Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold298
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: 1060864
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.35
Warning! 20344 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:164359 original size:15 final size:14
Alignment explanation
Indices: 164328--164358 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
164318 CAATATCACA
164328 TTTCATGTACCTTT
1 TTTCATGTACCTTT
*
164342 TTTCATGTATCTTT
1 TTTCATGTACCTTT
164356 TTT
1 TTT
164359 TTTTCCCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTCATGTACCTTT
Found at i:165124 original size:34 final size:34
Alignment explanation
Indices: 165077--165296 Score: 243
Period size: 34 Copynumber: 6.5 Consensus size: 34
165067 GGTAAAAACC
*
165077 ACCATTTAATCAACAATGGCAACCTACCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
* *
165111 ACTATTTAGTCAACAATGGTAAGCC-ACCAAATC-
1 ACCATTTAATCAACAATGGTAA-CCTACCAAATCT
* * *
165144 ACCCATTTAATCAATAATGGTAAGCTACAAAAT-T
1 A-CCATTTAATCAACAATGGTAACCTACCAAATCT
* *
165178 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT
1 AC-CATTTAATCAACAATGGTAACCTACCAAATCT
* * * *
165213 CCCATTTAGTCAACAATGGCAAACC-ACCAAATCG
1 ACCATTTAATCAACAATGG-TAACCTACCAAATCT
* *
165247 CCCATTTAATCAACAATGGTAAACTACCAAAT-T
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
165280 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
165297 TCTCCCACTT
Statistics
Matches: 157, Mismatches: 21, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
33 22 0.14
34 128 0.82
35 7 0.04
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAACCTACCAAATCT
Found at i:165192 original size:68 final size:68
Alignment explanation
Indices: 165078--165296 Score: 271
Period size: 68 Copynumber: 3.2 Consensus size: 68
165068 GTAAAAACCA
* * *
165078 CCATTTAATCAACAATGGCAACCTACCAAATCTACT-ATTTAGTCAACAATGGTAAGCCACCAAA
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACTCATTTAATCAACAATGGTAAGCTACCAAA
165142 TCAC
65 TCAC
* * * * *
165146 CCATTTAATCAATAATGGTAAGCTACAAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
*
165211 CTC
66 CAC
* * ** * *
165214 CCATTTAGTCAACAATGGCAAACCACCAAATCGCCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
*
165279 TA-
66 CAC
165281 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
165297 TCTCCCACTT
Statistics
Matches: 129, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
67 18 0.14
68 111 0.86
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (68 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
CAC
Found at i:165220 original size:102 final size:101
Alignment explanation
Indices: 165077--165296 Score: 332
Period size: 102 Copynumber: 2.2 Consensus size: 101
165067 GGTAAAAACC
* * *
165077 ACCATTTAATCAACAATGGCAACCTACCAAATCTACTATTTAGTCAACAATGGTAAGCCACCAAA
1 ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
* *
165142 TCACCCATTTAATCAATAATGGTAAGCTACAAAATT
66 TCACCCATTTAATCAACAATGGTAAACTACAAAATT
* * * *
165178 TCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
1 AC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
165243 ATCGCCCATTTAATCAACAATGGTAAACTACCAAATT
65 ATCACCCATTTAATCAACAATGGTAAACTACAAAATT
165280 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
165297 TCTCCCACTT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (101 bp):
ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
TCACCCATTTAATCAACAATGGTAAACTACAAAATT
Found at i:169753 original size:34 final size:34
Alignment explanation
Indices: 169706--169923 Score: 248
Period size: 34 Copynumber: 6.4 Consensus size: 34
169696 GGTAAAAACC
*
169706 ACCATTTAATCAACAATGGCAACCTACCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
*
169740 ACCATTTAGTCAACAATGGTAAGCC-ACCAAATC-
1 ACCATTTAATCAACAATGGTAA-CCTACCAAATCT
* * *
169773 ACCAATTTAATCAATAATGGTAAGCTACTAAAT-T
1 ACC-ATTTAATCAACAATGGTAACCTACCAAATCT
* *
169807 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT
1 AC-CATTTAATCAACAATGGTAACCTACCAAATCT
* * * *
169842 CCCATTTAGTCAACAATGGCAAACC-ACCAAATCG
1 ACCATTTAATCAACAATGG-TAACCTACCAAATCT
* *
169876 CCCATTTAATCAACAATGGTAAACTACCAAAT-T
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
169909 ACCATTTAATCAACA
1 ACCATTTAATCAACA
169924 GAATTAAATC
Statistics
Matches: 157, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
33 21 0.13
34 128 0.82
35 8 0.05
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAACCTACCAAATCT
Found at i:169884 original size:102 final size:101
Alignment explanation
Indices: 169706--169923 Score: 328
Period size: 102 Copynumber: 2.1 Consensus size: 101
169696 GGTAAAAACC
* *
169706 ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAA
1 ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
* * *
169771 TCACCAATTTAATCAATAATGGTAAGCTACTAAATT
66 TCACCAATTTAATCAACAATGGTAAACTACCAAATT
* * * *
169807 TCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
1 AC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
169872 ATCGCCCATTTAATCAACAATGGTAAACTACCAAATT
65 ATCACCAATTTAATCAACAATGGTAAACTACCAAATT
169909 ACCATTTAATCAACA
1 ACCATTTAATCAACA
169924 GAATTAAATC
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 14 0.13
102 90 0.87
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (101 bp):
ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
TCACCAATTTAATCAACAATGGTAAACTACCAAATT
Found at i:170951 original size:40 final size:40
Alignment explanation
Indices: 170907--170991 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
170897 CTATTTTATA
** *
170907 TAATAAAAAAT-TAT-TTTTATTTAAAATTAATTATAAATAT
1 TAATAAAAAATATATATTTTA-AAAAAATT-ATTATAAATAG
*
170947 TAATATAAAATATATATTTTAAAAAAATTATTATAAATAG
1 TAATAAAAAATATATATTTTAAAAAAATTATTATAAATAG
170987 TAATA
1 TAATA
170992 TAAATATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 25 0.64
41 9 0.23
42 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (40 bp):
TAATAAAAAATATATATTTTAAAAAAATTATTATAAATAG
Found at i:177785 original size:17 final size:17
Alignment explanation
Indices: 177763--177797 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
177753 AGAAGATAAA
177763 ATTATTGACCTTTAACG
1 ATTATTGACCTTTAACG
177780 ATTATTGACCTTTAACG
1 ATTATTGACCTTTAACG
177797 A
1 A
177798 CAATGCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
ATTATTGACCTTTAACG
Found at i:178689 original size:14 final size:14
Alignment explanation
Indices: 178672--178740 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 14
178662 ATGATATATT
178672 TATTTTAAATTTAA
1 TATTTTAAATTTAA
178686 TATTTTAATAATTT-A
1 TATTTT-A-AATTTAA
178701 TATTATATAAATTTTAA
1 TATT-T-TAAA-TTTAA
* *
178718 TATATTTATATATTCA
1 TAT-TTTAAAT-TTAA
178734 TATTTTA
1 TATTTTA
178741 TATCATATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 6 0.13
15 13 0.29
16 19 0.42
17 6 0.13
18 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTTAAATTTAA
Found at i:178738 original size:24 final size:24
Alignment explanation
Indices: 178685--178786 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 24
178675 TTTAAATTTA
178685 ATATTTTAATA-ATTTATATTATAT-
1 ATATTTTAATATATTTATA-TAT-TC
*
178709 AAATTTTAATATATTTATATATTC
1 ATATTTTAATATATTTATATATTC
* *
178733 ATATTTT-ATATCATATTATATTTTA
1 ATATTTTAATAT-AT-TTATATATTC
** *
178758 ATTATTTTTTTATA-TTATATAATC
1 A-TATTTTAATATATTTATATATTC
178782 ATATT
1 ATATT
178787 ATATTTAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
23 9 0.14
24 29 0.45
25 16 0.25
26 7 0.11
27 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
ATATTTTAATATATTTATATATTC
Found at i:178791 original size:42 final size:41
Alignment explanation
Indices: 178700--178791 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 41
178690 TTAATAATTT
* *
178700 ATATTATA-TAAATTTTAATATATTTATATATTCATATTTT
