Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 4 of 17
Found at i:283600 original size:24 final size:23
Alignment explanation
Indices: 283552--283601 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
283542 ATATGATATT
* *
283552 TATTTATATTAAAATTTTTTAAA
1 TATTTATATTAAAAATTTATAAA
283575 TATTTA-ATTAAAAAATTTATATAA
1 TATTTATATT-AAAAATTTATA-AA
283599 TAT
1 TAT
283602 AAAATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 15 0.65
24 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTTATATTAAAAATTTATAAA
Found at i:283759 original size:20 final size:19
Alignment explanation
Indices: 283736--283830 Score: 65
Period size: 19 Copynumber: 5.0 Consensus size: 19
283726 ATTTATTAAA
283736 ATTTTTTAATAAATATTATT
1 ATTTTTT-ATAAATATTATT
* *
283756 A-TTTTTAT-TATATTAAT
1 ATTTTTTATAAATATTATT
* *
283773 ATTATTTT-TAAGTATTATA
1 ATT-TTTTATAAATATTATT
283792 ATTTTATT-TAAAATATTA-T
1 ATTTT-TTAT-AAATATTATT
*
283811 ATTTTTATATAAAAATTATT
1 ATTTTT-TATAAATATTATT
283831 TATATTAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
17 8 0.14
18 7 0.12
19 33 0.57
20 10 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTTTTATAAATATTATT
Found at i:283789 original size:36 final size:35
Alignment explanation
Indices: 283713--283801 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 35
283703 AGTAAAAAAT
283713 TATT-TAATTTTTTATTTATTAAAATTTTTTAATAAA
1 TATTATAA-TTTTTATTTATTAAAATTTTTT-ATAAA
* * *
283749 TATTATTATTTTTATTATATTAATATTATTTT-TAAG
1 TATTATAATTTTTATT-TATTAAAATT-TTTTATAAA
283785 TATTATAA-TTTTATTTA
1 TATTATAATTTTTATTTA
283802 AAATATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 2 0.04
35 7 0.15
36 22 0.48
37 11 0.24
38 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (35 bp):
TATTATAATTTTTATTTATTAAAATTTTTTATAAA
Found at i:283793 original size:21 final size:20
Alignment explanation
Indices: 283752--283800 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
283742 TAATAAATAT
*
283752 TATTATTTTTATTATATTAA
1 TATTATTTTTAGTATATTAA
283772 TATTATTTTTAAGTAT-TATAA
1 TATTATTTTT-AGTATAT-TAA
*
283793 TTTTATTT
1 TATTATTT
283801 AAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTTTAGTATATTAA
Found at i:283885 original size:15 final size:15
Alignment explanation
Indices: 283865--283903 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
283855 AATTTTAAAA
283865 TATTTATTTATATT-T
1 TATTTATTTAT-TTAT
283880 TATTTATTTATTTAT
1 TATTTATTTATTTAT
*
283895 TACTTATTT
1 TATTTATTT
283904 TAAATAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTATTTATTTAT
Found at i:283901 original size:19 final size:19
Alignment explanation
Indices: 283865--283903 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
283855 AATTTTAAAA
*
283865 TATTTATTTATATTTTATT
1 TATTTATTTATATCTTATT
283884 TATTTATTTAT-TACTTATT
1 TATTTATTTATAT-CTTATT
283903 T
1 T
283904 TAAATAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTATTTATATCTTATT
Found at i:288844 original size:30 final size:30
Alignment explanation
Indices: 288808--288880 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
288798 ACAACCACAG
*
288808 CCGCAGCTGCAGCCACAGCCACAGCCGCCT
1 CCGCAGCTGCAGCCACAGCCACAGCCACCT
* * ** *
288838 CTGCAGCAGCAGCTGCAGTCACAGCCACCT
1 CCGCAGCTGCAGCCACAGCCACAGCCACCT
*
288868 CCACAGCTGCAGC
1 CCGCAGCTGCAGC
288881 AGCAAGTGCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.45, G:0.23, T:0.10
Consensus pattern (30 bp):
CCGCAGCTGCAGCCACAGCCACAGCCACCT
Found at i:288878 original size:36 final size:36
Alignment explanation
Indices: 288805--288884 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
288795 GCAACAACCA
* * **
288805 CAGCCGCAGCTGCAGCCACAGCCACAGCCGCCTCTG
1 CAGCAGCAGCTGCAGCCACAGCCACAGCCACAGCTG
* **
288841 CAGCAGCAGCTGCAGTCACAGCCACCTCCACAGCTG
1 CAGCAGCAGCTGCAGCCACAGCCACAGCCACAGCTG
288877 CAGCAGCA
1 CAGCAGCA
288885 AGTGCAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.44, G:0.24, T:0.09
Consensus pattern (36 bp):
CAGCAGCAGCTGCAGCCACAGCCACAGCCACAGCTG
Found at i:288895 original size:3 final size:3
Alignment explanation
Indices: 288889--288921 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
288879 GCAGCAAGTG
288889 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
288922 AGACAACTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:294798 original size:3 final size:3
Alignment explanation
Indices: 294775--294820 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
294765 GATGACATCT
* *
294775 TTA TT- TTA TTA TTT TTG 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
294821 TAAATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:294971 original size:26 final size:27
Alignment explanation
Indices: 294942--294995 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
294932 GTTTTTTTAT
*
294942 ATATTTATTATAATT-AATTTATAATA
1 ATATTTATTATAATTAAAATTATAATA
*
294968 ATATTTATTATACTTAAAATTATAATA
1 ATATTTATTATAATTAAAATTATAATA
294995 A
1 A
294996 ATACGATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTTATTATAATTAAAATTATAATA
Found at i:295166 original size:13 final size:15
Alignment explanation
Indices: 295140--295202 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
295130 AAAAAATAAT
295140 AAATATTAATATTTA
1 AAATATTAATATTTA
295155 AAAT-TTAA-ATTTA
1 AAATATTAATATTTA
* *
295168 TTAAATATTATTTTTTA
1 --AAATATTAATATTTA
*
295185 AAAAATTAATTATTTA
1 AAATATTAA-TATTTA
295201 AA
1 AA
295203 TTAATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
13 5 0.13
14 4 0.11
15 15 0.39
16 10 0.26
17 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTAATATTTA
Found at i:296403 original size:29 final size:28
Alignment explanation
Indices: 296349--296403 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
296339 TAATAATTTA
* ***
296349 AAAAATATTATTATTATAATTTAATTAT
1 AAAAATATTATTACTATAAAAAAATTAT
296377 AAAAATATATATTACTATAAAAAAATT
1 AAAAATAT-TATTACTATAAAAAAATT
296404 TTATGAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAAATATTATTACTATAAAAAAATTAT
Found at i:296720 original size:19 final size:18
Alignment explanation
Indices: 296692--296730 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
296682 AAAAATTAAA
296692 AAATAAATATATTTATATT
1 AAATAAATATATTTAT-TT
* *
296711 AAATATATATTTTTATTT
1 AAATAAATATATTTATTT
296729 AA
1 AA
296731 CATTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATAAATATATTTATTT
Found at i:296878 original size:15 final size:15
Alignment explanation
Indices: 296862--296945 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 15
296852 ATTATATAAA
296862 AAATAATTAAAATA-
1 AAATAATTAAAATAT
296876 AAATATGATATAAAAATAT
1 AAATA--AT-T-AAAATAT
*
296895 ATATAATATAAATATAT
1 AAATAAT-TAAA-ATAT
*
296912 AAATATATTAAAATTT
1 AAATA-ATTAAAATAT
*
296928 AAATAATGAAAATTAT
1 AAATAATTAAAA-TAT
296944 AA
1 AA
296946 TGGTGAGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.09
15 6 0.11
16 17 0.30
17 17 0.30
18 8 0.14
19 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATAATTAAAATAT
Found at i:296893 original size:13 final size:12
Alignment explanation
