21 7 0.19
22 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTTATTAATTATAA
Found at i:109967 original size:17 final size:17
Alignment explanation
Indices: 109941--109982 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
109931 TTAAATATTT
109941 TAAT-AATTATTATAAA
1 TAATAAATTATTATAAA
*
109957 TAATAAATTATTATAAT
1 TAATAAATTATTATAAA
*
109974 TTATAAATT
1 TAATAAATT
109983 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAAATTATTATAAA
Found at i:110142 original size:23 final size:23
Alignment explanation
Indices: 109943--110176 Score: 92
Period size: 23 Copynumber: 9.9 Consensus size: 23
109933 AAATATTTTA
109943 ATAATTATTATAAATAATAAATTATT
1 ATAATTA--ATAAATAAT-AATTATT
* *
109969 ATAATTTATAAAT--TTA-TATAT
1 ATAATTAATAAATAATAATTAT-T
* *
109990 ATATTTAATATAT-ATAATTATAT
1 ATAATTAATAAATAATAATTAT-T
*
110013 ATAATTAAT-AATAATTCAAATATT
1 ATAATTAATAAATAA-T-AATTATT
* *
110037 -T-AGTAAAAATATAATAATTATT
1 ATAATTAATAA-ATAATAATTATT
* *
110059 GT-ATTAATAATACAATAATTTATT
1 ATAATTAATAA-ATAATAA-TTATT
* * * *
110083 TTAAATAATTAAGTATATTATT-TT
1 ATAATTAA-TAAATA-ATAATTATT
*
110107 AATATAATAATAAATAATAATTATT
1 -ATA-ATTAATAAATAATAATTATT
* *
110132 ATAATTAAT-AATAATTTATTAAT
1 ATAATTAATAAATAA-TAATTATT
* *
110155 AGTAATTAATATATAACAATTA
1 A-TAATTAATAAATAATAATTA
110177 ATTGGATAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.02
21 12 0.08
22 20 0.12
23 43 0.27
24 40 0.25
25 25 0.16
26 17 0.11
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (23 bp):
ATAATTAATAAATAATAATTATT
Found at i:110154 original size:14 final size:16
Alignment explanation
Indices: 110105--110162 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
110095 GTATATTATT
*
110105 TTAAT-ATAATAATAA
1 TTAATAATAATTATAA
* *
110120 ATAATAATTATTATAA
1 TTAATAATAATTATAA
110136 TTAATAATAATT-T-A
1 TTAATAATAATTATAA
*
110150 TTAATAGTAATTA
1 TTAATAATAATTA
110163 ATATATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 12 0.34
15 5 0.14
16 18 0.51
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTAATAATAATTATAA
Found at i:110155 original size:40 final size:40
Alignment explanation
Indices: 110048--110165 Score: 94
Period size: 40 Copynumber: 2.7 Consensus size: 40
110038 AGTAAAAATA
* *
110048 TAATAATTATTGTATTAATAATACAATAATTTATTTTAAATAAT
1 TAATAATAATT-TATTAATAATA-AATAA-TAATTTT-AATAAT
*
110092 TAAGTATATTATTTTAATATAATAATAAATAATAATTATT-ATAAT
1 TAA-TA-A-TAATTT-AT-TAATAATAAATAATAATT-TTAATAAT
* *
110137 TAATAATAATTTATTAATAGTAATTAATA
1 TAATAATAATTTATTAATAATAAATAATA
110166 TATAACAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
40 13 0.21
41 2 0.03
42 5 0.08
43 1 0.02
44 5 0.08
45 10 0.16
46 6 0.10
47 12 0.19
48 8 0.13
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (40 bp):
TAATAATAATTTATTAATAATAAATAATAATTTTAATAAT
Found at i:110257 original size:20 final size:21
Alignment explanation
Indices: 110221--110276 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
110211 TTTTATTAGT
110221 TTTGATTATACTAAAACAAATA
1 TTTGATTATA-TAAAACAAATA
*
110243 TTTGATT-TATAAAACAAGTA
1 TTTGATTATATAAAACAAATA
*
110263 TTTTATTATATAAA
1 TTTGATTATATAAA
110277 TTAAACTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 7 0.23
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTGATTATATAAAACAAATA
Found at i:111564 original size:13 final size:14
Alignment explanation
Indices: 111546--111578 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
111536 TTTTATTTAT
111546 AATTATA-TAGATA
1 AATTATATTAGATA
111559 AATTATATTAGATA
1 AATTATATTAGATA
111573 ATATTA
1 A-ATTA
111579 ATAATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:111991 original size:178 final size:180
Alignment explanation
Indices: 111807--112315 Score: 506
Period size: 181 Copynumber: 2.8 Consensus size: 180
111797 GAACCGGTTC
*
111807 AAATAGTTAAGACTA-TTATAATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATA
1 AAATAGTTATGACTATTTA-AATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATA
* * * *
111871 AAATAATTG-TTCAATTCATACATGCTTATTTGAAATAAAATAATACTATTTTATTAACATTCAA
65 AAAAAATTGTTTCAATTCATACAAGCTTATTT-AAATAAAATAATACTACTTTATTAATATTCAA
* * *
111935 AAAATTAATAAGCAAGG-TA-TTAAAA-ATAAAT-TTGTTTACCAAAT-AAGTTT
129 AAAATTAATAAG-AAGGAGATTTAAAACATAAATCAT-TTTACAAAATCAA-TTT
* * *
111985 AAATAGTTATGACTATTTAAACAATTATC-ATTTTAAATTCGTTAC-GACCTTTTGTTTTA-TCA
1 AAATAGTTATGACTATTTAAATAATTATCTATTTCAAA-TCATT-CTGACCTTTTG-TTTAGTCA
* * * ** *
112047 TAAAACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTT
63 TAAAAAAATTGTTTCAATTCATACAAGCTTAT-TTAAATAAAATAATACTACTTTATTAATA-TT
* ** *
112112 C-AAAAATTAAGAAGTTGGAGATTTAAAACATAAATCATTTTATAAAATCAATTT
126 CAAAAAATTAATAAGAAGGAGATTTAAAACATAAATCATTTTACAAAATCAATTT
* * * * * *
112166 AAATAGTTATGGCCATTTGAATAATTATCTATTTCAAATCATTTTGAACTTTTCATTT-GTCATA
1 AAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTCTGACCTTTT-GTTTAGTCATA
* * * *
112230 AAAAAATTGTTTTTC-A-TCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATATTT
65 AAAAAATTG--TTTCAATTCATACAAGCTTATTTA-AATAAAATAATACTACTTTATTAATATTC
*
112293 AAAAAATTAATAAGTAGGAGATT
127 AAAAAATTAATAAGAAGGAGATT
112316 ATCTATTTAC
Statistics
Matches: 270, Mismatches: 41, Indels: 37
0.78 0.12 0.11
Matches are distributed among these distances:
177 7 0.03
178 51 0.19
179 62 0.23
180 12 0.04
181 124 0.46
182 10 0.04
183 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATAA
AAAAATTGTTTCAATTCATACAAGCTTATTTAAATAAAATAATACTACTTTATTAATATTCAAAA
AATTAATAAGAAGGAGATTTAAAACATAAATCATTTTACAAAATCAATTT
Found at i:112240 original size:181 final size:177
Alignment explanation
Indices: 111807--112675 Score: 489
Period size: 181 Copynumber: 4.9 Consensus size: 177
111797 GAACCGGTTC
* * * *
111807 AAATAGTTAAGACTA-TTATAATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATA
1 AAATAGTTATGACCATTTA-AATAATTATCTATTTCAAATCATTATGACCTTTTATTT-GTCATA
* * * * * *
111871 AAATAATTG-TTCAATTCATACATGCTTATTTGAAATAAAATAATACTATTTTATTAACA-TTCA
64 AAAAAATTGTTTCATTTCATACAAGCTTA-TTAAAATAAAATAATACTACTTTATTAATATTTC-
** * * *
111934 AAAAATTAATAAG-CAAGGTATTAAAAATAAATTTGTTTACCAAATAAGTTT
127 AAAAATTAATAAGTGGAGAT-TTAAAAATAAATATGTTTACAAAATAAGTTT
* * * * * * *
111985 AAATAGTTATGACTATTTAAACAATTATC-ATTTTAAATTCGTTACGACCTTTTGTTTTATCATA