1 ATATTATATTAAATTTTAATATATTTATATATTCATATATC
* * * *
178740 ATATCATATTATATTTTAATTATTTTTTTATATT-ATATAATC
1 ATATTATATTAAATTTTAA-TATATTTATATATTCATAT-ATC
178782 ATATTATATT
1 ATATTATATT
178792 TAAAATGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 7 0.17
41 13 0.31
42 22 0.52
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (41 bp):
ATATTATATTAAATTTTAATATATTTATATATTCATATATC
Found at i:179830 original size:123 final size:123
Alignment explanation
Indices: 179643--179889 Score: 451
Period size: 123 Copynumber: 2.0 Consensus size: 123
179633 AAATGGTAAC
*
179643 TTTTTTATTTCATTAAATTAGATTATTGAATTTTTTTATTAATAAATTAAGTTACTTGAGTCAAT
1 TTTTTTATTTCATTAAATTAGATTATTGAATTTTTTTATTAATAAATTAAGTTACTTGAATCAAT
* *
179708 TTCGTTGAATAATTTTAATAAAAAAATTGATTTAATTTGTACTAATAAAATGTATTTTA
66 TTCGTTGAATAATTTTAAT-AAAAAATTGATTTAATATGCACTAATAAAATGTATTTTA
179767 TTTTTTATTTCATTAAATTAGATTATTGAA-TTTTTTATTAATAAATTAAGTTACTTGAATCAAT
1 TTTTTTATTTCATTAAATTAGATTATTGAATTTTTTTATTAATAAATTAAGTTACTTGAATCAAT
179831 TTCGTTGAATAATTTTAATAAAAAATTGATTTAATATGCACTAATAAAATGTATTTTA
66 TTCGTTGAATAATTTTAATAAAAAATTGATTTAATATGCACTAATAAAATGTATTTTA
179889 T
1 T
179890 GGACATTATC
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
122 38 0.32
123 52 0.43
124 30 0.25
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.49
Consensus pattern (123 bp):
TTTTTTATTTCATTAAATTAGATTATTGAATTTTTTTATTAATAAATTAAGTTACTTGAATCAAT
TTCGTTGAATAATTTTAATAAAAAATTGATTTAATATGCACTAATAAAATGTATTTTA
Found at i:179938 original size:123 final size:122
Alignment explanation
Indices: 179687--179942 Score: 266
Period size: 123 Copynumber: 2.1 Consensus size: 122
179677 TTTATTAATA
* * *
179687 AATTAAGTTACTTGAGTCAATTTCGTTGAATAATTTTAATAAAAAAATTGATTTAATTTGTACTA
1 AATTAAGTTACTTGAATCAATTTCGTTGAATAATTTTAATAAAAAAATTGATTTAATATGCACTA
*** ** * ** *** ** * *
179752 ATAAAATGTATTTTATTTTTTATTTCATTAAATTAGATTATTGAATTTTTTATTAAT
66 ATAAAATGTATTTTATACATTATTTCAAGAAATTAAAAAAACAAATCATGTATGAAT
179809 AAATTAAGTTACTTGAATCAATTTCGTTGAATAATTTTAAT-AAAAAATTGATTTAATATGCACT
1 -AATTAAGTTACTTGAATCAATTTCGTTGAATAATTTTAATAAAAAAATTGATTTAATATGCACT
* *
179873 AATAAAATGTATTTTATGGACATTATCTTCAAGAGA-TACAAAAAACAAATCATGTATGCAT
65 AATAAAATGTATTTTAT--ACATTAT-TTCAAGAAATTA-AAAAAACAAATCATGTATGAAT
179934 -ATTAAGTTA
1 AATTAAGTTA
179943 ATTTTTTTAA
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
122 38 0.35
123 48 0.44
124 6 0.06
125 17 0.16
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (122 bp):
AATTAAGTTACTTGAATCAATTTCGTTGAATAATTTTAATAAAAAAATTGATTTAATATGCACTA
ATAAAATGTATTTTATACATTATTTCAAGAAATTAAAAAAACAAATCATGTATGAAT
Found at i:181341 original size:28 final size:26
Alignment explanation
Indices: 181294--181351 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
181284 TAATTTGATT
181294 TAAAATTTTAAAATTATAAATCAATTAA
1 TAAAATTTTAAAATTATAAAT-AA-TAA
181322 TAAAATTTATTAAAA-T-TAAATAATAA
1 TAAAA-TT-TTAAAATTATAAATAATAA
181348 TAAA
1 TAAA
181352 TTAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 7 0.25
27 2 0.07
28 10 0.36
29 3 0.11
30 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAATTTTAAAATTATAAATAATAA
Found at i:181352 original size:15 final size:15
Alignment explanation
Indices: 181334--181407 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
181324 AAATTTATTA
181334 AAATTAAATAATAAT
1 AAATTAAATAATAAT
181349 AAATTAAATAATAATT
1 AAATTAAATAATAA-T
* * *
181365 AATTTAATTTAAT-TT
1 AAATTAA-ATAATAAT
* *
181380 AATTTAAATAA-ATT
1 AAATTAAATAATAAT
181394 AAATTAAATCAATA
1 AAATTAAAT-AATA
181408 TCGATCGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
14 13 0.27
15 24 0.49
16 8 0.16
17 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTAAATAATAAT
Found at i:181356 original size:5 final size:5
Alignment explanation
Indices: 181334--181402 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
181324 AAATTTATTA
* * * * * *
181334 AAATT AAA-T AATAAT AAATT AAATA ATAATT AATTT AATTT AATTT AATTT
1 AAATT AAATT AA-ATT AAATT AAATT A-AATT AAATT AAATT AAATT AAATT
181385 AAA-T AAATT AAATT AAAT
1 AAATT AAATT AAATT AAAT
181403 CAATATCGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 7 0.13
5 41 0.75
6 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AAATT
Found at i:181885 original size:18 final size:18
Alignment explanation
Indices: 181859--181893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
181849 AGTATAAAAT
* *
181859 TTTACTTTTTTATTTTTA
1 TTTAATTTTTAATTTTTA
181877 TTTAATTTTTAATTTTT
1 TTTAATTTTTAATTTTT
181894 TATCTCGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTAATTTTTAATTTTTA
Found at i:182192 original size:14 final size:14
Alignment explanation
Indices: 182175--182222 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
182165 ATTTGATATT
182175 TTAAATTTAAAATA
1 TTAAATTTAAAATA
182189 TTAAATATT-AAATA
1 TTAAAT-TTAAAATA
* *
182203 TTAATATTTATAATT
1 TTAA-ATTTAAAATA
182218 TTAAA
1 TTAAA
182223 ATGTATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTTAAAATA
Found at i:182251 original size:21 final size:22
Alignment explanation
Indices: 182164--182251 Score: 78
Period size: 21 Copynumber: 4.1 Consensus size: 22
182154 TTATTTTATT
* *
182164 TATTTGATATTTTAAATTTAAAA
1 TATTT-ATATTTTAAATATATAA
* *
182187 TA-TTAAATATTAAATAT-TAA
1 TATTTATATTTTAAATATATAA
*
182207 TATTTATAATTTTAAA-ATGT-A
1 TATTTAT-ATTTTAAATATATAA
182228 TATTTATA-TTTAAATATATAA
1 TATTTATATTTTAAATATATAA
182249 TAT
1 TAT
182252 ATAATGAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
19 6 0.11
20 8 0.15
21 27 0.51
22 10 0.19
23 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTTATATTTTAAATATATAA
Found at i:188217 original size:28 final size:26
Alignment explanation
Indices: 188186--188248 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
188176 TCATTTTTTA
188186 AATTTAAT-AAAAATAATATATTTAATAT
1 AATTTAATAAAAAATAATA-A-TTAA-AT
**
188214 AATTTTTTAAAAAATAATAATTAAAT
1 AATTTAATAAAAAATAATAATTAAAT
188240 AATCTTAAT
1 AAT-TTAAT
188249 TAATATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.17
27 7 0.24
28 7 0.24
29 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAATAAAAAATAATAATTAAAT
Found at i:188251 original size:28 final size:29
Alignment explanation
Indices: 188186--188240 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
188176 TCATTTTTTA
*
188186 AATTTAAT-AAAAATAATATATTTAATAT
1 AATTTATTAAAAAATAATATATTTAATAT
* *
188214 AATTTTTTAAAAAATAATA-ATTAAATA
1 AATTTATTAAAAAATAATATATTTAATA
188241 ATCTTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTATTAAAAAATAATATATTTAATAT
Found at i:188931 original size:3 final size:3
Alignment explanation
Indices: 188923--188969 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
188913 TATTTGACTT
188923 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
188970 TATTGGAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:189544 original size:20 final size:22
Alignment explanation
Indices: 189519--189567 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
189509 TAATGATTGG
*
189519 ATGAAAGAATA-CATTTTT-TA
1 ATGAAAGAATATAATTTTTATA
189539 ATGAAA-AATATAATTTTTATA
1 ATGAAAGAATATAATTTTTATA
*
189560 ATTAAAGA
1 ATGAAAGA
189568 TTATCATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 7 0.29
22 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (22 bp):
ATGAAAGAATATAATTTTTATA
Found at i:189555 original size:19 final size:20
Alignment explanation
Indices: 189519--189557 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
189509 TAATGATTGG
*
189519 ATGAAAGAATACATTTTTTA
1 ATGAAAGAATACAATTTTTA
*
189539 ATGAAA-AATATAATTTTTA
1 ATGAAAGAATACAATTTTTA
189558 TAATTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
ATGAAAGAATACAATTTTTA
Found at i:190594 original size:16 final size:17
Alignment explanation