Indices: 296875--296924 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
296865 TAATTAAAAT
296875 AAAATATGATATA
1 AAAATAT-ATATA
296888 AAAATATATAT-
1 AAAATATATATA
* *
296899 AATATAAATATA
1 AAAATATATATA
*
296911 TAAATATAT-TA
1 AAAATATATATA
296922 AAA
1 AAA
296925 TTTAAATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 13 0.43
12 10 0.33
13 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAATATATATA
Found at i:296898 original size:17 final size:16
Alignment explanation
Indices: 296878--296925 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
296868 TTAAAATAAA
296878 ATATGATATAAAAATAT
1 ATAT-ATATAAAAATAT
*
296895 ATATAATATAAATATAT
1 ATAT-ATATAAAAATAT
* *
296912 AAATATATTAAAAT
1 ATATATATAAAAAT
296926 TTAAATAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATATATAAAAATAT
Found at i:296911 original size:8 final size:8
Alignment explanation
Indices: 296883--296932 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
296873 ATAAAATATG
*
296883 ATATAAAA
1 ATATATAA
*
296891 ATATATAT
1 ATATATAA
296899 A-ATATAA
1 ATATATAA
296906 ATATATAA
1 ATATATAA
296914 ATATATTAA
1 ATATA-TAA
*
296923 A-ATTTAA
1 ATATATAA
296930 ATA
1 ATA
296933 ATGAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 10 0.29
8 21 0.60
9 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:298172 original size:23 final size:22
Alignment explanation
Indices: 298142--298184 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
298132 ATTTTTATTT
298142 AAATTTAATTATAAAA-ATATAA
1 AAATTTAA-TATAAAATATATAA
298164 AAATATTAATATAAAATATAT
1 AAAT-TTAATATAAAATATAT
298185 TTTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTTAATATAAAATATATAA
Found at i:298174 original size:14 final size:15
Alignment explanation
Indices: 298157--298185 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
298147 TAATTATAAA
298157 AATATAAAA-ATATT
1 AATATAAAATATATT
298171 AATATAAAATATATT
1 AATATAAAATATATT
298186 TTTTATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATAAAATATATT
Found at i:298337 original size:17 final size:17
Alignment explanation
Indices: 298298--298339 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
298288 AAGTTACGAT
298298 TTAATTTAATCAATAAA
1 TTAATTTAATCAATAAA
* *
298315 TAAATTTAATTTAAT-AA
1 TTAATTTAA-TCAATAAA
298332 TTAATTTA
1 TTAATTTA
298340 TAAAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATTTAATCAATAAA
Found at i:298394 original size:27 final size:28
Alignment explanation
Indices: 298327--298400 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 28
298317 AATTTAATTT
* *
298327 AATA-ATTAATTTA-TAAAAATATTAAT
1 AATATATTAATTTATTAAAAATATAAAA
* * *
298353 TATTTATTAAATTATTAAAAATATAAAA
1 AATATATTAATTTATTAAAAATATAAAA
*
298381 AATATA-TAATTTATTTAAAA
1 AATATATTAATTTATTAAAAA
298401 CCAATATAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.05
27 20 0.54
28 15 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AATATATTAATTTATTAAAAATATAAAA
Found at i:298472 original size:20 final size:20
Alignment explanation
Indices: 298443--298481 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
298433 AAAAAATAAT
298443 ATTATATTAATA-TTTAAAAA
1 ATTATATTAA-AGTTTAAAAA
*
298463 ATTATTTTAAAGTTTAAAA
1 ATTATATTAAAGTTTAAAA
298482 TAATAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
ATTATATTAAAGTTTAAAAA
Found at i:299561 original size:2 final size:2
Alignment explanation
Indices: 299554--299585 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
299544 TCATTGTCAA
299554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
299586 TATTAACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:299825 original size:33 final size:33
Alignment explanation
Indices: 299777--299856 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
299767 TAGTATTTAA
* *
299777 AATATTTTAT-TTTATATAAATTTTAATATGTT
1 AATAATTTATATTTATATAAATTTTAATATATT
* *
299809 AATAATTTATATTTATATAGATTTTGATATATT
1 AATAATTTATATTTATATAAATTTTAATATATT
299842 AAT-A-TTATA-TTATAT
1 AATAATTTATATTTATAT
299857 TTTAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.14
31 5 0.12
32 10 0.23
33 22 0.51
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAATATATT
Found at i:299866 original size:25 final size:25
Alignment explanation
Indices: 299770--299874 Score: 60
Period size: 25 Copynumber: 4.3 Consensus size: 25
299760 TTTATAATAG
* *
299770 TATTTA-AAATATTTTATTTTATATAA
1 TATTTATATATATTTTA-ATTAT-TAA
* * *
299796 -ATTT-TA-ATATGTTAATAATTTA
1 TATTTATATATATTTTAATTATTAA
* *
299818 TATTTATATAGATTTTGATATATTAA
1 TATTTATATATATTTTAAT-TATTAA
*
299844 TA-TTATATTATATTTTAATTATT-T
1 TATTTATA-TATATTTTAATTATTAA
299868 TATTTAT
1 TATTTAT
299875 CTTGTTCATA
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
22 2 0.03
23 7 0.12
24 11 0.18
25 25 0.42
26 15 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
TATTTATATATATTTTAATTATTAA
Found at i:300262 original size:3 final size:3
Alignment explanation
Indices: 300254--300301 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
300244 AGTAAGTGCA
* *
300254 ATT ATT ATT ATT GTT ATT -TT ATT ATT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
300301 A
1 A
300302 GTAGTAGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:301533 original size:19 final size:19
Alignment explanation
Indices: 301485--301535 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
301475 ATTAATATAA
*
301485 AATATATTTATAATGTTTT
1 AATATATTTTTAATGTTTT
*
301504 AATATTATTTTTAATTTTTT
1 AATA-TATTTTTAATGTTTT
*
301524 ATTATATTTTTA
1 AATATATTTTTA
301536 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
AATATATTTTTAATGTTTT
Found at i:301570 original size:32 final size:31
Alignment explanation
Indices: 301512--301571 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
301502 TTAATATTAT
* **
301512 TTTTAATTTTTTATTATATTTTTATTTAAAA
1 TTTTAATATTTTATTATATTAATATTTAAAA
*
301543 TTTTAATAATTTTATTTTATTAATATTTA
1 TTTTAAT-ATTTTATTATATTAATATTTA
301572 TGAATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 7 0.29
32 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTAATATTTTATTATATTAATATTTAAAA
Found at i:302148 original size:17 final size:18
Alignment explanation
Indices: 302120--302163 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
302110 TTAAAAATTA
302120 TTTTATTATTTAA-AATAG
1 TTTTA-TATTTAATAATAG
* *
302138 TTTTATATTTAATATTAT
1 TTTTATATTTAATAATAG
302156 TTTTATAT
1 TTTTATAT
302164 AAATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATATTTAATAATAG
Found at i:302159 original size:18 final size:16
Alignment explanation
Indices: 302114--302182 Score: 63
Period size: 17 Copynumber: 4.3 Consensus size: 16
302104 ATTAATTTAA
302114 AAATTATTTTATTATTT
1 AAATTATTTTA-TATTT
*
302131 AAAATAGTTTTATATTT
1 AAATTA-TTTTATATTT
*
302148 AATATTATTTT-TATAT
1 AA-ATTATTTTATATTT
*
302164 AAA-TA-TTTATAATT
1 AAATTATTTTATATTT
302178 AAATT
1 AAATT
302183 TAAATAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.07
14 8 0.19
15 2 0.05
16 6 0.14
17 16 0.37
18 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (16 bp):