1 AAATAGTTATGACCATTTAAATAATTATCTATTTCAAA-TCATTATGACCTTTT-ATTTGTCATA
* * * *
112049 AAACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTTCA
64 AAAAAATTGTTTCATTTCATACAAGCTTAT-TAAAATAAAATAATACTACTTTATTAATATTTCA
* *
112114 AAAATTAAGAAGTTGGAGATTTAAAACATAAATCAT-TTTATAAAATCAA-TTT
128 AAAATTAATAAG-TGGAGATTTAAAA-ATAAAT-ATGTTTACAAAAT-AAGTTT
* * * *
112166 AAATAGTTATGGCCATTTGAATAATTATCTATTTCAAATCATTTTGAACTTTTCATTTGTCATAA
1 AAATAGTTATGACCATTTAAATAATTATCTATTTCAAATCATTATGACCTTTT-ATTTGTCATAA
* * * *
112231 AAAAATTGTTT--TTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATATTTA
65 AAAAATTGTTTCATT--TCATACAAG-CTTATTAAAATAAAATAATACTACTTTATTAATATTTC
* * * *
112294 AAAAATTAATAAGTAGGAGA-TT----AT--CTA--TTTACTGAACT-AGTTC
127 AAAAATTAATAAGT-GGAGATTTAAAAATAAATATGTTTAC-AAAATAAGTTT
* * * * * * * * * *
112337 AAGTAATTATGACTATTTAAATAATTATATATTTCAAGTCATGATAAGCTTTTGTTTTATCATAA
1 AAATAGTTATGACCATTTAAATAATTATCTATTTCAAATCATTATGACCTTTT-ATTTGTCATAA
* * * * * * *
112402 AACAATTATTT-ATGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATATTAT-
65 AAAAATTGTTTCAT-TTCATACAAGCTTATT-AAAATAAAATAATACTACTTTATTAATATT-TC
* * * * * **** ** *
112465 GAAAATTAATAATTAAGAGATTTGAAAAATAAATTTATTTGTTGAACCAGTTC
127 AAAAATTAATAAGT-GGAGATTT-AAAAATAAATATGTTTACAAAATAAGTTT
* * * * * *
112518 AAATAGTTA-AAGCTATATGAATAATTATCTATTTCAAATCGTTAT-ATTCTTTTATTTTGTCAT
1 AAATAGTTATGA-CCATTTAAATAATTATCTATTTCAAATCATTATGA-CCTTTTA-TTTGTCAT
* * * ** * * * *
112581 AAAACAAA-TGTTT-TTGTTAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAATATT
63 AAAA-AAATTGTTTCAT-TTCATACAAGCTT-ATTAAAATAAAATAATACTACTTTATTAATATT
**
112644 TTGAAAATTAATAA---GAGATTTAAAAAATAAAT
125 TCAAAAATTAATAAGTGGAGATTT-AAAAATAAAT
112676 TTATTTACCA
Statistics
Matches: 541, Mismatches: 111, Indels: 79
0.74 0.15 0.11
Matches are distributed among these distances:
170 6 0.01
171 116 0.21
172 8 0.01
173 2 0.00
175 2 0.00
177 26 0.05
178 49 0.09
179 61 0.11
180 16 0.03
181 237 0.44
182 18 0.03
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (177 bp):
AAATAGTTATGACCATTTAAATAATTATCTATTTCAAATCATTATGACCTTTTATTTGTCATAAA
AAAATTGTTTCATTTCATACAAGCTTATTAAAATAAAATAATACTACTTTATTAATATTTCAAAA
ATTAATAAGTGGAGATTTAAAAATAAATATGTTTACAAAATAAGTTT
Found at i:114880 original size:20 final size:20
Alignment explanation
Indices: 114855--114894 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
114845 TTATATTTTA
114855 ACTAATTACTAA-AATATTAT
1 ACTAATT-CTAATAATATTAT
*
114875 ACTAATTTTAATAATATTAT
1 ACTAATTCTAATAATATTAT
114895 TAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAATTCTAATAATATTAT
Found at i:114956 original size:22 final size:20
Alignment explanation
Indices: 114909--114964 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
114899 TTAATTATTA
*
114909 AAATCAATAATTAAATGATT
1 AAATTAATAATTAAATGATT
*
114929 AAATTAATAATATAAATTTATT
1 AAATTAATAAT-TAAA-TGATT
* *
114951 ATATTAATATTTAA
1 AAATTAATAATTAA
114965 TAGAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 7 0.23
22 13 0.43
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATTAATAATTAAATGATT
Found at i:115080 original size:22 final size:22
Alignment explanation
Indices: 115037--115080 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
115027 TAATTGTTTT
* * *
115037 AAATTATTTATTTAAATGATAA
1 AAATTATTGATATAAATAATAA
*
115059 AAATTATTGATATAATTAATAA
1 AAATTATTGATATAAATAATAA
115081 TATTATATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTATTGATATAAATAATAA
Found at i:115329 original size:17 final size:17
Alignment explanation
Indices: 115308--115352 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
115298 TGAAATTGTT
115308 AATATTAATAATAG-AA
1 AATATTAATAATAGTAA
115324 ATATATTAAT-AT-GTAA
1 A-ATATTAATAATAGTAA
115340 AATATTAATAATA
1 AATATTAATAATA
115353 ATATTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
AATATTAATAATAGTAA
Found at i:116439 original size:56 final size:54
Alignment explanation
Indices: 116377--116493 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 54
116367 TTTATTATTA
*
116377 AATAATTTGATTTATATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATAT
1 AATAA-TTGATTTAGATTTATATAATAA-TTTTTTAGCTCTTACTAATAAACATAT
*
116433 AAT-A---A-TTAGATTTATATAATAATTTTTTAGCTTTTACTAATAAACATAT
1 AATAATTGATTTAGATTTATATAATAATTTTTTAGCTCTTACTAATAAACATAT
*
116482 AACAATTAGATT
1 AATAATT-GATT
116494 AATTAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
49 28 0.54
50 17 0.33
51 1 0.02
54 1 0.02
55 2 0.04
56 3 0.06
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (54 bp):
AATAATTGATTTAGATTTATATAATAATTTTTTAGCTCTTACTAATAAACATAT
Found at i:116474 original size:49 final size:50
Alignment explanation
Indices: 116392--116502 Score: 181
Period size: 49 Copynumber: 2.3 Consensus size: 50
116382 TTTGATTTAT
*
116392 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAATAATTAG
1 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
*
116442 ATTTATATAATAA-TTTTTTAGCTTTTACTAATAAACATATAACAATTAG
1 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
*
116491 ATTAAT-TAATAA
1 ATTTATATAATAA
116503 AATTAATCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 6 0.10
49 39 0.67
50 13 0.22
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (50 bp):
ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
Found at i:117042 original size:7 final size:7
Alignment explanation
Indices: 117032--117077 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
117022 TTAGAAATTA
117032 AATATTT
1 AATATTT
117039 AATA-TT
1 AATATTT
117045 -ATATTT
1 AATATTT
117051 AATATTT
1 AATATTT
117058 AATATTT
1 AATATTT
117065 AATATTTT
1 AATA-TTT
117073 AATAT
1 AATAT
117078 AATATTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 22 0.61
8 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:117056 original size:19 final size:22
Alignment explanation
Indices: 117032--117077 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
117022 TTAGAAATTA
117032 AATATTTAATA-TT-ATA-TTT
1 AATATTTAATATTTAATATTTT
117051 AATATTTAATATTTAATATTTT
1 AATATTTAATATTTAATATTTT
117073 AATAT
1 AATAT
117078 AATATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 3 0.12