Indices: 190573--190614 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
190563 ATTCAATCAA
190573 TAATTAATTAAAAT-AT
1 TAATTAATTAAAATAAT
* *
190589 TTATTAATTAAATTAAT
1 TAATTAATTAAAATAAT
190606 TAATTAATT
1 TAATTAATT
190615 TTTTAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTAATTAAAATAAT
Found at i:194042 original size:21 final size:23
Alignment explanation
Indices: 194005--194050 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
193995 AAAAATAAAA
194005 AATATTAATTAATATATAATATT
1 AATATTAATTAATATATAATATT
194028 AATATTAATT-A-ATATAATATT
1 AATATTAATTAATATATAATATT
194049 AA
1 AA
194051 AAAATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.52
22 1 0.04
23 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATTAATTAATATATAATATT
Found at i:194047 original size:15 final size:15
Alignment explanation
Indices: 194020--194060 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
194010 TAATTAATAT
194020 ATAATATTAATATTAA
1 ATAATA-TAATATTAA
*
194036 TTAATATAATATTAA
1 ATAATATAATATTAA
*
194051 AAAATATAAT
1 ATAATATAAT
194061 TAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATATAATATTAA
Found at i:194186 original size:37 final size:37
Alignment explanation
Indices: 194109--194191 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 37
194099 ATATAATTTT
*
194109 TTTTAAAATACATTAATTAAAAATTATTTTATTATTAA
1 TTTTAAAA-ACATTAATTAAAAATTATTTTATTATAAA
194147 TTTTAAAAAC-TTATATTAAATAATTA-TTT-TTATAAA
1 TTTTAAAAACATTA-ATTAAA-AATTATTTTATTATAAA
*
194183 ATTTAAAAA
1 TTTTAAAAA
194192 AAATCTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 17 0.41
37 11 0.27
38 13 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (37 bp):
TTTTAAAAACATTAATTAAAAATTATTTTATTATAAA
Found at i:194192 original size:37 final size:37
Alignment explanation
Indices: 194110--194192 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 37
194100 TATAATTTTT
* *
194110 TTTAAAATACATTAATTAAAAATTATTTTATTATTAA
1 TTTAAAAAACATTAATTAAAAATTATTTTATTATAAA
*
194147 TTTTAAAAAC-TTATATTAAATAATTA-TTT-TTATAAAA
1 TTTAAAAAACATTA-ATTAAA-AATTATTTTATTAT-AAA
194184 TTTAAAAAA
1 TTTAAAAAA
194193 AATCTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 7 0.18
37 27 0.69
38 5 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (37 bp):
TTTAAAAAACATTAATTAAAAATTATTTTATTATAAA
Found at i:195685 original size:2 final size:2
Alignment explanation
Indices: 195678--195715 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
195668 TATAAGATTC
*
195678 CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
195716 ATATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:201697 original size:2 final size:2
Alignment explanation
Indices: 201686--201731 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
201676 AGATATGCAT
201686 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
201727 TA TA T
1 TA TA T
201732 TAAAATTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:202371 original size:15 final size:16
Alignment explanation
Indices: 202347--202378 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
202337 TAAAAAATAG
202347 AGAAATAAAGGAAAAT
1 AGAAATAAAGGAAAAT
202363 AGAAA-AAAGGAAAAT
1 AGAAATAAAGGAAAAT
202378 A
1 A
202379 TAATTGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (16 bp):
AGAAATAAAGGAAAAT
Found at i:202596 original size:14 final size:14
Alignment explanation
Indices: 202573--202631 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
202563 TAAACTTTCA
*
202573 AAATTAATTTTAAT
1 AAATTTATTTTAAT
*
202587 TAATTTATTTTAAT
1 AAATTTATTTTAAT
** *
202601 AAAAATAATTTAAT
1 AAATTTATTTTAAT
*
202615 GAATTTATTTTAAT
1 AAATTTATTTTAAT
202629 AAA
1 AAA
202632 AATAATTTAA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAATTTATTTTAAT
Found at i:202619 original size:28 final size:28
Alignment explanation
Indices: 202572--202647 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
202562 CTAAACTTTC
* *
202572 AAAATTAATTTTAATTAATTTATTTTAAT
1 AAAAATAA-TTTAATGAATTTATTTTAAT
202601 AAAAATAATTTAATGAATTTATTTTAAT
1 AAAAATAATTTAATGAATTTATTTTAAT
202629 AAAAATAATTTAATGAATT
1 AAAAATAATTTAATGAATT
202648 CATTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 38 0.84
29 7 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
AAAAATAATTTAATGAATTTATTTTAAT
Found at i:202640 original size:14 final size:14
Alignment explanation
Indices: 202595--202642 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
202585 ATTAATTTAT
202595 TTTAATAAAAATAA
1 TTTAATAAAAATAA
* ** *
202609 TTTAATGAATTTAT
1 TTTAATAAAAATAA
202623 TTTAATAAAAATAA
1 TTTAATAAAAATAA
202637 TTTAAT
1 TTTAAT
202643 GAATTCATTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:203339 original size:20 final size:20
Alignment explanation
Indices: 203316--203353 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
203306 TTAAAAAAAT
203316 TAATTACTTATTAAATAACC
1 TAATTACTTATTAAATAACC
*
203336 TAATTACTTATTTAATAA
1 TAATTACTTATTAAATAA
203354 ATTATGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTACTTATTAAATAACC
Found at i:209004 original size:16 final size:17
Alignment explanation
Indices: 208985--209021 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
208975 TTAGCAAAAT
208985 ATTTATTAAAT-ATTAA
1 ATTTATTAAATAATTAA
*
209001 ATTT-TTTAATAATTAA
1 ATTTATTAAATAATTAA
209017 ATTTA
1 ATTTA
209022 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATTAAATAATTAA
Found at i:211635 original size:14 final size:14
Alignment explanation
Indices: 211617--211653 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
211607 AATTTTAAAA
211617 TTTAAATATTT-TT
1 TTTAAATATTTATT
211630 TATTAAATATTTATT
1 T-TTAAATATTTATT
211645 TTT-AATATT
1 TTTAAATATT
211654 CACTCTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 12 0.55
15 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAATATTTATT
Found at i:214968 original size:29 final size:29
Alignment explanation
Indices: 214936--214991 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
214926 TTAAATTATA
*
214936 ATTATATGATTATAATTT-TTATTTATAAT
1 ATTAAATGATTAT-ATTTATTATTTATAAT
* *
214965 ATTAAATTATTATTTTTATTATTTATA
1 ATTAAATGATTATATTTATTATTTATA
214992 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTAAATGATTATATTTATTATTTATAAT
Found at i:214995 original size:35 final size:33
Alignment explanation
Indices: 214906--215002 Score: 88
Period size: 35 Copynumber: 2.8 Consensus size: 33
214896 AAATTTTAAA
* * *
214906 ATTTATATTTTTTAATATTTTTAAATTATAATTAT
1 ATTTTTATTATTT-ATATTTATAAATTA-AATTAT
** * *
214941 ATGATTATAATTTTTATTTATAATATTAAATTATT
1 ATTTTTATTATTTATATTTATAA-ATTAAATTA-T
214976 ATTTTTATTATTTATATTTA-AAATTAA
1 ATTTTTATTATTTATATTTATAAATTAA
215003 TTTTAAAATA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
33 5 0.10
34 15 0.31
35 29 0.59
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
ATTTTTATTATTTATATTTATAAATTAAATTAT
Found at i:215335 original size:19 final size:17
Alignment explanation
Indices: 215276--215323 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
215266 ATTATAATTT
215276 TAAAT-TTAATATAGTAAA
1 TAAATATTAATAT--TAAA
215294 -AAATATTAATATTAAA
1 TAAATATTAATATTAAA
215310 TAAATATTAATATT
1 TAAATATTAATATT
215324 TTATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATATTAATATTAAA
Found at i:215405 original size:19 final size:20
Alignment explanation
Indices: 215383--215424 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
215373 AAAATATATT
*
215383 ATATTTTAAAA-TAATAAAA
1 ATATTATAAAATTAATAAAA
*
215402 ATA-TATAAAATTAATATAA
1 ATATTATAAAATTAATAAAA
215421 ATAT
1 ATAT
215425 AAAATAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTATAAAATTAATAAAA
Found at i:215425 original size:19 final size:18
Alignment explanation
Indices: 215389--215425 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