AAATTATTTTATATTT
Found at i:306515 original size:18 final size:18
Alignment explanation
Indices: 306473--306523 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
306463 ATTTATCATT
* * *
306473 AAATTAATTAAAATTTTAT
1 AAATTAA-TATAATATTAA
306492 AAATTAATATAATATTAA
1 AAATTAATATAATATTAA
*
306510 AAATTAAAATAATA
1 AAATTAATATAATA
306524 AGTTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTAATATAATATTAA
Found at i:306552 original size:4 final size:4
Alignment explanation
Indices: 306545--306575 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
306535 TATATATATA
306545 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
306576 ACCGCTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:307305 original size:37 final size:36
Alignment explanation
Indices: 307264--307355 Score: 102
Period size: 35 Copynumber: 2.6 Consensus size: 36
307254 TCACTAAATC
* *
307264 TTACACTAAATAATAATAATATAT-ATTTTTTAAATAT
1 TTACA-TAAA-AATAAAAATATATAACTTTTTAAATAT
*
307301 TTACATATAAATAAAAATATATAACTTTTTAAATA-
1 TTACATAAAAATAAAAATATATAACTTTTTAAATAT
*
307336 TTA-A-AAAAATTAAAATATAT
1 TTACATAAAAATAAAAATATAT
307356 TAATATCGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 14 0.29
34 1 0.02
35 15 0.31
36 14 0.29
37 5 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (36 bp):
TTACATAAAAATAAAAATATATAACTTTTTAAATAT
Found at i:307707 original size:4 final size:4
Alignment explanation
Indices: 307698--307732 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
307688 GAAATTCATT
*
307698 TTAA TTAA TTAA TAAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
307733 CCCAAACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:309081 original size:17 final size:16
Alignment explanation
Indices: 309057--309114 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
309047 TTAAAACAAA
309057 AAAAAATATTATAAAT
1 AAAAAATATTATAAAT
* *
309073 AAGAAAATAAT-TAGA-
1 AA-AAAATATTATAAAT
*
309088 AAAAAA-ATTAAAAAT
1 AAAAAATATTATAAAT
309103 AAAAAAATATTA
1 -AAAAAATATTA
309115 AAAGAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
13 2 0.06
14 6 0.19
15 2 0.06
16 11 0.34
17 11 0.34
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAATATTATAAAT
Found at i:309124 original size:17 final size:16
Alignment explanation
Indices: 309085--309124 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
309075 GAAAATAATT
309085 AGAAAAAAAATTAAAA
1 AGAAAAAAAATTAAAA
*
309101 ATAAAAAAATATTAAAA
1 AGAAAAAAA-ATTAAAA
309118 GAGAAAA
1 -AGAAAA
309125 TCGTTACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AGAAAAAAAATTAAAA
Found at i:309574 original size:30 final size:31
Alignment explanation
Indices: 309540--309598 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
309530 ATAAATAATT
* *
309540 AATTAAATCATGATAAAAAAATAA-TTAACA
1 AATTAAATAATCATAAAAAAATAACTTAACA
* *
309570 AATTAATTAATCATAAAAAATTAACTTAA
1 AATTAAATAATCATAAAAAAATAACTTAA
309599 AATATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (31 bp):
AATTAAATAATCATAAAAAAATAACTTAACA
Found at i:309605 original size:2 final size:2
Alignment explanation
Indices: 309600--309637 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
309590 TTAACTTAAA
309600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
309638 TACCTGGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:311131 original size:21 final size:23
Alignment explanation
Indices: 311107--311150 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
311097 AATATAAATA
311107 TATTAATA-TAAA-AATAATTTT
1 TATTAATATTAAACAATAATTTT
311128 TATTAATATTTAAACAATAATTT
1 TATTAATA-TTAAACAATAATTT
311151 CAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATATTAAACAATAATTTT
Found at i:311526 original size:18 final size:17
Alignment explanation
Indices: 311505--311546 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
311495 AATATAACAT
311505 AATATAAATTAATAAATA
1 AATATAAATTAA-AAATA
* *
311523 AATAAAAATTTAAAATA
1 AATATAAATTAAAAATA
311540 AA-ATAAA
1 AATATAAA
311547 AATACATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAAATTAAAAATA
Found at i:311848 original size:19 final size:19
Alignment explanation
Indices: 311794--311839 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
311784 TTTTCTTATG
*
311794 AAAATTCTATATAATTCTC
1 AAAATTCTATATAATTTTC
*
311813 AAAATTCTTTATAATTTTC
1 AAAATTCTATATAATTTTC
311832 AAAATTCT
1 AAAATTCT
311840 CTACAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTCTATATAATTTTC
Found at i:312634 original size:16 final size:16
Alignment explanation
Indices: 312581--312636 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
312571 AAATTTTTTA
312581 TTATAA-ATTAAAATT
1 TTATAATATTAAAATT
* * **
312596 TTTTTATAAAAAAATT
1 TTATAATATTAAAATT
*
312612 ATA-AATATTAAAATT
1 TTATAATATTAAAATT
312627 TTATAATATT
1 TTATAATATT
312637 GATGTATCAT
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATATTAAAATT
Found at i:313500 original size:45 final size:42
Alignment explanation
Indices: 313419--313507 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
313409 GAATAAAATT
*
313419 AATAAAATAATATATAATTTTAATATATATTAAAAATTTAAA
1 AATAAAATAATATATAATTTTAATATATATTAAAAATTAAAA
*
313461 AATAAAATAA-ATTATTAATTTTTAA-ATTTATTTATAAAATTAAAA
1 AATAAAATAATA-TA-TAA-TTTTAATATATA-TTA-AAAATTAAAA
313506 AA
1 AA
313508 ATTTAATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 1 0.03
42 12 0.30
43 7 0.17
44 9 0.22
45 11 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (42 bp):
AATAAAATAATATATAATTTTAATATATATTAAAAATTAAAA
Found at i:317622 original size:19 final size:19
Alignment explanation
Indices: 317591--317637 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
317581 TATTAAAAAT
*
317591 ATAAAATAT-TATTTTATA
1 ATAAAATTTATATTTTATA
* *
317609 TTAATATTTATATTTTATA
1 ATAAAATTTATATTTTATA
317628 ATAAAATTTA
1 ATAAAATTTA
317638 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAAAATTTATATTTTATA
Found at i:318199 original size:44 final size:44
Alignment explanation
Indices: 318141--318224 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
318131 ATTTTATATT
*
318141 ATTTATAATCAAATTCAA-ATAAAAAATATTTTTATTTAAATAATA
1 ATTTATAATCAAATT-AATATAAAAAATA-TTTTATTCAAATAATA
* * *
318186 ATTTA-AATTAAATTAATTTATAAAATATTTTATTCAAAT
1 ATTTATAATCAAATTAATATAAAAAATATTTTATTCAAAT
318225 TTAATTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 13 0.38
44 16 0.47
45 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (44 bp):
ATTTATAATCAAATTAATATAAAAAATATTTTATTCAAATAATA
Found at i:319106 original size:3 final size:3
Alignment explanation
Indices: 319098--319138 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
319088 GATTGCCAAT
319098 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 TT
319139 TTACTGTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:329333 original size:13 final size:13
Alignment explanation
Indices: 329315--329353 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
329305 TTTTATTTTT
329315 TTAAATATTTATA
1 TTAAATATTTATA
*
329328 TTAAATATATAT-
1 TTAAATATTTATA
*