22 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATTTAATATTTAATATTTT
Found at i:117085 original size:26 final size:26
Alignment explanation
Indices: 117033--117083 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
117023 TAGAAATTAA
*
117033 ATATTTAATATTATATTTAATATTTA
1 ATATTTAATATTATATATAATATTTA
*
117059 ATATTTAATATTTTAATATAATATT
1 ATATTTAATATTAT-ATATAATATT
117084 AAATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATTTAATATTATATATAATATTTA
Found at i:117689 original size:21 final size:20
Alignment explanation
Indices: 117650--117701 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
117640 TTATTTATCT
*
117650 TTATAAATT-ATATTATAAC
1 TTATAAATTAATAGTATAAC
117669 TAGTATAAATTAATAGT-TAAC
1 T--TATAAATTAATAGTATAAC
117690 TTATAAA-TAATA
1 TTATAAATTAATA
117702 ATTCCTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
21 13 0.45
22 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
TTATAAATTAATAGTATAAC
Found at i:117854 original size:17 final size:17
Alignment explanation
Indices: 117826--117867 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
117816 TATTTTATTT
*
117826 ATATTAATAAAT-AATTA
1 ATATT-ATAAATGAATAA
117843 ATAATTATAAATGAATAA
1 AT-ATTATAAATGAATAA
117861 ATATTAT
1 ATATTAT
117868 TGATTAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTATAAATGAATAA
Found at i:117937 original size:22 final size:22
Alignment explanation
Indices: 117907--117955 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
117897 AATTTTTTGA
117907 AATTATAATACTTAA-ATTAAAT
1 AATTATAAT-CTTAATATTAAAT
* *
117929 AATTTTAATTTTAATATTAAAT
1 AATTATAATCTTAATATTAAAT
*
117951 TATTA
1 AATTA
117956 AAATGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATAATCTTAATATTAAAT
Found at i:118625 original size:181 final size:177
Alignment explanation
Indices: 118268--118702 Score: 433
Period size: 181 Copynumber: 2.4 Consensus size: 177
118258 TAATAAGTAG
* * * * * * *
118268 GAGATTTAAAAAATAAATTTATTTATCGAATCAGTTTAAATAGTTATGACTATTTGAACAATTAT
1 GAGATTTAAAAAATAAATTTATTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAATTAT
* * *
118333 ATATTTCCAATTGTTATAACCTTTTGTTTTGCCATAAAACAATTATTTATCTTCATACAAGCTTA
66 ATATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAAACAAATATTTATCTTCATACAAGCTTA
* *
118398 TTCGAAATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAA
131 TTCGAAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAA
* * * *
118445 TTGATAGATTTAAAAAATAAATTTGTTTACCAAACCAATTCAACTAGTTAAGGCTATATGAATAA
1 --G--AGATTTAAAAAATAAATTTATTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAA
* * * * * **
118510 TTATCTATTTCAAATCGTTATAACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCATGTAAG
62 TTATATATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAAACAAATATTTATCTTCATACAAG
* * * * * * *
118575 TTTGTTCGAAATAAAATAGTATTAATTTATTGATATT-TCAAAAATTAATAA
127 CTTATTCGAAATAAAATAATACTAATCTAGTAATATTAT-AAAAATTAATAA
* * ** * * * * * *
118626 GAGATTTAATAAATAAATCTATTTACCATTCTAGTTCAATTAGTTATA-ACAATTTGAACATTTA
1 GAGATTTAAAAAATAAATTTATTTACCAAACCAATTCAAATAGTTA-AGACTATATGAACAATTA
*
118690 TCTATTTCAAATC
65 TATATTTCAAATC
118703 TTACTAAATT
Statistics
Matches: 209, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
177 61 0.29
178 1 0.00
179 2 0.01
180 1 0.00
181 144 0.69
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (177 bp):
GAGATTTAAAAAATAAATTTATTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAATTAT
ATATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAAACAAATATTTATCTTCATACAAGCTTA
TTCGAAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAA
Found at i:119667 original size:13 final size:13
Alignment explanation
Indices: 119649--119682 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
119639 ATTAAATGAA
119649 TATAATATTAAAT
1 TATAATATTAAAT
*
119662 TATAATATTTAAT
1 TATAATATTAAAT
119675 TCATAATA
1 T-ATAATA
119683 CTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATATTAAAT
Found at i:121933 original size:11 final size:11
Alignment explanation
Indices: 121902--121959 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
121892 ATTATTATTA
*
121902 TAATAATTACT
1 TAATAATTAAT
121913 ATATATAATTAAT
1 -TA-ATAATTAAT
121926 TAATAATTAAT
1 TAATAATTAAT
* *
121937 TAATTATAAAT
1 TAATAATTAAT
* *
121948 TATTAATAAAT
1 TAATAATTAAT
121959 T
1 T
121960 TAAAAAAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
11 28 0.70
12 4 0.10
13 8 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATAATTAAT
Found at i:122886 original size:17 final size:19
Alignment explanation
Indices: 122864--122901 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
122854 AAAGTTTAAA
122864 AAATA-TTTT-ATTATTAT
1 AAATATTTTTAATTATTAT
122881 AAATATTTTTAATTATTAT
1 AAATATTTTTAATTATTAT
122900 AA
1 AA
122902 TTATAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATATTTTTAATTATTAT
Found at i:123847 original size:32 final size:32
Alignment explanation
Indices: 123786--123847 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
123776 AATATTTTAA
*
123786 TTATTTTAAATTAAATTAAAATTATTTAATTT
1 TTATTTTAAATTAAATTAAAATTAATTAATTT
* *
123818 TTATTTTAATATT-AATTAGATTTAATTAAT
1 TTATTTTAA-ATTAAATTAAAATTAATTAAT
123848 AAATATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
TTATTTTAAATTAAATTAAAATTAATTAATTT
Found at i:123947 original size:13 final size:12
Alignment explanation
Indices: 123897--123950 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 12
123887 GAATTAGAGT
*
123897 AATAATTATAAAA
1 AATAATTAT-TAA
*
123910 AATAATTATTTA
1 AATAATTATTAA
123922 AATAATTATTAA
1 AATAATTATTAA
*
123934 AATCAATAATTAA
1 AAT-AATTATTAA
123947 AATA
1 AATA
123951 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 16 0.44
13 20 0.56
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAATTATTAA
Found at i:123949 original size:25 final size:25
Alignment explanation
Indices: 123897--123950 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
123887 GAATTAGAGT
* *
123897 AATAATTATAAAAAATAATTATTTA
1 AATAATTATAAAAAATAATAATTAA
*
123922 AATAATTAT-TAAAATCAATAATTAA
1 AATAATTATAAAAAAT-AATAATTAA
123947 AATA
1 AATA
123951 TTTTGAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATTATAAAAAATAATAATTAA
Found at i:124875 original size:17 final size:18