215379 TATTATATTT
215389 TAAAATAATAAAAATATA
1 TAAAATAATAAAAATATA
*
215407 TAAAATTAATATAAATATA
1 TAAAA-TAATAAAAATATA
215426 AAATAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATAATAAAAATATA
Found at i:215892 original size:18 final size:19
Alignment explanation
Indices: 215850--215885 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
215840 ATAAGTTTTC
*
215850 AAAATTTTATTATAACTCA
1 AAAATTTTAATATAACTCA
215869 AAAATTTTAATA-AACTC
1 AAAATTTTAATATAACTC
215886 TTAAATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAATATAACTCA
Found at i:216407 original size:37 final size:34
Alignment explanation
Indices: 216359--216427 Score: 84
Period size: 37 Copynumber: 1.9 Consensus size: 34
216349 TTAAAATTTA
* *
216359 AATATATTAAATATAATTTTTTAAAGATAAATATACG
1 AATAAATTAAAT-TAA-ATTTTAAAGA-AAATATACG
*
216396 AATAAATTAAATTAAATTTTAAATAAAATATA
1 AATAAATTAAATTAAATTTTAAAGAAAATATA
216428 TTCTACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 7 0.24
35 8 0.28
36 3 0.10
37 11 0.38
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (34 bp):
AATAAATTAAATTAAATTTTAAAGAAAATATACG
Found at i:216641 original size:25 final size:23
Alignment explanation
Indices: 216613--216679 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 23
216603 GTTTGTTTTT
216613 TTAAATAAAAATAAGATAAATAAAA
1 TTAAATAAAAATAA-A-AAATAAAA
*
216638 TTAAAAATTAAAAATATAAAAATAATA
1 TT--AAA-TAAAAATA-AAAAATAAAA
216665 TTAATATAAAAATAA
1 TTAA-ATAAAAATAA
216680 TATGATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
24 1 0.03
25 12 0.33
26 1 0.03
27 12 0.33
28 9 0.25
29 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (23 bp):
TTAAATAAAAATAAAAAATAAAA
Found at i:216672 original size:17 final size:17
Alignment explanation
Indices: 216650--216682 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
216640 AAAAATTAAA
216650 AATATAAAAATAATATT
1 AATATAAAAATAATATT
216667 AATATAAAAATAATAT
1 AATATAAAAATAATAT
216683 GATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAAAAATAATATT
Found at i:216940 original size:20 final size:20
Alignment explanation
Indices: 216903--216953 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
216893 TTTTTTATAT
*
216903 TTTATA-ATTATATTTAAAA
1 TTTATATATTATATATAAAA
216922 TATTATATATT-TATATAAAA
1 T-TTATATATTATATATAAAA
216942 TTTATTATATTA
1 TTTA-TATATTA
216954 ATAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATATATTATATATAAAA
Found at i:217068 original size:16 final size:17
Alignment explanation
Indices: 217047--217093 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
217037 ATACACAAGT
217047 AAATAATTAAAATA-AA
1 AAATAATTAAAATATAA
* *
217063 AAATAATAAAAATATAT
1 AAATAATTAAAATATAA
217080 AAATATATTAAAAT
1 AAATA-ATTAAAAT
217094 TTATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 6 0.23
18 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAATTAAAATATAA
Found at i:217107 original size:69 final size:70
Alignment explanation
Indices: 217029--217166 Score: 158
Period size: 69 Copynumber: 2.0 Consensus size: 70
217019 TAAACATAAC
*
217029 ATAATTATA-TACACAAGTAAATAATTAAAATAAAAAA-TA-ATAAAAAT-ATATAAATATATTA
1 ATAAATATATTACACAA-TAAATAATTAAAATAAAAAATTATATAAAAATAATATAAATATA-T-
217090 AAATTTAT
63 AAATTTAT
*** * * *
217098 ATAAATATATTACTTTATACATAATTATAATAAAAAATTATATAAATATAATATAAATATATAAA
1 ATAAATATATTACACAATAAATAATTAAAATAAAAAATTATATAAAAATAATATAAATATATAAA
217163 TTTA
66 TTTA
217167 AATATTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
69 26 0.45
70 13 0.22
71 8 0.14
72 11 0.19
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (70 bp):
ATAAATATATTACACAATAAATAATTAAAATAAAAAATTATATAAAAATAATATAAATATATAAA
TTTAT
Found at i:217989 original size:18 final size:16
Alignment explanation
Indices: 217968--218010 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
217958 ATAGTAGGAA
217968 TAAAATATAATATAATAT
1 TAAAATATAATAT-A-AT
*
217986 TAAAAAATAATATAAT
1 TAAAATATAATATAAT
218002 TAAAATATA
1 TAAAATATA
218011 TGTATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 1 0.04
18 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATATAATATAAT
Found at i:218501 original size:2 final size:2
Alignment explanation
Indices: 218496--218539 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
218486 TAATATATTC
*
218496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
218538 AT
1 AT
218540 CATCTTACCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:224816 original size:3 final size:3
Alignment explanation
Indices: 224808--224838 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
224798 AATTTATTCA
224808 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
224839 GAATTCACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:225305 original size:22 final size:21
Alignment explanation
Indices: 225256--225296 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
225246 TATATAAAAG
225256 TTTAAAATCATTTTTTTAATA
1 TTTAAAATCATTTTTTTAATA
225277 TTTAAAA-CATATTTTTTAAT
1 TTTAAAATCAT-TTTTTTAAT
225297 TTAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAAATCATTTTTTTAATA
Found at i:228430 original size:22 final size:19
Alignment explanation
Indices: 228412--228451 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
228402 ATAAATATTA
228412 ATTATAT-TTAAAATTAAT
1 ATTATATATTAAAATTAAT
228430 ATTATATATTAAAATTATAT
1 ATTATATATTAAAATTA-AT
228450 AT
1 AT
228452 GTTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATATATTAAAATTAAT
Found at i:228522 original size:13 final size:13
Alignment explanation
Indices: 228504--228548 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
228494 AATCTACTAA
228504 TAATAATTATTTT
1 TAATAATTATTTT
*
228517 TAATAATAATTTT
1 TAATAATTATTTT
228530 T--T-ATTATTTT
1 TAATAATTATTTT
228540 TATATAATT
1 TA-ATAATT
228549 CTAAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 8 0.31
11 1 0.04
13 14 0.54
14 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAATAATTATTTT
Found at i:228522 original size:16 final size:15
Alignment explanation
Indices: 228501--228531 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
228491 AAGAATCTAC
228501 TAATAATAATTATTTT
1 TAATAATAATT-TTTT
228517 TAATAATAATTTTTT
1 TAATAATAATTTTTT
228532 ATTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATAATAATTTTTT
Found at i:228678 original size:11 final size:11
Alignment explanation
Indices: 228629--228687 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
228619 AAAATTAATT
228629 TATTTTTATAA
1 TATTTTTATAA
*
228640 T-TTTTAATATA
1 TATTTTTATA-A
228651 TAATTTGTT-TAA
1 T-ATTT-TTATAA
*
228663 AATTTTTATAA
1 TATTTTTATAA
*
228674 TATTTTAATAA
1 TATTTTTATAA
228685 TAT
1 TAT
228688 AAATAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 9 0.24
11 22 0.58
12 1 0.03
13 5 0.13
14 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TATTTTTATAA
Found at i:228880 original size:13 final size:13
Alignment explanation
Indices: 228862--228886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228852 CATCAAATAA
228862 TTATTTTATTATT
1 TTATTTTATTATT
228875 TTATTTTATTAT
1 TTATTTTATTAT
228887 AGCAAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:229225 original size:14 final size:14
Alignment explanation
Indices: 229208--229251 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
229198 AATTGAAATA
229208 AAATAATAATTAAT
1 AAATAATAATTAAT
*
229222 AAATAAAAATTAA-
1 AAATAATAATTAAT
229235 ATAATAATAA-TAAT
1 A-AATAATAATTAAT
229249 AAA
1 AAA
229252 ATTTTTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAATAATTAAT
Found at i:229237 original size:25 final size:23
Alignment explanation
Indices: 229203--229252 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
229193 CATTTAATTG
229203 AAATAAAATAATAATTAATAAATAA
1 AAATAAAATAATAA-TAAT-AATAA