329340 TTAAATATTAATA
1 TTAAATATTTATA
329353 T
1 T
329354 AATATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAAATATTTATA
Found at i:329365 original size:23 final size:24
Alignment explanation
Indices: 329313--329367 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
329303 TTTTTTATTT
*
329313 TTTTAAATATTTATATTAAATATA
1 TTTTAAATATTAATATTAAATATA
329337 TATTTAAATATTAATA-T-AATATAA
1 T-TTTAAATATTAATATTAAATAT-A
329361 TTTTAAA
1 TTTTAAA
329368 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.39
24 4 0.14
25 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTAAATATTAATATTAAATATA
Found at i:329382 original size:18 final size:19
Alignment explanation
Indices: 329349--329398 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
329339 TTTAAATATT
329349 AATATAATATAATTTTAAAAA
1 AATA-AATA-AATTTTAAAAA
329370 AATAAA-AAATTTTAAAAA
1 AATAAATAAATTTTAAAAA
*
329388 ATTAAATAAAT
1 AATAAATAAAT
329399 AAATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 16 0.59
19 5 0.19
20 2 0.07
21 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATAAATTTTAAAAA
Found at i:330350 original size:2 final size:2
Alignment explanation
Indices: 330343--330369 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
330333 ACCACAAATT
330343 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
330370 GATAAATAGA
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:332539 original size:11 final size:11
Alignment explanation
Indices: 332523--332548 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
332513 AAATTATACC
332523 ATTTTAATTAT
1 ATTTTAATTAT
332534 ATTTTAATTAT
1 ATTTTAATTAT
332545 ATTT
1 ATTT
332549 AAATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTAATTAT
Found at i:332580 original size:29 final size:28
Alignment explanation
Indices: 332530--332585 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
332520 ACCATTTTAA
**
332530 TTATATTTTAATTATATTTAAATAAATTT
1 TTATATTTTAATTATAAATAAA-AAATTT
* *
332559 TTATATTTTTATTTTAAATAAAAAATT
1 TTATATTTTAATTATAAATAAAAAATT
332586 AAATTAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATATTTTAATTATAAATAAAAAATTT
Found at i:332597 original size:17 final size:17
Alignment explanation
Indices: 332572--332621 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
332562 TATTTTTATT
332572 TTAAATAAAAAATTAAA
1 TTAAATAAAAAATTAAA
* * *
332589 TTAAGTAAACAATTTAA
1 TTAAATAAAAAATTAAA
*
332606 TTAAAT-ATAAATTAAA
1 TTAAATAAAAAATTAAA
332622 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAAAAATTAAA
Found at i:332624 original size:22 final size:22
Alignment explanation
Indices: 332582--332627 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
332572 TTAAATAAAA
*
332582 AATTAAATTAAGTAAACAATTT
1 AATTAAATTAAATAAACAATTT
*
332604 AATTAAATATAAATTAA-AATTT
1 AATTAAAT-TAAATAAACAATTT
332626 AA
1 AA
332628 AAATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTAAATTAAATAAACAATTT
Found at i:332624 original size:34 final size:32
Alignment explanation
Indices: 332572--332669 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 32
332562 TATTTTTATT
*
332572 TTAAATAAAAAATT-AAATTAAGTAAACAATTTAA
1 TTAAAT-ATAAATTAAAATTAA-TAAA-AATTTAA
*
332606 TTAAATATAAATTAAAATT--TAAAAATTTAT
1 TTAAATATAAATTAAAATTAATAAAAATTTAA
* *
332636 TTAAATATTAATTAATAATTAATAATTAATTTAA
1 TTAAATATAAATTAA-AATTAATAA-AAATTTAA
332670 AAATAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
30 20 0.37
31 8 0.15
33 9 0.17
34 17 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (32 bp):
TTAAATATAAATTAAAATTAATAAAAATTTAA
Found at i:332633 original size:30 final size:30
Alignment explanation
Indices: 332594--332689 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
332584 TTAAATTAAG
332594 TAAACAATTTAATTAAATATAAATTAAAATT
1 TAAA-AATTTAATTAAATATAAATTAAAATT
* *
332625 TAAAAATTTATTTAAATATTAATTAATAA-T
1 TAAAAATTTAATTAAATATAAATTAA-AATT
* *
332655 TAATAA-TTAATTTAAAAATAAATT-AAATAT
1 TAAAAATTTAA-TTAAATATAAATTAAAAT-T
332685 TAAAA
1 TAAAA
332690 TTTGTTTTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
28 2 0.04
29 4 0.07
30 42 0.78
31 6 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAAATTTAATTAAATATAAATTAAAATT
Found at i:333259 original size:22 final size:22
Alignment explanation
Indices: 333233--333275 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
333223 TTTTAATTAT
* *
333233 ATTTAGTTAATTTATTTTTTAA
1 ATTTAGTTAAATTATTATTTAA
*
333255 ATTTATTTAAATTATTATTTA
1 ATTTAGTTAAATTATTATTTA
333276 TATAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTAGTTAAATTATTATTTAA
Found at i:333321 original size:25 final size:23
Alignment explanation
Indices: 333284--333329 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
333274 TATATAATTA
333284 ATTAATTAATTTTAATTATAAAT
1 ATTAATTAATTTTAATTATAAAT
*
333307 ATTAATATAAATTTTTATTATAA
1 ATTAAT-T-AATTTTAATTATAA
333330 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAATTAATTTTAATTATAAAT
Found at i:333337 original size:30 final size:32
Alignment explanation
Indices: 333296--333354 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
333286 TAATTAATTT
*
333296 TAATTATAAATATTAATATAA-ATTTTTATTA
1 TAATTATAAATAATAATATAATATTTTTATTA
333327 TAATT-TAAATAATAATATAATATTTTTA
1 TAATTATAAATAATAATATAATATTTTTA
333355 AATTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TAATTATAAATAATAATATAATATTTTTATTA
Found at i:333362 original size:31 final size:29
Alignment explanation
Indices: 333295--333367 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
333285 TTAATTAATT
* *
333295 TTAATTATAAATATTAATATAAATTTTTAT
1 TTAATT-TAAATAATAATATAAATTTTTAA
333325 TATAATTTAAATAATAATATAATATTTTTAAA
1 T-TAATTTAAATAATAATATAA-ATTTTT-AA
*
333357 TTAATTAAAAT
1 TTAATTTAAAT
333368 TAAATTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 15 0.41
31 20 0.54
32 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATTTAAATAATAATATAAATTTTTAA
Found at i:335941 original size:4 final size:4
Alignment explanation
Indices: 335932--335956 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
335922 ATTTAAAATC
335932 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
335957 TTATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:336636 original size:5 final size:5
Alignment explanation
Indices: 336622--336652 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
336612 TGACTTCTTA
*
336622 TTATC CTATC TTATC TTATC TTATC TTATC T
1 TTATC TTATC TTATC TTATC TTATC TTATC T
336653 ATACTCGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATC
Found at i:337030 original size:11 final size:11
Alignment explanation
Indices: 336959--337045 Score: 51
Period size: 12 Copynumber: 8.0 Consensus size: 11
336949 TAAATTTTAA
336959 TATATTTATAT
1 TATATTTATAT
*
336970 AATAATATTATAT
1 TAT-AT-TTATAT
336983 TA-ATTT-T-T
1 TATATTTATAT
336991 TAT-TTTATCA-
1 TATATTTAT-AT
*
337001 TAT-TTTAAAT
1 TATATTTATAT
*
337011 TATTTTTTATAT
1 TA-TATTTATAT
337023 TATATTTATAT
1 TATATTTATAT
*
337034 CATATTTTATAT
1 TATA-TTTATAT
337046 AATTAATAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