Alignment explanation
Indices: 124833--124881 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
124823 TTTAATAATT
* *
124833 ATTATTATA-AATAATAA
1 ATTATTATATATTTATAA
124850 ATTATTATA-ATTTATAA
1 ATTATTATATATTTATAA
124867 ATT-TATATATATTTA
1 ATTAT-TATATATTTA
124882 ATATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 22 0.79
18 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTATTATATATTTATAA
Found at i:124881 original size:18 final size:17
Alignment explanation
Indices: 124833--124869 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
124823 TTTAATAATT
* *
124833 ATTATTATAAATAATAA
1 ATTATTATAATTTATAA
124850 ATTATTATAATTTATAA
1 ATTATTATAATTTATAA
124867 ATT
1 ATT
124870 TATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATTATAATTTATAA
Found at i:125012 original size:18 final size:18
Alignment explanation
Indices: 124991--125054 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
124981 TATATTATTT
124991 TAATATAATA-ATAAATAA
1 TAAT-TAATATATAAATAA
* *
125009 TAATTACTATATTAATAA
1 TAATTAATATATAAATAA
*
125027 TAATT--TAT-T-AATAG
1 TAATTAATATATAAATAA
125041 TAATTAATATATAA
1 TAATTAATATATAA
125055 CAATTAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 9 0.24
15 1 0.03
16 6 0.16
17 5 0.13
18 17 0.45
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATTAATATATAAATAA
Found at i:125293 original size:26 final size:26
Alignment explanation
Indices: 125245--125294 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
125235 AGTATAATTA
* *
125245 TTTAAAATTTATTTAAATTTTAAAAT
1 TTTAAAATTTATTGAAATGTTAAAAT
125271 TTTAAAATTT-TTGAAATAGTTAAA
1 TTTAAAATTTATTGAAAT-GTTAAA
125295 TTTATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTAAAATTTATTGAAATGTTAAAAT
Found at i:125746 original size:18 final size:18
Alignment explanation
Indices: 125725--125760 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
125715 TATAATAATA
*
125725 GATATAATAATAAGCTAT
1 GATAAAATAATAAGCTAT
*
125743 GATAAAATAGTAAGCTAT
1 GATAAAATAATAAGCTAT
125761 TTTTTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.31
Consensus pattern (18 bp):
GATAAAATAATAAGCTAT
Found at i:127076 original size:19 final size:18
Alignment explanation
Indices: 127011--127076 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
127001 TAATAATATT
*
127011 ATTATTAATTAATATTAA
1 ATTATAAATTAATATTAA
* *
127029 ATTTATGAATATTGATTTTAA
1 A-TTAT-AA-ATTAATATTAA
*
127050 TTTA-AAATTAATAATTAA
1 ATTATAAATTAAT-ATTAA
127068 ATTATAAAT
1 ATTATAAAT
127077 AGTATAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 8 0.22
20 4 0.11
21 9 0.25
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
ATTATAAATTAATATTAA
Found at i:127265 original size:23 final size:22
Alignment explanation
Indices: 127236--127292 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
127226 AATAATTTAT
* *
127236 TAATAATTATTATCAGATATAA
1 TAATAATTATAATCAAATATAA
* *
127258 TAATTAATTATAATTAAATATAT
1 TAA-TAATTATAATCAAATATAA
127281 TAATAATTATAA
1 TAATAATTATAA
127293 CCTAATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATAATTATAATCAAATATAA
Found at i:127526 original size:25 final size:23
Alignment explanation
Indices: 127497--127558 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
127487 TATTGAAATA
127497 ATAATTATTTAATAATAATTATATT
1 ATAATTATTTAATAATAA-TA-ATT
*
127522 ATAATTATTTAA-AATTATAATT
1 ATAATTATTTAATAATAATAATT
127544 ATAATATAGTTTAAT
1 ATAAT-TA-TTTAAT
127559 TGAATTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.24
23 4 0.12
24 9 0.27
25 12 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTATTTAATAATAATAATT
Found at i:127564 original size:27 final size:21
Alignment explanation
Indices: 127513--127557 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
127503 ATTTAATAAT
127513 AATTATATTATAATTATTTAA
1 AATTATATTATAATTATTTAA
127534 AATTATAATTATAATATAGTTTAA
1 AATTAT-ATTATAAT-TA-TTTAA
127558 TTGAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 2 0.10
24 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTATATTATAATTATTTAA
Found at i:127778 original size:16 final size:15
Alignment explanation
Indices: 127748--127781 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
127738 TATTTATTTC
*
127748 AATAATAAGAATTAT
1 AATAATAACAATTAT
127763 AATAATAAACAATTAT
1 AATAAT-AACAATTAT
127779 AAT
1 AAT
127782 TATTAGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
AATAATAACAATTAT
Found at i:127826 original size:48 final size:47
Alignment explanation
Indices: 127774--127900 Score: 121
Period size: 48 Copynumber: 2.6 Consensus size: 47
127764 ATAATAAACA
*
127774 ATTATAATTATTAGTAATAATTTAATAAAATAGTTATAGTAGTATAAT
1 ATTATAATTATTA-TAATAATTTAATAAAATAATTATAGTAGTATAAT
* * * * *
127822 ATTATAATAATTTATAAT-ATTTTATGATAATAATTATAGTATTATATT
1 ATTATAATTA-TTATAATAATTTAAT-AAAATAATTATAGTAGTATAAT
127870 ATTAATAATATAAATTATAATAATTATAATA
1 ATT-ATAAT-T--ATTATAATAATT-TAATA
127901 TTATTTAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
47 6 0.10
48 34 0.54
49 8 0.13
51 7 0.11
52 5 0.08
53 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (47 bp):
ATTATAATTATTATAATAATTTAATAAAATAATTATAGTAGTATAAT
Found at i:127855 original size:23 final size:23
Alignment explanation
Indices: 127820--127878 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
127810 TAGTAGTATA
*
127820 ATATTATAATAATTTATAATATT
1 ATATGATAATAATTTATAATATT
* *
127843 TTATGATAATAA-TTATAGTATT
1 ATATGATAATAATTTATAATATT
*
127865 ATATTATTAATAAT
1 ATATGA-TAATAAT
127879 ATAAATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATGATAATAATTTATAATATT
Found at i:127931 original size:10 final size:10
Alignment explanation
Indices: 127820--127931 Score: 53
Period size: 10 Copynumber: 11.4 Consensus size: 10
127810 TAGTAGTATA
127820 ATATTATAAT
1 ATATTATAAT
127830 A-ATTTATAAT
1 ATA-TTATAAT
* *
127840 ATTTTATGAT
1 ATATTATAAT
* *
127850 A-ATAATTAT
1 ATATTATAAT
127859 AGTATTAT-AT
1 A-TATTATAAT
127869 -TATTAATAAT
1 ATATT-ATAAT
127879 ATAAATTATAAT
1 AT--ATTATAAT
127891 A-ATTATAAT
1 ATATTATAAT
127900 ATTATT-TAAT
1 A-TATTATAAT
*
127910 -T-TTATTGA-
1 ATATTA-TAAT
127918 ATATTATAAT
1 ATATTATAAT
127928 ATAT
1 ATAT