*
229228 AAATTAAATAATAATAATAATAA
1 AAATAAAATAATAATAATAATAA
229251 AA
1 AA
229253 TTTTTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.29
24 4 0.17
25 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAAATAATAATAATAATAA
Found at i:229797 original size:23 final size:23
Alignment explanation
Indices: 229749--229834 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
229739 ATATTGGCAC
* * *
229749 AATATAATATAAAACATAAT-TTA
1 AATATAATAT-AAATATACTATAA
229772 AATATAATATAAAT-TGACTATAA
1 AATATAATATAAATAT-ACTATAA
* * *
229795 AATATTATATAAATATATTATTA
1 AATATAATATAAATATACTATAA
229818 AATATAATATAATATAT
1 AATATAATATAA-ATAT
229835 TAATAAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 5 0.10
23 41 0.79
24 5 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (23 bp):
AATATAATATAAATATACTATAA
Found at i:229805 original size:12 final size:12
Alignment explanation
Indices: 229790--229857 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
229780 ATAAATTGAC
229790 TATAAAATATTA
1 TATAAAATATTA
229802 TATAAATATATTA
1 TATAAA-ATATTA
*
229815 T-T-AAATATAA
1 TATAAAATATTA
*
229825 TATAATATATTA
1 TATAAAATATTA
*
229837 -ATAAATTAATTTA
1 TATAAAAT-A-TTA
229850 TATAAAAT
1 TATAAAAT
229858 TAATTATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 6 0.14
11 8 0.18
12 14 0.32
13 10 0.23
14 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAAAATATTA
Found at i:230571 original size:31 final size:34
Alignment explanation
Indices: 230536--230619 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 34
230526 TAATTTATTT
*
230536 TTAATATAAATATAATTTTA-ATA-ATTTTA-AA
1 TTAATATAAATATAATTTAATATATATTTTATAA
*
230567 TTAATAT--ATATAATTTAATATATATTTTATTAT
1 TTAATATAAATATAATTTAATATATATTTTA-TAA
*
230600 TTAATA-AAATATAATATAAT
1 TTAATATAAATATAATTTAAT
230620 TTTATTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 10 0.23
30 3 0.07
31 13 0.30
33 7 0.16
34 11 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
TTAATATAAATATAATTTAATATATATTTTATAA
Found at i:230584 original size:14 final size:14
Alignment explanation
Indices: 230535--230591 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
230525 TTAATTTATT
230535 TTTAATATAAATATAA
1 TTTAATAT--ATATAA
*
230551 TTTTAATA-ATTTTAA
1 -TTTAATATA-TATAA
*
230566 ATTAATATATATAA
1 TTTAATATATATAA
230580 TTTAATATATAT
1 TTTAATATATAT
230592 TTTATTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 22 0.65
15 5 0.15
17 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAATATATATAA
Found at i:230598 original size:29 final size:27
Alignment explanation
Indices: 230524--230626 Score: 82
Period size: 29 Copynumber: 3.7 Consensus size: 27
230514 ATTATTTATT
* * *
230524 TTTAATTTATTTTTAATATAAATATAA
1 TTTAATATATTTTTATTATATATATAA
*
230551 TTTTAATA-ATTTTAAATTAATATATATAA
1 -TTTAATATATTTT-TATT-ATATATATAA
* *
230580 TTTAATATATATTTTATTATTTAATAAAA
1 TTTAATATAT-TTTTATTATAT-ATATAA
* *
230609 TATAATATAATTTTATTA
1 TTTAATATATTTTTATTA
230627 AATTTTTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
27 5 0.08
28 26 0.43
29 27 0.44
30 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTAATATATTTTTATTATATATATAA
Found at i:230651 original size:39 final size:38
Alignment explanation
Indices: 230565--230652 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 38
230555 AATAATTTTA
*
230565 AATTAATAT-ATATAATTTAATATATATTTTATTATTT
1 AATTAATATAATATAATTTAATAAATATTTTATTATTT
* *
230602 AATAAAATATAATATAATTTTATTAAAT-TTTTAATTATTT
1 AAT-TAATATAATATAA-TTTAATAAATATTTT-ATTATTT
230642 -ATTATATATAA
1 AATTA-ATATAA
230653 ACATTTTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 3 0.07
38 6 0.14
39 18 0.43
40 15 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
AATTAATATAATATAATTTAATAAATATTTTATTATTT
Found at i:231195 original size:27 final size:26
Alignment explanation
Indices: 231161--231271 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
231151 AATAAATAAA
231161 ATATAATATAAAAATATATGAATATTT
1 ATATAATATAAAAATATATGAA-ATTT
*
231188 ATAT-A-ATAAAAAT-TATTAAATTT
1 ATATAATATAAAAATATATGAAATTT
* *
231211 AAATAAAATATAAAATATA-GTAAATTAT
1 ATATAATATA-AAAATATATG-AAATT-T
* *
231239 AATATAATA-AAAAATATAT-ATATAT
1 -ATATAATATAAAAATATATGAAATTT
231264 ATATAATA
1 ATATAATA
231272 GTTGTAAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
23 7 0.10
24 14 0.20
25 12 0.17
26 9 0.13
27 19 0.28
28 2 0.03
29 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATAATATAAAAATATATGAAATTT
Found at i:231838 original size:22 final size:21
Alignment explanation
Indices: 231806--231847 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
231796 ATTTAAAATA
231806 TTATTTTTAT-ATTAATATTTT
1 TTATTTTTATAATTAA-ATTTT
231827 TTATATTTTATAATTAAATTT
1 TTAT-TTTTATAATTAAATTT
231848 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTTATAATTAAATTTT
Found at i:232135 original size:38 final size:37
Alignment explanation
Indices: 232062--232139 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
232052 ATTTTATATT
* *
232062 AATATATATTTAATTAAATTTAAATTAATCCAAATTTA
1 AATATATATTTAATTAAAGTTAAATCAATCCAAA-TTA
* **
232100 AATATATATTT-ATTCAAGTTAAACTCAATTTAAATTA
1 AATATATATTTAATTAAAGTTAAA-TCAATCCAAATTA
232137 AAT
1 AAT
232140 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (37 bp):
AATATATATTTAATTAAAGTTAAATCAATCCAAATTA
Found at i:233518 original size:21 final size:21
Alignment explanation
Indices: 233488--233531 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
233478 AAAAAAAATT
*
233488 ATAGTAAGATTAATTATTGTA
1 ATAGTAAGATTAAGTATTGTA
* *
233509 ATAGTGAGATTGAGTATTGTA
1 ATAGTAAGATTAAGTATTGTA
233530 AT
1 AT
233532 GATAAGTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
ATAGTAAGATTAAGTATTGTA
Found at i:233644 original size:28 final size:26
Alignment explanation
Indices: 233613--233676 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
233603 AGAGTATTTT
*
233613 ATTAAAATATTTATTTATATAATAAATA
1 ATTAAAATATATATTTATAT--TAAATA
233641 ATTATAAAT-TATATTTATATTAAATA
1 ATTA-AAATATATATTTATATTAAATA
233667 A-TAAAATATA
1 ATTAAAATATA
233677 AAAATTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 4 0.12
25 4 0.12
26 7 0.21
28 14 0.42
29 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAAAATATATATTTATATTAAATA
Found at i:233682 original size:32 final size:32
Alignment explanation
Indices: 233619--233707 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 32
233609 TTTTATTAAA
* *
233619 ATATTTATTTATATAAT-AAATAATTATAAATT
1 ATATTTATTTAAATAATAAAAT-ATTAAAAATT
233651 ATATTTATATTAAATAATAAAATA-TAAAAATT
1 ATATTTAT-TTAAATAATAAAATATTAAAAATT
*
233683 ATATTTATGTTGAATAATTAAAATA
1 ATATTTAT-TTAAATAA-TAAAATA
233708 GATTTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 30 0.60
33 16 0.32
34 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (32 bp):
ATATTTATTTAAATAATAAAATATTAAAAATT
Found at i:234581 original size:2 final size:2
Alignment explanation
Indices: 234574--234614 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
234564 CAAAGAGAAC
*
234574 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
234615 CATGAAACGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:236033 original size:15 final size:14
Alignment explanation
Indices: 235992--236034 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
235982 TTTAATTAAA
235992 TATTAAATTTTA-T
1 TATTAAATTTTATT
*
236005 TATTATATTTTTATT
1 TATTA-AATTTTATT
236020 TCATTAAATTTTATT
1 T-ATTAAATTTTATT
236035 ATCACGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 10 0.40
16 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTAAATTTTATT
Found at i:236146 original size:13 final size:13
Alignment explanation
Indices: 236128--236152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
236118 AATTGAAAAT
236128 AAAATTTAAATAA