8 6 0.10
9 3 0.05
10 11 0.18
11 16 0.27
12 17 0.28
13 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:337030 original size:23 final size:23
Alignment explanation
Indices: 336974--337045 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
336964 TTATATAATA
336974 ATATTATA-TT-AATT-TTTTATT
1 ATATTATATTTAAATTATTTT-TT
* *
336995 TTATCATATTTTAAATTATTTTTT
1 ATATTATA-TTTAAATTATTTTTT
* * *
337019 ATATTATATTTATATCATATTTT
1 ATATTATATTTAAATTATTTTTT
337042 ATAT
1 ATAT
337046 AATTAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 6 0.15
23 18 0.45
24 12 0.30
25 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTATATTTAAATTATTTTTT
Found at i:339805 original size:24 final size:23
Alignment explanation
Indices: 339779--339822 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
339769 TATATATAAA
339779 TATATATA-TT-T-TTAATTTTT
1 TATATATACTTATATTAATTTTT
339799 TATATATACTTATATTAATTTTT
1 TATATATACTTATATTAATTTTT
339822 T
1 T
339823 TTAATCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 2 0.10
22 1 0.05
23 10 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TATATATACTTATATTAATTTTT
Found at i:339806 original size:2 final size:2
Alignment explanation
Indices: 339755--339787 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
339745 TCGTAAATGT
*
339755 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
339788 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:342204 original size:2 final size:2
Alignment explanation
Indices: 342197--342221 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
342187 ATTAAATTTC
342197 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
342222 ATTGTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:343500 original size:18 final size:17
Alignment explanation
Indices: 343467--343513 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
343457 AATTTTAACG
343467 ATTTCAAAATTTATTTTATT
1 ATTT-AAAA-TTATTTTA-T
343487 ATTTAAAATTATTTTAT
1 ATTTAAAATTATTTTAT
*
343504 ATTAAAAATT
1 ATTTAAAATT
343514 TATATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.38
18 8 0.31
19 4 0.15
20 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAAAATTATTTTAT
Found at i:343516 original size:18 final size:19
Alignment explanation
Indices: 343472--343516 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
343462 TAACGATTTC
*
343472 AAAATTTATTTTATTATTT
1 AAAATTTATTTTATTATTA
343491 AAAA-TTATTTTA-TATTA
1 AAAATTTATTTTATTATTA
343508 AAAATTTAT
1 AAAATTTAT
343517 ATATTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAATTTATTTTATTATTA
Found at i:343531 original size:22 final size:21
Alignment explanation
Indices: 343496--343536 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
343486 TATTTAAAAT
343496 TATTTTATATTAAAAATTTATA
1 TATTTTATATT-AAAATTTATA
343518 TATTTTATGA-TAAAATTTA
1 TATTTTAT-ATTAAAATTTA
343537 AATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 9 0.50
23 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTATATTAAAATTTATA
Found at i:343608 original size:15 final size:15
Alignment explanation
Indices: 343573--343611 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
343563 TAGTTATTTG
* *
343573 AATTAAATTAAGATA
1 AATTAAATTAAAAAA
*
343588 ATTTAAATTAAAAAA
1 AATTAAATTAAAAAA
343603 AATTAAATT
1 AATTAAATT
343612 TAGGTCCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AATTAAATTAAAAAA
Found at i:344147 original size:29 final size:30
Alignment explanation
Indices: 344083--344149 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
344073 TAATATTTTA
*
344083 AAATATATTTTTAATTTAATTCTTAATAATT
1 AAATA-ATTTTTAATTAAATTCTTAATAATT
* *
344114 TAATAATTTTTTATTAAATT-TTAA-AATAT
1 AAATAATTTTTAATTAAATTCTTAATAAT-T
344143 AAATAAT
1 AAATAAT
344150 ATAAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.10
29 11 0.35
30 13 0.42
31 4 0.13
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
AAATAATTTTTAATTAAATTCTTAATAATT
Found at i:356253 original size:37 final size:38
Alignment explanation
Indices: 356182--356261 Score: 153
Period size: 37 Copynumber: 2.1 Consensus size: 38
356172 TTTAATATAT
356182 TTAAAATTCAAATTTTATCATTTTTTTTTTGCCTATCC
1 TTAAAATTCAAATTTTATCATTTTTTTTTTGCCTATCC
356220 TTAAAATTCAAATTTTATCA-TTTTTTTTTGCCTATCC
1 TTAAAATTCAAATTTTATCATTTTTTTTTTGCCTATCC
356257 TTAAA
1 TTAAA
356262 CTATGATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 22 0.52
38 20 0.48
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.54
Consensus pattern (38 bp):
TTAAAATTCAAATTTTATCATTTTTTTTTTGCCTATCC
Found at i:359726 original size:20 final size:19
Alignment explanation
Indices: 359678--359726 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
359668 TTTAAATAGT
**
359678 AAAATATTTTATTTATTTA
1 AAAATATTTTATGGATTTA
359697 AAAATAATTTTGATGGATTTA
1 AAAAT-ATTTT-ATGGATTTA
359718 AAAATATTT
1 AAAATATTT
359727 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
AAAATATTTTATGGATTTA
Found at i:359943 original size:14 final size:15
Alignment explanation
Indices: 359924--359955 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
359914 TAACTTTTTA
359924 TAAATATAA-TATTT
1 TAAATATAATTATTT
359938 TAAATATAATTATTT
1 TAAATATAATTATTT
359953 TAA
1 TAA
359956 TTATGATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATAATTATTT
Found at i:369016 original size:26 final size:26
Alignment explanation
Indices: 368986--369055 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
368976 ATATGTCAAG
368986 TATTAAATATAT-TAAAATATATAAT
1 TATTAAATATATATAAAATATATAAT
** * *
369011 TAATTATTTA-ATATAAAATTTTTAAT
1 T-ATTAAATATATATAAAATATATAAT
369037 TATTAAATATATATTAAAA
1 TATTAAATATATA-TAAAA
369056 AATAATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 9 0.26
26 21 0.60
27 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTAAATATATATAAAATATATAAT
Found at i:369154 original size:17 final size:18
Alignment explanation
Indices: 369132--369166 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
369122 AAATTTAATA
*
369132 ATTAATT-TATTAAAAAT
1 ATTAATTATATCAAAAAT
369149 ATTAATTATATCAAAAAT
1 ATTAATTATATCAAAAAT
369167 TACGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAATTATATCAAAAAT
Found at i:369154 original size:21 final size:22
Alignment explanation
Indices: 369104--369156 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
369094 AGTATATAAT
369104 AAATATT-ATT-ATATTATTAA
1 AAATATTAATTAATATTATTAA
** *
369124 ATTTAATAATTAAT-TTATTAA
1 AAATATTAATTAATATTATTAA
369145 AAATATTAATTA
1 AAATATTAATTA
369157 TATCAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTAATTAATATTATTAA
Found at i:369968 original size:18 final size:18
Alignment explanation
Indices: 369923--369974 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
369913 AGATTAATTA
*
369923 TATTTAAATTACTATTTTT
1 TATTTAAATTA-AATTTTT
* **
369942 AATAAAAATTAAATTTTT
1 TATTTAAATTAAATTTTT
*
369960 TATTTAAATTTAATT
1 TATTTAAATTAAATT
369975 ATAAATATAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAAATTAAATTTTT
Found at i:370860 original size:11 final size:11