127932 AAATTATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 32
0.66 0.07 0.27
Matches are distributed among these distances:
7 2 0.03
8 5 0.06
9 23 0.29
10 31 0.40
11 8 0.10
12 6 0.08
13 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
ATATTATAAT
Found at i:127946 original size:9 final size:8
Alignment explanation
Indices: 127774--127951 Score: 83
Period size: 8 Copynumber: 22.1 Consensus size: 8
127764 ATAATAAACA
127774 ATTATAATT
1 ATTATAA-T
127783 ATTAGTAAT
1 ATTA-TAAT
127792 AATT-TAAT
1 -ATTATAAT
127800 A--A-AAT
1 ATTATAAT
*
127805 AGTTATAGT
1 A-TTATAAT
*
127814 AGTATAAT
1 ATTATAAT
127822 ATTATAAT
1 ATTATAAT
127830 AATTTATAAT
1 -A-TTATAAT
127840 ATT-T--T
1 ATTATAAT
*
127845 ATGATAAT
1 ATTATAAT
*
127853 AATTATAGT
1 -ATTATAAT
*
127862 ATTATATT
1 ATTATAAT
127870 A-T-TAAT
1 ATTATAAT
*
127876 AATATAA-
1 ATTATAAT
127883 ATTATAAT
1 ATTATAAT
127891 AATTATAAT
1 -ATTATAAT
127900 ATTATTTAAT
1 ATTA--TAAT
*
127910 TTTATTGAAT
1 ATTA-T-AAT
127920 ATTATAAT
1 ATTATAAT
127928 A-TATAA-
1 ATTATAAT
127934 ATTATAAAT
1 ATTAT-AAT
*
127943 ATTAAAAT
1 ATTATAAT
127951 A
1 A
127952 ATTACTACAA
Statistics
Matches: 133, Mismatches: 13, Indels: 47
0.69 0.07 0.24
Matches are distributed among these distances:
5 7 0.05
6 6 0.05
7 18 0.14
8 45 0.34
9 31 0.23
10 26 0.20
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (8 bp):
ATTATAAT
Found at i:128064 original size:26 final size:27
Alignment explanation
Indices: 127980--128100 Score: 72
Period size: 24 Copynumber: 4.9 Consensus size: 27
127970 TTATTTATGA
127980 TATAAATAATAATT-T-TA-TATACAAT
1 TATAAATAATAATTATATATTATA-AAT
*
128005 TAGT-AATAA-AATTAAATAATT-TAAA-
1 TA-TAAATAATAATTATAT-ATTATAAAT
*
128030 TA-ATA-AATAATTATATATTATAAAT
1 TATAAATAATAATTATATATTATAAAT
* *
128055 TAT-ATTAATAATT-TA-ATAAT-AAT
1 TATAAATAATAATTATATATTATAAAT
*
128078 TATAAATAA-AATTATATAATATA
1 TATAAATAATAATTATATATTATA
128101 CTTAATTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 29
0.65 0.08 0.26
Matches are distributed among these distances:
23 15 0.21
24 26 0.36
25 16 0.22
26 11 0.15
27 3 0.04
28 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
TATAAATAATAATTATATATTATAAAT
Found at i:128155 original size:18 final size:19
Alignment explanation
Indices: 128122--128157 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
128112 AGTTAATTGA
*
128122 CTTGTTCTAATAAATTAAG
1 CTTGTACTAATAAATTAAG
128141 CTTGTACTAAT-AATTAA
1 CTTGTACTAATAAATTAA
128158 TAGTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
CTTGTACTAATAAATTAAG
Found at i:128249 original size:26 final size:25
Alignment explanation
Indices: 128220--128297 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
128210 TTAAATCTCT
*
128220 ATAAATAATATTATTTATATTATATG
1 ATAAATAATA-TATTTATATTATATA
* * * *
128246 ATAATTATTATATATATACTTAGATA
1 ATAAATAATATATTTATA-TTATATA
128272 ATAAATAAGTAATATTTAT-TTATATA
1 ATAAATAA-T-ATATTTATATTATATA
128298 TTTATAGAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 7 0.17
26 25 0.62
27 1 0.03
28 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (25 bp):
ATAAATAATATATTTATATTATATA
Found at i:129123 original size:11 final size:11
Alignment explanation
Indices: 129092--129126 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
129082 ATTTAATAAT
*
129092 ATTAAAAATAA
1 ATTAAAATTAA
129103 ATTAATAATTAA
1 ATTAA-AATTAA
129115 ATTAAAATTAA
1 ATTAAAATTAA
129126 A
1 A
129127 ATCCTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATTAAAATTAA
Found at i:129256 original size:18 final size:18
Alignment explanation
Indices: 129235--129308 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
129225 AGTATTATTA
129235 TTTAATTATTAATTAAAT
1 TTTAATTATTAATTAAAT
* *
129253 TTTAAATATTAATTTGAAT
1 TTTAATTATTAA-TTAAAT
*
129272 TATCAATTTATTTAATTAAAT
1 T-TTAA-TTA-TTAATTAAAT
* * *
129293 ATAAATTAATAATTAA
1 TTTAATTATTAATTAA
129309 CAATTAATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
18 18 0.41
19 9 0.20
20 6 0.14
21 7 0.16
22 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (18 bp):
TTTAATTATTAATTAAAT
Found at i:129840 original size:25 final size:24
Alignment explanation
Indices: 129799--129848 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
129789 ATTTAATTAA
129799 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTA-TATTAAAT
* * *
129824 ATATTTTTACTAGTTATATTTAAT
1 ATATTTTTAATAATTATATTAAAT
129848 A
1 A
129849 CTATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTTTAATAATTATATTAAAT
Found at i:129873 original size:20 final size:20
Alignment explanation
Indices: 129850--129909 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
129840 TATTTAATAC
129850 TATAATATAATCTTTATATT
1 TATAATATAATCTTTATATT
* *
129870 TATAA-ATAGTCTATAATATTT
1 TATAATATAATCT-TTATA-TT
* *
129891 TATAATATTATATTTATAT
1 TATAATATAATCTTTATAT
129910 AATATTATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 6 0.19
20 10 0.32
21 11 0.35
22 4 0.13
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
TATAATATAATCTTTATATT
Found at i:129918 original size:14 final size:15
Alignment explanation
Indices: 129885--129917 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
129875 ATAGTCTATA
129885 ATATTTTATAATATT
1 ATATTTTATAATATT
129900 ATATTTATATAATATT
1 ATATTT-TATAATATT
129916 AT
1 AT
129918 TCAAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTTATAATATT
Found at i:131819 original size:23 final size:23
Alignment explanation
Indices: 131767--131832 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
131757 ATTTACTAAA
* *
131767 TATTATAAATAGTTATTAATAAT
1 TATTATAAATAGTTATGAATAAC
* *
131790 TAATATACTATAGTT-TGAATAAC
1 TATTATA-AATAGTTATGAATAAC
*
131813 TATTATAAATATTTAT-AATA
1 TATTATAAATAGTTATGAATA
131833 TATTAATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 9 0.26
23 19 0.56
24 6 0.18
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (23 bp):
TATTATAAATAGTTATGAATAAC
Found at i:131834 original size:15 final size:15
Alignment explanation
Indices: 131814--131854 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
131804 TTGAATAACT
131814 ATTATAAATATTTATA
1 ATTATAAATATTTA-A
*
131830 ATATATTAATATTTAA
1 AT-TATAAATATTTAA
131846 ATTATAAAT
1 ATTATAAAT