1 AAAATTTAAATAA
236141 AAAATTTAAATA
1 AAAATTTAAATA
236153 TTTCATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTAAATAA
Found at i:236803 original size:13 final size:13
Alignment explanation
Indices: 236787--236837 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
236777 ATCTAAAAAT
236787 AAAATTTAATAAC
1 AAAATTTAATAAC
*
236800 AAAATTCAATCAAAC
1 AAAATTTAAT--AAC
* *
236815 AAAA-ATAAGAAC
1 AAAATTTAATAAC
236827 AAAATTTAATA
1 AAAATTTAATA
236838 TTCAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
12 7 0.24
13 13 0.45
14 2 0.07
15 7 0.24
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATTTAATAAC
Found at i:236828 original size:27 final size:28
Alignment explanation
Indices: 236762--236832 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
236752 ATCAAAGTAG
236762 AATAAAA-AAAATTCAATCTAAAAATAA
1 AATAAAACAAAATTCAATCTAAAAATAA
*
236789 AATTTAATAACAAAATTCAATC-AAACA-AA
1 AA--TAA-AACAAAATTCAATCTAAAAATAA
236818 AATAAGAACAAAATT
1 AATAA-AACAAAATT
236833 TAATATTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 14 0.37
29 7 0.18
30 6 0.16
31 11 0.29
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.23
Consensus pattern (28 bp):
AATAAAACAAAATTCAATCTAAAAATAA
Found at i:239223 original size:23 final size:23
Alignment explanation
Indices: 239197--239248 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
239187 TAAGCACTTG
239197 TAAAGATTATTT-A-ATTATTATTT
1 TAAA-ATTATTTCATATTA-TATTT
*
239220 TAAAATTTTTTCATATTATATTT
1 TAAAATTATTTCATATTATATTT
239243 TAAAAT
1 TAAAAT
239249 ACAATTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 16 0.62
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TAAAATTATTTCATATTATATTT
Found at i:241224 original size:2 final size:2
Alignment explanation
Indices: 241212--241243 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
241202 AAATTTTATT
*
241212 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
241244 AGGTAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:243219 original size:389 final size:388
Alignment explanation
Indices: 242765--243534 Score: 939
Period size: 389 Copynumber: 2.0 Consensus size: 388
242755 ATTCAAAAGT
242765 AAGTCAATTAAAAGTATAAAAAATATAATTAATTAAATAAAATATTTTAATATTTTAAATTAAAT
1 AAGTCAATTAAAAGTATAAAAAATATAATTAATTAAATAAAATATTTTAATA-TTTAAATTAAAT
* * * ** **
242830 CAAGTTAAAATAATTAAATATGTGAAACATAGCA-ACTTTTATGACTGTCCGTATACAAATAATA
65 CAAATTAAAATAATTAAATATGCGAAACAT-G-ATAATTTTATGACCATCCACATACAAATAATA
* *
242894 TAAACTATC-CATGTTAGTTAA-T-TATTTTTTTTAAAGGTTTT-GACTTTTATACATATATTAT
128 TAAACTATCACA-G-TAGATAATTATATTTTTTTTAAAAGTTTTAG-CTTTTATACATATATTAT
242955 ATAAGATTTTTATATTATTAATTATTAAAATTATTATCAATTACTATTTATTATTTAAACTTAAT
190 ATAAGA-TTTTATATTATTAATTATTAAAATTATTATCAATTACTA-TTATTATTTAAACTTAAT
* * * * * *
243020 TTATTTTTAAGA-TGAATTTAAATGACACTAAATTACCATTTGTAGA-AA-GCCTTTTTATAATA
253 TTATCTTAAAAATTGAATTTAAATGACACCAAATTACCATTTGCAGACAACGCCTATTTATAATA
* * * * * * *
243082 ATCA-GGTAAATAAATTTTATTTAATTTTTTTTTTGAGATATAAAAAGAAGAATAGAATTTTATG
318 AT-ATGCTAAATAAATTTAATTTAA-TATTTTTATGAGATAGAAAAAGAAAAATAAAATTTTATG
243146 TAAAAAAC
381 TAAAAAAC
*
243154 AAGTCAATTAAAAGTATAAAAAAAGTATAATTAATTATATAAAATATTTTAATA-TTAAATTAAA
1 AAGTCAATTAAAAGTAT-AAAAAA-TATAATTAATTAAATAAAATATTTTAATATTTAAATTAAA
* * *
243218 TCAAATTAAAATAATTAAATGTGCGATACATGATAATTTTATGACCATCCACATATAAATAATAT
64 TCAAATTAAAATAATTAAATATGCGAAACATGATAATTTTATGACCATCCACATACAAATAATAT
** * * * *
243283 AGTCTATCGACAGTGGATAATTATATTTTTTTTAAAAGTTTTAGTTTTTATATATTTATTATATA
129 AAACTATC-ACAGTAGATAATTATATTTTTTTTAAAAGTTTTAGCTTTTATACATATATTATATA
* * * * * *
243348 AGATTTTATATTTTTAATTATTGAAATTATTATCGATTATTATTATTATTTGAACTTGATTTATC
193 AGATTTTATATTATTAATTATTAAAATTATTATCAATTACTATTATTATTTAAACTTAATTTATC
* * * * * *
243413 TTAAAAATTGATTTTAAATGGCTCCAAATTACCATTTGCGGACAACTCCTATTTATAGTAATATG
258 TTAAAAATTGAATTTAAATGACACCAAATTACCATTTGCAGACAACGCCTATTTATAATAATATG
**
243478 CTAAATAAATTTAATTTAATATTTTTATGAGATAGGGAAAGAAAAATAAAATTTTAT
323 CTAAATAAATTTAATTTAATATTTTTATGAGATAGAAAAAGAAAAATAAAATTTTAT
243535 TTGTTTGCAT
Statistics
Matches: 323, Mismatches: 46, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
387 1 0.00
388 62 0.19
389 119 0.37
390 81 0.25
391 60 0.19
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (388 bp):
AAGTCAATTAAAAGTATAAAAAATATAATTAATTAAATAAAATATTTTAATATTTAAATTAAATC
AAATTAAAATAATTAAATATGCGAAACATGATAATTTTATGACCATCCACATACAAATAATATAA
ACTATCACAGTAGATAATTATATTTTTTTTAAAAGTTTTAGCTTTTATACATATATTATATAAGA
TTTTATATTATTAATTATTAAAATTATTATCAATTACTATTATTATTTAAACTTAATTTATCTTA
AAAATTGAATTTAAATGACACCAAATTACCATTTGCAGACAACGCCTATTTATAATAATATGCTA
AATAAATTTAATTTAATATTTTTATGAGATAGAAAAAGAAAAATAAAATTTTATGTAAAAAAC
Found at i:244666 original size:4 final size:4
Alignment explanation
Indices: 244657--244689 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
244647 CATTCGCCTT
244657 TAAA TAAA T--A TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
244690 TTACATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.07
4 25 0.93
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:245235 original size:14 final size:15
Alignment explanation
Indices: 245197--245263 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 15
245187 CTACCCATTT
245197 TATATTATA-TATATA
1 TATATTATATTATA-A
*
245212 TATATAATATTATAA
1 TATATTATATTATAA
245227 TA-ATTATATT-TAA
1 TATATTATATTATAA
*
245240 AATATTATA-TA-AA
1 TATATTATATTATAA
*
245253 TATATTTTATT
1 TATATTATATT
245264 TAAAATTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 14 0.33
14 14 0.33
15 11 0.26
16 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTATATTATAA
Found at i:245243 original size:23 final size:22
Alignment explanation
Indices: 245198--245259 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
245188 TACCCATTTT
* *
245198 ATATTATAT--ATATATATATA
1 ATATTATATAAATATATTTAAA
*
245218 ATATTATAATAATTATATTTAAA
1 ATATTAT-ATAAATATATTTAAA
245241 ATATTATATAAATATATTT
1 ATATTATATAAATATATTT
245260 TATTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.20
21 2 0.06
22 11 0.31
23 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTATATAAATATATTTAAA
Found at i:246210 original size:2 final size:2
Alignment explanation
Indices: 246195--246230 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
246185 TTCAAGTATG
* *
246195 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
246231 GCTTTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:251068 original size:139 final size:139
Alignment explanation
Indices: 250818--251098 Score: 517
Period size: 139 Copynumber: 2.0 Consensus size: 139
250808 ACCGTCGATA
*
250818 CACATTTTTGTTGCTATAATATGCCTTTGCAATTACGAAAAGAAAATAAAATCATGATTGTATTT
1 CACATTTTTGTTGCTAAAATATGCCTTTGCAATTACGAAAAGAAAATAAAATCATGATTGTATTT
*
250883 AATTAAAATTATTTGTCAAAATTATCGTGAATTATGATATGTGATTTTTCTTTAATAAAAAAGAG
66 AATTAAAATTATTTGTCAAAATTATCGTGAATTATGATATATGATTTTTCTTTAATAAAAAAGAG
250948 GTTGTACTC
131 GTTGTACTC
*
250957 CACATTTTTGTTGGTAAAATATGCCTTTGCAATTACGAAAAGAAAATAAAATCATGATTGTATTT
1 CACATTTTTGTTGCTAAAATATGCCTTTGCAATTACGAAAAGAAAATAAAATCATGATTGTATTT
* *
251022 CATTAAAATTATTTGTCAAAATTATCGTGAATTATGATATATGATTTTTCTTTAATATAAAAGAG
66 AATTAAAATTATTTGTCAAAATTATCGTGAATTATGATATATGATTTTTCTTTAATAAAAAAGAG
251087 GTTGTACTC
131 GTTGTACTC
251096 CAC
1 CAC
251099 TGAGTAAAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 137 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (139 bp):
CACATTTTTGTTGCTAAAATATGCCTTTGCAATTACGAAAAGAAAATAAAATCATGATTGTATTT
AATTAAAATTATTTGTCAAAATTATCGTGAATTATGATATATGATTTTTCTTTAATAAAAAAGAG
GTTGTACTC
Found at i:251427 original size:11 final size:11
Alignment explanation
Indices: 251413--251482 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
251403 GACACGTTTA
251413 TATATTTATAT