Alignment explanation
Indices: 370846--370906 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 11
370836 AATTTTGAAT
*
370846 ATTTAGATATA
1 ATTTAAATATA
370857 ATTTAAATATA
1 ATTTAAATATA
* *
370868 ATATAAAAATA
1 ATTTAAATATA
370879 A-TTAAA-A-A
1 ATTTAAATATA
370887 A--TAAATATA
1 ATTTAAATATA
*
370896 ATATAAATATA
1 ATTTAAATATA
370907 TAAATTTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 4 0.10
8 3 0.07
9 3 0.07
10 4 0.10
11 28 0.67
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
ATTTAAATATA
Found at i:370947 original size:15 final size:15
Alignment explanation
Indices: 370929--370979 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
370919 AATTTATATA
370929 ATATAAATTATTAAT
1 ATATAAATTATTAAT
*
370944 ATATAATATT-TTAAA
1 ATATAA-ATTATTAAT
*
370959 ATAAAAATTA-TAAT
1 ATATAAATTATTAAT
*
370973 ACATAAA
1 ATATAAA
370980 AAAAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.38
15 15 0.52
16 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:372337 original size:24 final size:24
Alignment explanation
Indices: 372310--372403 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 24
372300 AACAATTAAT
372310 TAAAATATTTTTTAAATTTAATTA
1 TAAAATATTTTTTAAATTTAATTA
*
372334 TAAAATAATTTTTAATATTTAATATA
1 TAAAATATTTTTTAA-ATTTAAT-TA
* *
372360 TTTAAAATATTTAATTTAATTTTAAATCA
1 --TAAAATATTT--TTTAAATTT-AATTA
*
372389 T-AAATTTTTTTTAAA
1 TAAAATATTTTTTAAA
372404 CTAAGATTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
24 19 0.33
25 7 0.12
26 9 0.16
27 1 0.02
28 9 0.16
29 4 0.07
30 8 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAATATTTTTTAAATTTAATTA
Found at i:372353 original size:25 final size:23
Alignment explanation
Indices: 372293--372356 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
372283 GATCAGTTTG
*
372293 AATTTTTAACAATTAA-TTAAAAT
1 AATTTTTAA-ATTTAATTTAAAAT
*
372316 ATTTTTTAAATTTAATTATAAAAT
1 AATTTTTAAATTTAATT-TAAAAT
372340 AATTTTTAATATTTAAT
1 AATTTTTAA-ATTTAAT
372357 ATATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.14
23 9 0.26
24 14 0.40
25 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTAAATTTAATTTAAAAT
Found at i:372362 original size:18 final size:18
Alignment explanation
Indices: 372337--372384 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
372327 TTAATTATAA
372337 AATA-ATTTTTAATATTT
1 AATATATTTTTAATATTT
**
372354 AATATATTTAAAATATTT
1 AATATATTTTTAATATTT
* *
372372 AATTTAATTTTAA
1 AATATATTTTTAA
372385 ATCATAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATATTTTTAATATTT
Found at i:372968 original size:17 final size:17
Alignment explanation
Indices: 372943--372976 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
372933 TTTTTATATC
*
372943 AAATTTAAATAATTTAT
1 AAATATAAATAATTTAT
*
372960 AAATATAAATATTTTAT
1 AAATATAAATAATTTAT
372977 TTATTCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATAAATAATTTAT
Found at i:374120 original size:28 final size:27
Alignment explanation
Indices: 374081--374154 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 27
374071 AAATTTTTTG
*
374081 TATTTAAAATATTT-TA--AAAAAT-A
1 TATTTAATATATTTATATTAAAAATAA
*
374104 T-TTTATTATATTTATATTAAAAATAA
1 TATTTAATATATTTATATTAAAAATAA
374130 TATTTAATATA-TT-T-TTAAAAATAA
1 TATTTAATATATTTATATTAAAAATAA
374154 T
1 T
374155 TAAATAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
22 10 0.23
23 3 0.07
24 11 0.26
25 7 0.16
26 4 0.09
27 8 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTTAATATATTTATATTAAAAATAA
Found at i:377424 original size:21 final size:21
Alignment explanation
Indices: 377385--377425 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
377375 TATTAAAATA
*
377385 ATATTTTATTTTAATATTTAT
1 ATATTTTATATTAATATTTAT
377406 ATATTTTATAATTAA-ATTTA
1 ATATTTTAT-ATTAATATTTA
377426 AATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTATATTAATATTTAT
Found at i:377435 original size:23 final size:21
Alignment explanation
Indices: 377408--377473 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
377398 ATATTTATAT
377408 ATTTTATAATTAAATTTAAATAA
1 ATTTTATAATT-AA-TTAAATAA
* *
377431 ATTTTTTTATTAATTAAATAA
1 ATTTTATAATTAATTAAATAA
* * *
377452 TAATTTA-AATCAATTGAATAA
1 -ATTTTATAATTAATTAAATAA
377473 A
1 A
377474 ATTCAAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.03
21 19 0.54
22 6 0.17
23 9 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTTATAATTAATTAAATAA
Found at i:377466 original size:21 final size:20
Alignment explanation
Indices: 377442--377481 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
377432 TTTTTTTATT
*
377442 AATTAAATAATAATTTAAATC
1 AATTAAATAA-AATTCAAATC
*
377463 AATTGAATAAAATTCAAAT
1 AATTAAATAAAATTCAAAT
377482 AAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AATTAAATAAAATTCAAATC
Found at i:381695 original size:15 final size:15
Alignment explanation
Indices: 381675--381717 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
381665 AATTATGTTT
*
381675 TATTTAATAA-TTTGA
1 TATTTAA-AATTTTAA
381690 TATTTAAAATTTTAA
1 TATTTAAAATTTTAA
381705 TATTT-AAATTTTA
1 TATTTAAAATTTTA
381718 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TATTTAAAATTTTAA
Found at i:384889 original size:21 final size:19
Alignment explanation
Indices: 384838--384889 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
384828 TTATTATTTA
*
384838 TAAATTAATA-AAATATTT
1 TAAATTAATATAAATAATT
384856 TAAAATTATATATAAATAAATT
1 T-AAATTA-ATATAAAT-AATT
384878 TAAATTTAATAT
1 TAAA-TTAATAT
384890 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 6 0.21
20 3 0.11
21 11 0.39
22 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATTAATATAAATAATT
Found at i:386654 original size:22 final size:22
Alignment explanation
Indices: 386629--386672 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
386619 TGCGAATACT
*
386629 TAAAATATATATTTTTTTAAAA
1 TAAAATATATAATTTTTTAAAA
386651 TAAAATATATAATTTTTTAAAA
1 TAAAATATATAATTTTTTAAAA
386673 CTATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATATATAATTTTTTAAAA
Found at i:387075 original size:16 final size:16
Alignment explanation
Indices: 387056--387189 Score: 66
Period size: 16 Copynumber: 8.6 Consensus size: 16
387046 ATAAAAATTT
387056 AATAATTTAAACTTAA
1 AATAATTTAAACTTAA
*
387072 AATAATTTTAA-TATAA
1 AATAATTTAAACT-TAA
** * *
387088 AA-AATCCGATACTTGA
1 AATAAT-TTAAACTTAA
* ** *
387104 AATGAGATAAACTCAA
1 AATAATTTAAACTTAA
**
387120 AATAATTTAAACTCGA
1 AATAATTTAAACTTAA
* *
387136 ATTAATTCAAACTTTAA
1 AATAATTTAAAC-TTAA
387153 AAT-A-TT-AACTTAA
1 AATAATTTAAACTTAA
*
387166 AATAA-ATAAACTT-A
1 AATAATTTAAACTTAA
387180 AATAATTTAA
1 AATAATTTAA
387190 TTTAATTTTA
Statistics
Matches: 85, Mismatches: 25, Indels: 17
0.67 0.20 0.13
Matches are distributed among these distances:
13 7 0.08
14 11 0.13
15 13 0.15
16 48 0.56
17 6 0.07
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (16 bp):
AATAATTTAAACTTAA
Found at i:387522 original size:50 final size:53
Alignment explanation
Indices: 387453--387568 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 53
387443 TTATCTTTTA