131855 TATCGTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 5 0.23
17 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAAATATTTAA
Found at i:132418 original size:16 final size:16
Alignment explanation
Indices: 132378--132421 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
132368 ATATCTATTA
*
132378 ATTAATAAAAATCAAT
1 ATTAATAAATATCAAT
*
132394 ATTCATAAATAT-AAT
1 ATTAATAAATATCAAT
132409 ATTAATTAAATAT
1 ATTAA-TAAATAT
132422 GTTTATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAATAAATATCAAT
Found at i:132609 original size:19 final size:16
Alignment explanation
Indices: 132567--132611 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
132557 TATAAATTTA
132567 AATAATTA-ATATTAT
1 AATAATTATATATTAT
132582 AATAATTATATATTATT
1 AATAATTATATATTA-T
132599 AATTAATT-TATAT
1 AA-TAATTATATAT
132612 CTAAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 8 0.30
18 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATAATTATATATTAT
Found at i:132954 original size:21 final size:21
Alignment explanation
Indices: 132903--132958 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
132893 TTTGTAATTT
* *
132903 TTTATTAAATTAATCTTATAA
1 TTTATTTAATTAATATTATAA
* ** *
132924 ATTAACTAATTAATATTATTA
1 TTTATTTAATTAATATTATAA
132945 TTTATTTAA-TAATA
1 TTTATTTAATTAATA
132959 GTTGATATAA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATTTAATTAATATTATAA
Found at i:134047 original size:182 final size:179
Alignment explanation
Indices: 133673--134251 Score: 466
Period size: 182 Copynumber: 3.2 Consensus size: 179
133663 GTATGTTGAA
* ** * * *
133673 AAAACAATTGTTTTATGACAAAATGAAAGGT-AATAATGATTTGAAATAGATAATTGTTCAAATG
1 AAAACAATTGTTTTATGACAAAA-CAAAAATCAA-AATGATTTTAAATAGATAATTATTCAAATA
* * * ** *
133737 A-CTATAATTATTTAAACTAAGTCTG-TAAACTGATTTATTTTT-TAA-AT-CT-C---TTAATT
64 ATC-ATAACTATTTGAACTAA-T-TGACAAACAAATTTATTTTTCAAATATCCTACTTATTAATT
* * * * * * * * *
133793 TTCAAAATATTAAGAAAAGTAGTATTATTTTATTTTGGATAAACTTTTGTGAACT
126 TTCAAAATATTAA-TAAATTAGTATTATTTTCTTTCGAATAAGCTTATATGAATT
* * * *
133848 AAAACAATTGTTTTATGAGAAAACAAAAATTCACAATGATTTTAAATAGATAATTGTTCAAATAG
1 AAAACAATTGTTTTATGACAAAACAAAAA-TCAAAATGATTTTAAATAGATAATTATTCAAATAA
** * *
133913 TCATAACTATTTGAACTTGTTCGATAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTT
65 TCATAACTATTTGAACTAATT-GACAAACAAATTTA-TTTTTCAAATATCCTACTTATTAAT-TT
* * *
133978 TCAAAA-GTTAATATATTAGTATTATTTTCTTTCGAATAAGCTTGTATGAATT
127 TCAAAATATTAATAAATTAGTATTATTTTCTTTCGAATAAGCTTATATGAATT
* * ** * * * *
134030 GAAACAATTATTTTATGATTAAACAAAAGGTCAAAACGATTTGAAATAGATAATTATTCTAATAA
1 AAAACAATTGTTTTATGACAAAACAAAA-ATCAAAATGATTTTAAATAGATAATTATTCAAATAA
* * * * * * *
134095 TCTTAACTATTTGAACTAATTGGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTTA
65 TCATAACTATTTGAACTAATTGACAAACAAATTTATTTTTCAAATATCCTACTTATTAATTTTCA
* * *
134160 AAATATTATTAAATTAGTATTA--TTCTTATCTGAATCAGCTTATATG-ATAA
130 AAATATTAATAAATTAGTATTATTTTCTT-TC-GAATAAGCTTATATGAAT-T
* *
134210 AAAACAATTGTTTTATGACAAAACAAAGATCATAATGATTTT
1 AAAACAATTGTTTTATGACAAAACAAAAATCAAAATGATTTT
134252 TGAAATATTA
Statistics
Matches: 322, Mismatches: 63, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
173 1 0.00
174 5 0.02
175 74 0.23
176 7 0.02
177 2 0.01
178 7 0.02
179 23 0.07
180 73 0.23
181 11 0.03
182 102 0.32
183 9 0.03
184 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (179 bp):
AAAACAATTGTTTTATGACAAAACAAAAATCAAAATGATTTTAAATAGATAATTATTCAAATAAT
CATAACTATTTGAACTAATTGACAAACAAATTTATTTTTCAAATATCCTACTTATTAATTTTCAA
AATATTAATAAATTAGTATTATTTTCTTTCGAATAAGCTTATATGAATT
Found at i:134496 original size:274 final size:274
Alignment explanation
Indices: 133985--134502 Score: 609
Period size: 274 Copynumber: 1.9 Consensus size: 274
133975 CTTTCAAAAG
* * * * **
133985 TTAATATATTAGTATTATTTTCTTTCGAATAAGCTTGTATGAATTGAAACAATTATTTTATGATT
1 TTAATAAAGTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTATTTTATGACA
* * * * *
134050 AAACAAAAGGTCAAAACGATTTGAAATAGATAATTATTCTAATAATCTTAACTATTTGAACTAAT
66 AAACAAAAGCTCAAAACAATTTAAAATAGATAATTATTCTAATAATCATAACTATTTGAAATAAT
* *
134115 TGGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTAT
131 TAGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTAT
** *
134180 TATTCTTATCTGAATCAGCTTATATGATAAAAAACAATTGTTTTATGACAAAACAAAGATCATAA
196 TATTCTTATCCAAATAAGCTTATATGATAAAAAACAATTGTTTTATGACAAAACAAAGATCATAA
134245 TGATTTTTGAAATA
261 TGATTTTTGAAATA
* * * * *
134259 TTAATAAAGTAGTATTATTTTATTTC-AGATAAGTTTTTATTAACTGAAACAATTGTTTTATTAC
1 TTAATAAAGTAGTATTATTTTATTTCGA-ATAAGCTTGTATGAACTGAAACAATTATTTTATGAC
* * * * *
134323 AAAACAAAATCTCAAAATAATTTAAAATAGATAATTATT-TAAATAGTCATATCTATTTGAAATT
65 AAAACAAAAGCTCAAAACAATTTAAAATAGATAATTATTCT-AATAATCATAACTATTTGAAATA
* * * * * *
134387 GTTCAGTAAACAGATTTATTTTTTTAAATCTCTTGC-T-TTAATTTTTTGAAA-GTTAATAAATT
129 ATT-AGCAAACACATTTA-TTTTTTAAATCTCTTACTTATTAA-TTTTTAAAATATTAATAAATT
* **
134449 AGTATTATT-TTATTCCAAATAAGCTTATATGA-ACTAAAATGATTGTTTTATGAC
191 AGTATTATTCTTA-TCCAAATAAGCTTATATGATA-AAAAACAATTGTTTTATGAC
134503 TAAATAAAAG
Statistics
Matches: 202, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
273 6 0.03
274 160 0.79
275 20 0.10
276 16 0.08
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (274 bp):
TTAATAAAGTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTATTTTATGACA
AAACAAAAGCTCAAAACAATTTAAAATAGATAATTATTCTAATAATCATAACTATTTGAAATAAT
TAGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTAT
TATTCTTATCCAAATAAGCTTATATGATAAAAAACAATTGTTTTATGACAAAACAAAGATCATAA
TGATTTTTGAAATA
Found at i:134561 original size:180 final size:177
Alignment explanation
Indices: 134247--134815 Score: 590
Period size: 180 Copynumber: 3.2 Consensus size: 177
134237 GATCATAATG
* * * * * *
134247 ATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTATTAACTGAAACAAT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTGAAACAAT
* * ** * * *
134312 TGTTTTATTACAAAACAAAATCTCAAAATAATTTAAAATAGATAATTATT-TAAATAGTCATATC
66 TGTTTTATGACAAAATAAAAGATCAAAATGATTTGAAATAGATAATTATTCT-AATAGTCATAAC
* * * *
134376 TATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAATCTCTTGCTTTA
130 TATTTGAACTAGTTAAGTAAACAGATTTA-TTTTTTAAATCTCTT--ATTA
* * **