1 TATATTTATAT
251424 TATATTTATA-
1 TATATTTATAT
251434 TAT-TTTATAT
1 TATATTTATAT
251444 TATATTT-TAAT
1 TATATTTAT-AT
* *
251455 TATTTTTCATAA
1 TATATTT-ATAT
* *
251467 TATATTCATAA
1 TATATTTATAT
251478 TATAT
1 TATAT
251483 AATCATATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.12
10 7 0.14
11 30 0.60
12 6 0.12
13 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:251442 original size:20 final size:19
Alignment explanation
Indices: 251409--251450 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
251399 TTATGACACG
251409 TTTATATATTTATATTATA
1 TTTATATATTTATATTATA
251428 TTTATATATTTTATATTATA
1 TTTATATA-TTTATATTATA
251448 TTT
1 TTT
251451 TAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATATTTATATTATA
Found at i:251875 original size:19 final size:16
Alignment explanation
Indices: 251845--251904 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
251835 AAATTAAAAA
*
251845 TTAATAAAATATTTATT
1 TTAATAAAATA-TTAAT
251862 TTAATATAATATATTAAT
1 TTAATA-AA-ATATTAAT
* *
251880 TTAATAAAATTTTAAA
1 TTAATAAAATATTAAT
251896 TTATATAAA
1 TTA-ATAAA
251905 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.24
17 13 0.35
18 12 0.32
19 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAAAATATTAAT
Found at i:251903 original size:17 final size:16
Alignment explanation
Indices: 251842--251923 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 16
251832 TTTAAATTAA
251842 AAATTAATAAAATATTT
1 AAATTAATAAAAT-TTT
** *
251859 ATTTTAATATAATATATT
1 AAATTAATA-AA-ATTTT
*
251877 AATTTAATAAAATTTT
1 AAATTAATAAAATTTT
*
251893 AAATTATATAAACTTAATT
1 AAATTA-ATAAAATT--TT
*
251912 TAATTAATAAAA
1 AAATTAATAAAA
251924 AGTCAATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 9 0.18
17 16 0.31
18 17 0.33
19 9 0.18
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTAATAAAATTTT
Found at i:252043 original size:21 final size:20
Alignment explanation
Indices: 252006--252045 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
251996 TTAATTTTAT
252006 ATTAAATATTATATTATTAA
1 ATTAAATATTATATTATTAA
*
252026 ATTAAATATTTATTTTATTA
1 ATTAAATA-TTATATTATTA
252046 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAAATATTATATTATTAA
Found at i:252050 original size:20 final size:18
Alignment explanation
Indices: 251999--252065 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
251989 TAAAATTTTA
251999 ATTTTA-TATTAAATATT
1 ATTTTATTATTAAATATT
*
252016 ATATTATTAAATTAAATATTT
1 ATTTTATT--ATTAAATA-TT
*
252037 ATTTTATTATTTAA-ATT
1 ATTTTATTATTAAATATT
*
252054 ATATTTAATATT
1 AT-TTTATTATT
252066 TATTTAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.22
18 10 0.24
19 5 0.12
20 8 0.20
21 9 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATTATTAAATATT
Found at i:252067 original size:25 final size:24
Alignment explanation
Indices: 252002--252069 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
251992 AATTTTAATT
*
252002 TTATATTAAATATTATATTATTAAA
1 TTATATTTAATATT-TATTATTAAA
252027 TTAAATATTT-AT-TTTATTATTTAAA
1 TT--ATATTTAATATTTATTA-TTAAA
252052 TTATATTTAATATTTATT
1 TTATATTTAATATTTATT
252070 TAACTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 6 0.16
24 7 0.19
25 17 0.46
26 2 0.05
27 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATATTTAATATTTATTATTAAA
Found at i:252098 original size:19 final size:20
Alignment explanation
Indices: 252062--252099 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
252052 TTATATTTAA
* *
252062 TATTTATTTAACTTTAAAAC
1 TATTTATTTAAATATAAAAC
252082 TATTT-TTTAAATATAAAA
1 TATTTATTTAAATATAAAA
252100 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTATTTAAATATAAAAC
Found at i:255330 original size:18 final size:18
Alignment explanation
Indices: 255307--255345 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
255297 CGCCACCGCT
*
255307 GCCATGACCCTCTCCATA
1 GCCATGACCCTCGCCATA
*
255325 GCCATGTCCCTCGCCATA
1 GCCATGACCCTCGCCATA
255343 GCC
1 GCC
255346 TTCACCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.46, G:0.15, T:0.21
Consensus pattern (18 bp):
GCCATGACCCTCGCCATA
Found at i:256201 original size:17 final size:16
Alignment explanation
Indices: 256161--256226 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
256151 TTCAATTTAA
* *
256161 ATTTAAATAAACACTTA
1 ATTTAAATAAA-ATTTT
* *
256178 ATATAAATAAATTTTTT
1 ATTTAAATAAA-ATTTT
256195 ATTTAAAATAAAATTTT
1 ATTT-AAATAAAATTTT
*
256212 ATTAAAATATAAATT
1 ATTTAAATA-AAATT
256227 AAAATTTATG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 5 0.13
17 27 0.69
18 7 0.18
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATAAAATTTT
Found at i:256205 original size:18 final size:18
Alignment explanation
Indices: 256182--256226 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
256172 CACTTAATAT
*
256182 AAATAAATTTTTTATTTA
1 AAATAAATTTTTTATTAA
*
256200 AAATAAA-ATTTTATTAA
1 AAATAAATTTTTTATTAA
256217 AATATAAATT
1 AA-ATAAATT
256227 AAAATTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAAATTTTTTATTAA
Found at i:256218 original size:16 final size:18
Alignment explanation
Indices: 256191--256226 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
256181 TAAATAAATT
256191 TTTTATTTAAAATA-AAA
1 TTTTATTTAAAATATAAA
256208 TTTTA-TTAAAATATAAA
1 TTTTATTTAAAATATAAA
256225 TT
1 TT
256227 AAAATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTATTTAAAATATAAA
Found at i:257505 original size:2 final size:2
Alignment explanation
Indices: 257495--257535 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
257485 ATATTCTTGT
* *
257495 TA TA CA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
257536 CAGCTTGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:258069 original size:60 final size:60
Alignment explanation
Indices: 257976--258091 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
257966 TCGTTCTGAC
* *
257976 CCAGCTCGAGAGCCAGCATAGGAACCAGCAGATGAACCGGCTTCAGAACCTGCACCAGAG
1 CCAGCTCGAGACCCAGCATAGGAACCAGCAGATGAACCAGCTTCAGAACCTGCACCAGAG
* * *
258036 CCAGCTCGAGACCCAGCATGGGACCCGGCAGATGAACCAGCTTCAGAACCTGCACC
1 CCAGCTCGAGACCCAGCATAGGAACCAGCAGATGAACCAGCTTCAGAACCTGCACC
258092 TGACCCGCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.10
Consensus pattern (60 bp):
CCAGCTCGAGACCCAGCATAGGAACCAGCAGATGAACCAGCTTCAGAACCTGCACCAGAG
Found at i:258197 original size:24 final size:24
Alignment explanation
Indices: 258151--258197 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
258141 GAACTTGAAC
*
258151 CCCCAGATCCTGAACCGGCACCAG
1 CCCCAGATCCTGAACCGGAACCAG
* * *
258175 CCCCAGCTCCTGATCCTGAACCA
1 CCCCAGATCCTGAACCGGAACCA
258198 CCACCACCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.47, G:0.17, T:0.13
Consensus pattern (24 bp):
CCCCAGATCCTGAACCGGAACCAG
Found at i:265235 original size:20 final size:20
Alignment explanation
Indices: 265213--265249 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
265203 CTTTATTCTT
*
265213 TTTTGT-TTTTTTTTTTAAA
1 TTTTGTATTTTTCTTTTAAA
265232 TTTTGTATTTTTCTTTTA
1 TTTTGTATTTTTCTTTTA
265250 CGCAAGGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTGTATTTTTCTTTTAAA
Found at i:266703 original size:26 final size:25
Alignment explanation
Indices: 266639--266703 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
266629 TTTCGCTTTG
* *
266639 TTTTATTTAA-A-AATA-AAATAAT
1 TTTTATTTAATACAATATTAATAAA
*
266661 TTTTATTTAATATAATATTAATAAA
1 TTTTATTTAATACAATATTAATAAA
*
266686 TTTTATTATTATACAATA
1 TTTTATT-TAATACAATA
266704 AATTAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.29
23 1 0.03
24 4 0.11
25 12 0.34
26 8 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTATTTAATACAATATTAATAAA
Found at i:266900 original size:33 final size:32
Alignment explanation
Indices: 266830--266931 Score: 115
Period size: 33 Copynumber: 3.3 Consensus size: 32