* * *
387453 AAATATATTTT-TATATTACAATTTT-ATGTATTTTTAA-TAT-TTTTAATTAT
1 AAATATATTTTAAATATTACAATTTTAATGTA-ATTTAATTATATTTAAATTAT
* *
387503 AAATATATTTTAAAT-TTACATTTTTAATTTAATTTAATTATATTTAAATTAT
1 AAATATATTTTAAATATTACAATTTTAATGTAATTTAATTATATTTAAATTAT
*
387555 AATTATATTTTAAA
1 AAATATATTTTAAA
387569 ATATATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
50 25 0.45
51 9 0.16
52 22 0.39
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (53 bp):
AAATATATTTTAAATATTACAATTTTAATGTAATTTAATTATATTTAAATTAT
Found at i:387568 original size:18 final size:18
Alignment explanation
Indices: 387489--387573 Score: 79
Period size: 18 Copynumber: 4.8 Consensus size: 18
387479 TGTATTTTTA
* *
387489 ATATTTTTAATTATAAAT
1 ATATTTTAAATTATAATT
387507 ATATTTTAAATT-TACATTT
1 ATATTTTAAATTATA-A-TT
* *
387526 TTAATTT-AATT-TAATT
1 ATATTTTAAATTATAATT
387542 ATA-TTTAAATTATAATT
1 ATATTTTAAATTATAATT
*
387559 ATATTTTAAAATATA
1 ATATTTTAAATTATA
387574 TTTTTTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.05
16 8 0.14
17 11 0.20
18 28 0.50
19 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTTTAAATTATAATT
Found at i:387804 original size:16 final size:16
Alignment explanation
Indices: 387762--387804 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
387752 CGGTATAATT
*
387762 ATATAATATAATTATA
1 ATATAATATAATTAAA
* *
387778 ATAAAAAATAATTAAA
1 ATATAATATAATTAAA
*
387794 ATGTAATATAA
1 ATATAATATAA
387805 ATCTTTTTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATATAATATAATTAAA
Found at i:387878 original size:11 final size:10
Alignment explanation
Indices: 387859--387888 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
387849 TAATAAAATA
387859 AAATATATAT
1 AAATATATAT
387869 AAATATTATAT
1 AAATA-TATAT
387880 AAATATATA
1 AAATATATA
387889 AATTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATATATAT
Found at i:388741 original size:30 final size:33
Alignment explanation
Indices: 388668--388741 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 33
388658 GATTAATGGA
388668 TATTTATAAAAAAAAATTTATCACTCATAACTTT
1 TATTT-TAAAAAAAAATTTATCACTCATAACTTT
*
388702 T-TTTT-AAAAAAAA-TTAT-A-TCA-AATTATT
1 TATTTTAAAAAAAAATTTATCACTCATAACT-TT
388730 TATTTTAAAAAA
1 TATTTTAAAAAA
388742 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 3 0.08
28 6 0.17
29 5 0.14
30 9 0.25
31 8 0.22
32 1 0.03
33 3 0.08
34 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (33 bp):
TATTTTAAAAAAAAATTTATCACTCATAACTTT
Found at i:389055 original size:6 final size:6
Alignment explanation
Indices: 389044--389093 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
389034 ATTAAATTTG
* *
389044 TTAAAT TTAAAT TTAAA- AT-AAT TTAAAT TTAAAA TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
389089 TTAAA
1 TTAAA
389094 ATAATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 2 0.05
5 6 0.16
6 29 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:389105 original size:17 final size:16
Alignment explanation
Indices: 389047--389103 Score: 105
Period size: 16 Copynumber: 3.5 Consensus size: 16
389037 AAATTTGTTA
389047 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
389063 AATTTAAATTTAAAATT
1 AATTTAAATTTAAAA-T
389080 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
389096 AATTTAAA
1 AATTTAAA
389104 ATATGAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 24 0.60
17 16 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAAATTTAAAAT
Found at i:392614 original size:15 final size:15
Alignment explanation
Indices: 392598--392632 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
392588 TTTAAGTTAT
392598 TTTTAATTT-ATTTA
1 TTTTAATTTGATTTA
392612 TTTTAATTTGATTTA
1 TTTTAATTTGATTTA
*
392627 ATTTAA
1 TTTTAA
392633 AATTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTAATTTGATTTA
Found at i:395852 original size:5 final size:5
Alignment explanation
Indices: 395842--395964 Score: 57
Period size: 5 Copynumber: 25.2 Consensus size: 5
395832 TGGTATAATT
* * * *
395842 ATATA ATATA AT-T- ATATAA AAATA ATTAAA ATATA ATATA A-ATA TTTTA
1 ATATA ATATA ATATA ATAT-A ATATA A-TATA ATATA ATATA ATATA ATATA
* * * *
395891 AAATTA ATATA ATATA A-ATT AT-TA ATATA TGATTATA ATAAA ATAAA
1 ATA-TA ATATA ATATA ATATA ATATA ATATA --A-TATA ATATA ATATA
395938 ATAT- ATA-A ATATA ATATA A-AT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
395965 ATCATTACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
3 3 0.03
4 21 0.24
5 49 0.55
6 11 0.12
7 1 0.01
8 4 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:395884 original size:11 final size:11
Alignment explanation
Indices: 395819--395961 Score: 71
Period size: 11 Copynumber: 12.3 Consensus size: 11
395809 AATAAATCTC
395819 ATAATATTAAAT
1 ATAATA-TAAAT
**
395831 ATGGTATAATTAT
1 ATAATATAA--AT
395844 ATAATAT-AAT
1 ATAATATAAAT
*
395854 -T-ATATAAAA
1 ATAATATAAAT
395863 ATAAT-TAAAAT
1 ATAATAT-AAAT
395874 ATAATATAAAT
1 ATAATATAAAT
* *
395885 ATTTTAAAATTAAT
1 A---TAATATAAAT
395899 ATAATATAAATT
1 ATAATATAAA-T
*
395911 ATTAATATATGATT
1 A-TAATATA--AAT
395925 ATAATA-AAAT
1 ATAATATAAAT
*
395935 AAAATATATAAAT
1 -ATA-ATATAAAT
395948 ATAATATAAAT
1 ATAATATAAAT
395959 ATA
1 ATA
395962 TAAATCATTA
Statistics
Matches: 100, Mismatches: 14, Indels: 35
0.67 0.09 0.23
Matches are distributed among these distances:
8 4 0.04
9 3 0.03
10 6 0.06
11 38 0.38
12 14 0.14
13 23 0.23
14 11 0.11
15 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:395943 original size:23 final size:24
Alignment explanation
Indices: 395896--395959 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
395886 TTTTAAAATT
* *
395896 AATATAATATAAATTATTAATATATG
1 AATATAATATAAA-TA-AAATATATA
*
395922 ATTATAATA-AAATAAAATATATA
1 AATATAATATAAATAAAATATATA
395945 AATATAATATAAATA
1 AATATAATATAAATA
395960 TATAAATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 15 0.45
24 7 0.21
25 3 0.09
26 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATAATATAAATAAAATATATA
Found at i:395964 original size:36 final size:34
Alignment explanation
Indices: 395842--395965 Score: 107
Period size: 38 Copynumber: 3.6 Consensus size: 34
395832 TGGTATAATT
*
395842 ATATAATAT-AATTATATAAAA-ATAAT-TA-AA
1 ATATAATATAAATTATATAAAATAAAATATATAA
* *
395872 ATATAATATAAA-TATTTTAAAATTAATATAATATAA
1 ATATAATATAAATTA-TATAAAA-TAAAAT-ATATAA
*
395908 ATTATTAATATATGATTATAATAAAATAAAATATATAA
1 A-TA-TAATATA-AATTAT-ATAAAATAAAATATATAA
395946 ATATAATATAAA-TATATAAA
1 ATATAATATAAATTATATAAA
395966 TCATTACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
30 11 0.15
31 8 0.11
33 8 0.11
34 3 0.04
35 3 0.04
36 10 0.13
37 4 0.05
38 14 0.19
39 7 0.09
40 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (34 bp):
ATATAATATAAATTATATAAAATAAAATATATAA
Found at i:397390 original size:27 final size:28
Alignment explanation
Indices: 397340--397416 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 28
397330 TTTTAATATT
* * * *
397340 ATATTTTTATTATAATTA-AAAAATAAA
1 ATATTATTATTATTATTATTAAATTAAA
*
397367 ATATTATTATTATTATTATTAAATTTAA
1 ATATTATTATTATTATTATTAAATTAAA