134427 ATTTTTTGAAA-GTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAAATGA
1 A-TTTTTGAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTGAAACAA
* * * *
134491 TTGTTTTATGACTAAATAAAAGGAT-AGAATGATTTGAAATAGATAATTATTCTGATAGTCTTAA
65 TTGTTTTATGACAAAATAAAA-GATCAAAATGATTTGAAATAGATAATTATTCTAATAGTCATAA
** *
134555 CTATTTGAACTAGTTTGGCT-AACATATTTATTTTTTAAATCTCTTATTA
129 CTATTTGAACTAGTTAAG-TAAACAGATTTATTTTTTAAATCTCTTATTA
* * * * * **
134604 ATTTTTGAAATATTATTAAATCAGTATCATTTTAATCCAAATAAGCTTGTATGAAAGGAAACAAT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTGAAACAAT
* ** * * * *
134669 TGTTGTATGACAAAAT-AAAGATCATTATGATTTGAGATAAATAATTGTTCAAATAGTCATAACT
66 TGTTTTATGACAAAATAAAAGATCAAAATGATTTGAAATAGATAATTATTCTAATAGTCATAACT
* * *
134733 ATTTGAACTGGTTAAGTAAATAGATTTAGTTTTTAAATCTCTTATTA
131 ATTTGAACTAGTTAAGTAAACAGATTTATTTTTTAAATCTCTTATTA
** * **
134780 ATTTTCAAAATATTAATAAATCAAAATTATTTTATT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATT
134816 TTGAATAATT
Statistics
Matches: 321, Mismatches: 61, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
175 4 0.01
176 113 0.35
177 61 0.19
179 15 0.05
180 116 0.36
181 12 0.04
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (177 bp):
ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTGAAACAAT
TGTTTTATGACAAAATAAAAGATCAAAATGATTTGAAATAGATAATTATTCTAATAGTCATAACT
ATTTGAACTAGTTAAGTAAACAGATTTATTTTTTAAATCTCTTATTA
Found at i:134845 original size:85 final size:87
Alignment explanation
Indices: 134748--134912 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 87
134738 AACTGGTTAA
*
134748 GTAAATAGATTTAGTTTTTAAATCT-CT-TATTAATTTTCAAAATATTAATAAA-TCAAAATTAT
1 GTAAATAGATTTAGTTTTTAAATCTCCTCTATTAATTTGCAAAATATTAATAAAGT-AAAATTAT
134810 TTTATTTTGAATAATTCTATTTG
65 TTTATTTTGAATAATTCTATTTG
* **
134833 GTAAATAGATTTATTTTTTAAATCTCCTACCTATTAATTTGCAAAATATTAATAAAGTAGTATTA
1 GTAAATAGATTTAGTTTTTAAATCTCCT--CTATTAATTTGCAAAATATTAATAAAGTAAAATTA
134898 TTTTATTTTGAATAA
64 TTTTATTTTGAATAA
134913 ACTTGTATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
85 24 0.34
86 2 0.03
89 44 0.62
90 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (87 bp):
GTAAATAGATTTAGTTTTTAAATCTCCTCTATTAATTTGCAAAATATTAATAAAGTAAAATTATT
TTATTTTGAATAATTCTATTTG
Found at i:136985 original size:182 final size:181
Alignment explanation
Indices: 134841--137060 Score: 1252
Period size: 181 Copynumber: 12.2 Consensus size: 181
134831 TGGTAAATAG
* * *** *
134841 ATTTATTTTTTAAATCTCCTACCTATTAATTTGCAAAATATTAATAAAGTAGTATTATTTTATTT
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * * * **
134906 TGAATAAACTTGTAT-AAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAACT-ATTAG
66 TGGATAAGCTTGTATGAACT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-TGATTTT
* * * * ** ** * *
134969 AAATAAAAAATTGTTCAAATAGTTATAACTATTTGAGCTTACTCGGTAAATAG
129 AAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAA
* * * *
135022 ATTTATTTTTTAAATCTTTTACTTATTAATTGTTGGAATATTATTAAATTAGTATTATTTTATTT
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * ** * ** * * *
135087 TGAATAAGCTTATAT-AGACAAAAACAATTGGTCCATCACAAAAGAAAAGGTCATAACT-ATTTG
66 TGGATAAGCTTGTATGA-ACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-TGATTTT
* * **
135150 AAATAGATAATTGTTCAAATAGTCA-AATCTATTTGAACATGTTCAAAAAACAA
129 AAATAGATAATTGTTCAAATAGTCATAA-CTATTTGAACTTGTTTAGTAAACAA
* * *
135203 ATTTATTTTTAAAAT-TTTTACTTATTAAATTTT-AGAATATTAATAAATT--TAATTATTTTA-
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGT-ATTATTTTAT
* * * * *
135263 TTCGAAATAAGCTTGTATGGA-TAGAAACAATTAG-TTTATCACAAAATAAAAGGTCATAACT-A
64 TTTG-GATAAGCTTGTATGAACT-GAAACAATT-GTTTTATGACAAAACAAAAGGTCATAA-TGA
* * * * ** * * * * *
135325 TTTGAAATAAATAATTGTTCAAATAATCAGAACCCTTCGAACATG-TTCGAAAAATAA
125 TTTTAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAG-TAAACAA
* * * * *
135382 ATTTATTTTTAAAAT-TTTTACTTATTAAATTTTGGAATATTAATTAATT--TAATTATTTTA-T
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGT-ATTATTTTATT
* * * * * *
135443 TCGAAACAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTG
65 TTG-GATAAGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTT
* * * *
135508 AAATATATAATTGTTCAAATAGTCATCACTATTT-AAGCTTGTTCAGTAAACAG
129 AAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-CTTGTTTAGTAAACAA
* * * * * *
135561 ATTCATTTTTTTAAATCTTTTACTCATTAGTTTTAG-AATATTAATAAATTAGTAATATTTTATT
1 ATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
* * * * * * * *
135625 TCGAATAAGCCTATATGAATTGATACAATTGTTTTATGACAAAACAATAGGTCATAATGATTTGA
65 TTGGATAAGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTA
* * * * ** * **
135690 AATAGATAGTTATTCAAATAGTTATGAA-TATTTGAA-TTATACAAT-TTCAA
130 AATAGATAATTGTTCAAATAGTCAT-AACTATTTGAACTTGTTTAGTAAACAA
* ** ** ** *
135740 ATTCAATTGTTTTTAAATCT-TTA-TTAACAA--AAT-AAATCTATTTTTAGAATAAG--TTATA
1 ATT-TA-T-TTTTTAAATCTCTTACTTATTAATTTTTGAAA--TATTAATA-AATTAGTATTAT-
* * * * *** *
135798 TCTA-ATT--ATAAGATTAAGTAAT-AAGT-TCCCAATTATTGATT-TGA-ATAAACATATTTAA
59 TTTATTTTGGATAAGCTT--GT-ATGAACTGAAACAATTGTT--TTATGACA-AAACA-A---AA
* * * * * * * * * * * * ** *
135856 -TTAATATTAAATTTAGGAATATTGAT-TTTAATTTAAATATTTTAATTATTGATTTTTA-TTAA
114 GGTCATAATGATTTTA--AATA--GATAATT-GTTCAAATA--GTCATAACT-ATTTGAACTT-G
*
135918 TTAATAGATATCTAAAAA
170 TT--TAG-TA---AACAA
* * * * *
135936 GATTTATTTTTTAGA--TC-TA-TTATTAATTTTTAAAATATTAATAGAGTAGTATTAATTTATT
1 -ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
** * * * * ** * * * *
135997 CCGAACAAACTTATAT-AGACAAAAACATTTGTTTTATAACAAAACAAAAGGTCATAATTATTTG
65 TTGGATAAGCTTGTATGA-ACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTT
* * * ** **
136061 AAATAAATAATTGTTCAAATAATCATAAGTATTTGAAC-TACTTAGGTAAGTAGA
129 AAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTA-GTAAACA-A
* * * *
136115 A-TCATTTGTTAAA--TC-T-CTTATTAATTTTTGAAATATTAATAAATTCA-TTTTATTTCATT
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATT-AGTATTATTTTATT
* * * * * * *
136174 ATGAATAAGCTAGTATGAATTGAAAAAATTGTTTTATGACAAAATAAAAGGTCATAATGATTTAA
65 TTGGATAAGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTA
* * * * * *
136239 AATAGATAATTGTTCATATGGTCTTAACTATTTAAACTAGTTTAGCAAACAA
130 AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAA
* * * *