266820 AATTTAATAA
*
266830 TTTATT-TTTGACATAAATATAATTTTAA---
1 TTTATTATTTAACATAAATATAATTTTAATTT
* *
266858 -TTATTATTTAATATCAATATATATTTTAATTT
1 TTTATTATTTAACATAAATATA-ATTTTAATTT
*
266890 TTTATTATTTAACATAAATTTAATTTTAATATT
1 TTTATTATTTAACATAAATATAATTTTAAT-TT
266923 TTTATTATT
1 TTTATTATT
266932 ATTTGTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.08
28 12 0.20
29 7 0.11
32 8 0.13
33 29 0.48
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTATTATTTAACATAAATATAATTTTAATTT
Found at i:267956 original size:16 final size:17
Alignment explanation
Indices: 267935--267976 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
267925 TATATATAAG
267935 TATAAATTTTAAAAAT-
1 TATAAATTTTAAAAATC
* *
267951 TATAAATATTCAAAATC
1 TATAAATTTTAAAAATC
267968 TA-AAATTTT
1 TATAAATTTT
267977 TAAATATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAAATTTTAAAAATC
Found at i:268023 original size:23 final size:22
Alignment explanation
Indices: 267928--268025 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 22
267918 ATATGTTTAT
* *
267928 ATATAAGTATAAATTTTAAAAA
1 ATATAAATATAAAATTTAAAAA
* * *
267950 TTATAAATATTCAAAATCTAAAAT
1 ATATAAATA-T-AAAATTTAAAAA
* * * **
267974 TTTTAAATATCAAATTATAAATG
1 ATATAAATATAAAATT-TAAAAA
267997 ATATAAATATAAAATATTAAAAA
1 ATATAAATATAAAAT-TTAAAAA
268020 ATATAA
1 ATATAA
268026 TAAATTATTG
Statistics
Matches: 57, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
22 11 0.19
23 28 0.49
24 18 0.32
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAAATATAAAATTTAAAAA
Found at i:269290 original size:15 final size:16
Alignment explanation
Indices: 269253--269292 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
269243 TTGATATTTA
269253 AAAATTT-TAAGTATT
1 AAAATTTATAAGTATT
269268 AAATATTTATAA-TATT
1 AAA-ATTTATAAGTATT
269284 AAAATTTAT
1 AAAATTTAT
269293 TTATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATTTATAAGTATT
Found at i:270274 original size:60 final size:60
Alignment explanation
Indices: 270204--270497 Score: 444
Period size: 60 Copynumber: 4.9 Consensus size: 60
270194 GCGGGTCAAG
* *
270204 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCGGGGTCTCGCGCTGGCTCTGA
1 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGA
*
270264 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCGGGGTCTCGAGCTGGCTCTGA
1 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGA
* *
270324 TGCAGGTTCTGAAGCTGGCTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGG
1 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGA
* * * * * *
270384 TTCAGGTTCTGAAGCTGGTTCATCCGCCGGTTCCTATGCTGGGTCTCAAGCTGGCTCTGG
1 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGA
* * * * *
270444 TGTAGGTTCTGAAGCTGGTTCATCTGCTGGTTCCTATGCTGGATCTCGAGCTGG
1 TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGG
270498 GTCAGGACAA
Statistics
Matches: 218, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 218 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.29
Consensus pattern (60 bp):
TGCAGGTTCTGAAGCTGGTTCATCTGCCGGGTCCCATGCTGGGTCTCGAGCTGGCTCTGA
Found at i:270974 original size:17 final size:17
Alignment explanation
Indices: 270952--270988 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
270942 GATATATATT
270952 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
**
270969 TAAATAATTTAAATAAA
1 TAAATAAAATAAATAAA
270986 TAA
1 TAA
270989 CATATATAGA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:270986 original size:13 final size:13
Alignment explanation
Indices: 270949--270988 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
270939 CATGATATAT
270949 ATTTAAATAAAATA
1 ATTTAAAT-AAATA
*
270963 A-ATAAATAAATA
1 ATTTAAATAAATA
270975 ATTTAAATAAATA
1 ATTTAAATAAATA
270988 A
1 A
270989 CATATATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 16 0.70
14 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTTAAATAAATA
Found at i:271380 original size:13 final size:13
Alignment explanation
Indices: 271364--271408 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
271354 AAATAAAATC
271364 AAAATTTAAATTT
1 AAAATTTAAATTT
271377 AAAATTTAAA-TT
1 AAAATTTAAATTT
* *
271389 AAATAATTAATTTT
1 AAA-ATTTAAATTT
271403 AAAATT
1 AAAATT
271409 CCAACAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:276580 original size:21 final size:20
Alignment explanation
Indices: 276550--276590 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
276540 TATGATATGC
276550 ATTTAAGTAAAATAAAAAATA
1 ATTTAAGT-AAATAAAAAATA
* *
276571 ATTTAGGTAAATAATAAATA
1 ATTTAAGTAAATAAAAAATA
276591 CTGATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
ATTTAAGTAAATAAAAAATA
Found at i:276922 original size:7 final size:7
Alignment explanation
Indices: 276910--276980 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
276900 CATATCAAAT
276910 TTTAAAA
1 TTTAAAA
276917 TTTAAAA
1 TTTAAAA
276924 TTT-AAA
1 TTTAAAA
276930 TTT-AAA
1 TTTAAAA
276936 TTATGAAAA
1 TT-T-AAAA
276945 TTTGGATAAA
1 TTT--A-AAA
*
276955 TTCAAAA
1 TTTAAAA
276962 TTT-AAA
1 TTTAAAA
*
276968 TATAAAA
1 TTTAAAA
276975 TTTAAA
1 TTTAAA
276981 TTTTTTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
6 16 0.30
7 24 0.44
8 2 0.04
9 7 0.13
10 5 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:278518 original size:2 final size:2
Alignment explanation
Indices: 278511--278540 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
278501 AATGTCAAAC
278511 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
278541 ATCAGACTCT
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:278689 original size:2 final size:2
Alignment explanation
Indices: 278684--278710 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
278674 TGTGTGTGTG
278684 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
278711 TAAAAACTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:279744 original size:2 final size:2
Alignment explanation
Indices: 279737--279791 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
279727 TTCTGGAGTC
* * * *
279737 AT AT AT AT AT AT AT AT AT AT TT AT TT AT TT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
279779 AT TT AT AT AT AT A
1 AT AT AT AT AT AT A
279792 AATTCAAATC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
AT
Found at i:279769 original size:16 final size:16
Alignment explanation
Indices: 279737--279791 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
279727 TTCTGGAGTC
*
279737 ATATATATATATATAT
1 ATATATATATATTTAT
* *
279753 ATATTTATTTATTTAT
1 ATATATATATATTTAT
*
279769 ATATATGTATATTTAT
1 ATATATATATATTTAT
279785 ATATATA
1 ATATATA
279792 AATTCAAATC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATATATATATATTTAT
Found at i:279771 original size:20 final size:20
Alignment explanation
Indices: 279737--279791 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
279727 TTCTGGAGTC
*
279737 ATATATATATATATATATAT
1 ATATTTATATATATATATAT
* * *
279757 TTATTTATTTATATATATGT
1 ATATTTATATATATATATAT
279777 ATATTTATATATATA
1 ATATTTATATATATA
279792 AATTCAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTTATATATATATATAT
Found at i:279959 original size:2 final size:2
Alignment explanation
Indices: 279954--279984 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
279944 TTTTCCTCTC
*
279954 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
279985 TTGTCTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:280892 original size:21 final size:22
Alignment explanation
Indices: 280858--280898 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
280848 AAAGAAAAAA
*
280858 TTTATTTAAATATG-AATAATT
1 TTTATATAAATATGTAATAATT
*
280879 TTTATATAATTATGTAATAA
1 TTTATATAAATATGTAATAA
280899 ATATAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTATATAAATATGTAATAATT
Done.