*
397395 ATTTTA-TATTCATTA-TATTAAA
1 ATATTATTATT-ATTATTATTAAA
397417 ATTATTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
27 27 0.64
28 15 0.36
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (28 bp):
ATATTATTATTATTATTATTAAATTAAA
Found at i:398586 original size:14 final size:14
Alignment explanation
Indices: 398567--398613 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
398557 GTTTTATTTA
398567 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
398581 TTAATAATATAAAT
1 TTAATAATAAAAAT
398595 TGATAA-AATTAAAAAT
1 T--TAATAA-TAAAAAT
398611 TTA
1 TTA
398614 TGGTATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 16 0.57
15 2 0.07
16 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:399319 original size:229 final size:229
Alignment explanation
Indices: 399084--399541 Score: 907
Period size: 229 Copynumber: 2.0 Consensus size: 229
399074 ATTGATATAT
399084 TTTAAAATTTTAAAATCAATATAAAATATATTTTAAAATTTTAAAATTTATACTATTTACCCTTT
1 TTTAAAATTTTAAAATCAATATAAAATATATTTTAAAATTTTAAAATTTATACTATTTACCCTTT
399149 CTTTTATGTTGCACTTAAATTACGTTTATAGGTATAGATTAAAAGTTATTTAATTATCACCTTAA
66 CTTTTATGTTGCACTTAAATTACGTTTATAGGTATAGATTAAAAGTTATTTAATTATCACCTTAA
399214 AATTTTTTATTTAATATATTATTTTTACTAAATTAAAAGAATACCTTAATTATATATTTTTTATA
131 AATTTTTTATTTAATATATTATTTTTACTAAATTAAAAGAATACCTTAATTATATATTTTTTATA
399279 ACTAACATTCTCATTAGTTTATTGGATTCTTTTA
196 ACTAACATTCTCATTAGTTTATTGGATTCTTTTA
399313 TTTAAAATTTTAAAATCAATATAAAATATATTTTAAAATTTTAAAATTTATACTATTTACCCTTT
1 TTTAAAATTTTAAAATCAATATAAAATATATTTTAAAATTTTAAAATTTATACTATTTACCCTTT
*
399378 CTTTTATGTTGCACTTAAATTACGTTTATAGGTATAGATTAAAAGTTATTTAATTATCACTTTAA
66 CTTTTATGTTGCACTTAAATTACGTTTATAGGTATAGATTAAAAGTTATTTAATTATCACCTTAA
399443 AATTTTTTATTTAATATATTATTTTTACTAAATTAAAAGAATACCTTAATTATATATTTTTTATA
131 AATTTTTTATTTAATATATTATTTTTACTAAATTAAAAGAATACCTTAATTATATATTTTTTATA
399508 ACTAACATTCTCATTAGTTTATTGGATTCTTTTA
196 ACTAACATTCTCATTAGTTTATTGGATTCTTTTA
399542 CGAGGATGAA
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 228 1.00
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (229 bp):
TTTAAAATTTTAAAATCAATATAAAATATATTTTAAAATTTTAAAATTTATACTATTTACCCTTT
CTTTTATGTTGCACTTAAATTACGTTTATAGGTATAGATTAAAAGTTATTTAATTATCACCTTAA
AATTTTTTATTTAATATATTATTTTTACTAAATTAAAAGAATACCTTAATTATATATTTTTTATA
ACTAACATTCTCATTAGTTTATTGGATTCTTTTA
Found at i:401802 original size:21 final size:21
Alignment explanation
Indices: 401778--401824 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
401768 GGCAGTTCAA
401778 GCACAGGCGGAGTTGAGTACT
1 GCACAGGCGGAGTTGAGTACT
401799 GCACAGGCGGAGTTGAGTACT
1 GCACAGGCGGAGTTGAGTACT
*
401820 TCACA
1 GCACA
401825 AGACAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (21 bp):
GCACAGGCGGAGTTGAGTACT
Found at i:404060 original size:2 final size:2
Alignment explanation
Indices: 404053--404081 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
404043 ACTTTACGGA
404053 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
404082 AACAACGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:406909 original size:11 final size:11
Alignment explanation
Indices: 406895--406943 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
406885 TTTTTTATTT
*
406895 TTTATGTTATA
1 TTTATATTATA
*
406906 TTTATATAATA
1 TTTATATTATA
406917 TTTATATTAT-
1 TTTATATTATA
406927 TTTAATATTATAA
1 TTT-ATATTAT-A
406940 TTTA
1 TTTA
406944 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 3 0.09
11 25 0.78
12 1 0.03
13 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTATATTATA
Found at i:408440 original size:5 final size:5
Alignment explanation
Indices: 408432--408466 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
408422 AATGGAAAGG
408432 AATAA AATAA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA
408467 CTAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:408721 original size:22 final size:21
Alignment explanation
Indices: 408689--408743 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
408679 AAAATGTATG
* *
408689 TATTTAAAATTTAATTTAATTAA
1 TATTTATAATTTAAATT--TTAA
408712 T-TTTATAATTTAAATTTTAA
1 TATTTATAATTTAAATTTTAA
408732 TATTTATAATTT
1 TATTTATAATTT
408744 TTTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 13 0.45
23 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTATAATTTAAATTTTAA
Found at i:408750 original size:15 final size:15
Alignment explanation
Indices: 408709--408751 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
408699 TTAATTTAAT
*
408709 TAATTTTATAATTTA
1 TAATTTTATTATTTA
*
408724 -AATTTTAATATTTA
1 TAATTTTATTATTTA
*
408738 TAATTTTTTTATTT
1 TAATTTTATTATTT
408752 TTATATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTTATTATTTA
Found at i:408751 original size:29 final size:29
Alignment explanation
Indices: 408689--408751 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
408679 AAAATGTATG
408689 TATTTAAAATTTAATTTAATTAATTTTAT
1 TATTTAAAATTTAATTTAATTAATTTTAT
* * * *
408718 AATTTAAATTTTAATATTTA-TAATTTTTT
1 TATTTAAAATTTAAT-TTAATTAATTTTAT
408747 TATTT
1 TATTT
408752 TTATATTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTAAAATTTAATTTAATTAATTTTAT
Found at i:411636 original size:19 final size:21
Alignment explanation
Indices: 411601--411646 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
411591 TTTTATTTAC
411601 AATA-TATCTAAACTTAA-TT
1 AATATTATCTAAACTTAACTT
*
411620 AATATTATCT-AATTTAACTT
1 AATATTATCTAAACTTAACTT
411640 AAT-TTAT
1 AATATTAT
411647 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATTATCTAAACTTAACTT
Found at i:411982 original size:25 final size:26
Alignment explanation
Indices: 411932--411988 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
411922 CTAAAATGGG
*
411932 ATAATATTTAATATAATTATATAAAT
1 ATAATATTTAATATAATTATAAAAAT
411958 ATAATATTT-ATA-AATTTATAAAAAT
1 ATAATATTTAATATAA-TTATAAAAAT
411983 ATAATA
1 ATAATA
411989 GGGTAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 18 0.62
26 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATTTAATATAATTATAAAAAT
Found at i:412055 original size:32 final size:33
Alignment explanation
Indices: 412010--412102 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 33
412000 AAATATATTT
* *
412010 TTAAAATTTATATAATATAAATTTTTAATAT-A
1 TTAAAATTAATATAATATAAATTTTAAATATAA
*
412042 TTAAAATTAATATAA-A-ATATTTTAAATATAA
1 TTAAAATTAATATAATATAAATTTTAAATATAA
* *
412073 TTATAATATAATATAATATATAAATTTAAA
1 TTAAAAT-TAATATAATATA-AATTTTAAA
412103 GTTAAGATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 11 0.22
31 8 0.16
32 22 0.44
33 1 0.02
34 1 0.02
35 7 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
TTAAAATTAATATAATATAAATTTTAAATATAA
Found at i:412073 original size:21 final size:22
Alignment explanation
Indices: 412036--412078 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
412026 ATAAATTTTT
412036 AATATATTAAAATTAA-TATAA
1 AATATATTAAAATTAATTATAA
*
412057 AATAT-TTTAAATATAATTATAA
1 AATATATTAAAAT-TAATTATAA
412079 TATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATATTAAAATTAATTATAA
Done.