136291 ATTTATTTTTTAAATCTCTTAGTTATTAATTTTT-AGAGTATTATTAGATTAGTATTATTTTATT
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATT
* * * * *
136355 TTGAATAAGCTTGTATGAACATG-AATAATTGTTTTATGATAGAACAAAAAAGGTTTATTTTTTA
65 TTGGATAAGCTTGTATGAAC-TGAAACAATTGTTTTATGACA-AA-ACAAAAGG-TCA-----T-
* * * * * *
136419 AATAACTGATTTAAACTATACATTTGTTCAAATAGTCATAACTATTT-AAATGGGTTT-GATAAA
120 AATGA-T--TTTAAA-TAGATAATTGTTCAAATAGTCATAACTATTTGAACT-TGTTTAG-TAAA
*
136482 TAA
179 CAA
* * * * * *
136485 ATTTATTTTTAAAATTTTTTACTTATTAACTTTTGAAAGATTAATAAATTAGTATTATTTTATTC
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
** * * * * * *
136550 T-G--AAGCTTGTATGATA-AAAAACAATTGTTATATGACCAAACAAAAGGTAATATTGACTTCA
66 TGGATAAGCTTGTATGA-ACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTA
* * * **
136611 AATAGATAATTGTTGAAATAGCCATAATTATTTGAACTAATTTAGTAAACAGA
130 AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACA-A
* * * * *
136664 A-TCATTTTTTAAATCACTTACTTATTAATTTTTGGAATATTAATAAATTACTGTTATTTTATTT
1 ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * * * *
136728 CGAATGAGCTTGTATGAACTGAGACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTTAA
66 TGGATAAGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAA
*
136793 ATAGATAATTGTTCAAATAGTCATAACTATTTGAATTTGTTTAGTAAACAA
131 ATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAA
* * *
136844 ATTAATTTTTTTAAA-CTCTTGCTTATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATT
1 ATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
* * * *
136908 TTGGATAAGCTTTTATGAACTGAAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAACGATTTT
65 TTGGATAAGCTTGTATGAACTGAAACAATTG-TTTTATGACAAAACAAAAGGTCATAATGATTTT
* * * *
136973 AAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTTGATTGGTAAACAG
129 AAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAA
* * *
137026 ATTTATTTTTTCATATCTTTTGCTTATTAATTTTT
1 ATTTATTTTTT-AAATCTCTTACTTATTAATTTTT
137061 TGAATGTTTA
Statistics
Matches: 1576, Mismatches: 345, Indels: 234
0.73 0.16 0.11
Matches are distributed among these distances:
176 8 0.01
177 148 0.09
178 117 0.07
179 285 0.18
180 81 0.05
181 517 0.33
182 110 0.07
183 32 0.02
184 10 0.01
185 16 0.01
186 1 0.00
187 13 0.01
188 11 0.01
189 14 0.01
190 8 0.01
191 37 0.02
192 13 0.01
193 24 0.02
194 108 0.07
195 12 0.01
196 8 0.01
197 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
TGGATAAGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAA
ATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAA
Found at i:137245 original size:23 final size:24
Alignment explanation
Indices: 137219--137278 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
137209 ACTATTTTAA
137219 TATAAAATATA-AAAT-TAATAATT
1 TATAAAATATATAAATATAAT-ATT
*
137242 TATATAATATTATAAATATAATATT
1 TATAAAATA-TATAAATATAATATT
*
137267 AAT-AAATATATA
1 TATAAAATATATA
137279 GTATTCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 12 0.39
24 6 0.19
25 9 0.29
26 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATAAAATATATAAATATAATATT
Found at i:137260 original size:32 final size:31
Alignment explanation
Indices: 137216--137288 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
137206 AAAACTATTT
*
137216 TAATA-TA-AAATATAAAATTAATAATTTATA
1 TAATATTATAAATATAAAATTAATAA-ATATA
*
137246 TAATATTATAAATATAATATTAATAAATATA
1 TAATATTATAAATATAAAATTAATAAATATA
*
137277 TAGTATTCATAA
1 TAATATT-ATAA
137289 CAATTAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.14
31 12 0.32
32 20 0.54
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
TAATATTATAAATATAAAATTAATAAATATA
Found at i:137262 original size:14 final size:15
Alignment explanation
Indices: 137223--137276 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
137213 TTTTAATATA
*
137223 AAATATAAAATTAAT
1 AAATATAATATTAAT
137238 AATTTATATAATATT-AT
1 AA---ATATAATATTAAT
137255 AAATATAATATTAAT
1 AAATATAATATTAAT
137270 AAATATA
1 AAATATA
137277 TAGTATTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 10 0.29
15 11 0.32
17 4 0.12
18 9 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATAATATTAAT
Found at i:137283 original size:17 final size:16
Alignment explanation
Indices: 137223--137288 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
137213 TTTTAATATA
*
137223 AAATATA-AAATTAAT
1 AAATATATATATTAAT
*
137238 AATTTATATAATATT-AT
1 AA-ATATAT-ATATTAAT
137255 AAATATA-ATATTAAT
1 AAATATATATATTAAT
*
137270 AAATATATAGTATTCAT
1 AAATATATA-TATTAAT
137287 AA
1 AA
137289 CAATTAGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.12
15 11 0.27
16 9 0.22
17 12 0.29
18 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATATATATATTAAT
Found at i:137787 original size:14 final size:14
Alignment explanation
Indices: 137765--137812 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
137755 TTTATATATA
137765 ATAATAATTATTAT
1 ATAATAATTATTAT
* *
137779 ATTATAATTATCAT
1 ATAATAATTATTAT
137793 ATAATAATATATTAT
1 ATAATAAT-TATTAT
*
137808 CTAAT
1 ATAAT
137813 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATAATTATTAT
Found at i:138282 original size:28 final size:26
Alignment explanation
Indices: 138206--138304 Score: 76
Period size: 28 Copynumber: 3.6 Consensus size: 26
138196 ATTGTTATAA
* **
138206 AATTAATTCAATTATTAGGATTAATAT
1 AATTAATT-TATTATTATAATTAATAT
*
138233 -ATAATATTTA-TATCTATAATTAATAAT
1 AATTA-ATTTATTAT-TATAATTAAT-AT
*
138260 AATTCAATTTATTATTATTATTAATAT
1 AATT-AATTTATTATTATAATTAATAT
138287 AATTAATATTATTTATTA
1 AATTAAT-TTA-TTATTA
138305 GATTAATTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
25 3 0.05
26 15 0.26
27 14 0.24
28 22 0.38
29 4 0.07
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
AATTAATTTATTATTATAATTAATAT
Found at i:138311 original size:18 final size:18
Alignment explanation
Indices: 138247--138299 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
138237 TATTTATATC
*
138247 TATAATTAATAATAATTCAA
1 TATAATTAAT-ATTATT-AA
* *
138267 T-TTATTATTATTATTAA
1 TATAATTAATATTATTAA
138284 TATAATTAATATTATT
1 TATAATTAATATTATT
138300 TATTAGATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 6 0.22
20 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAATTAATATTATTAA
Done.