Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 70 of 175
Found at i:20786244 original size:16 final size:16
Alignment explanation
Indices: 20786223--20786266 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
20786213 TTAAAAATAA
20786223 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
20786239 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
20786255 GTAAGTTATGTA
1 GTAAGTTATGTA
20786267 TAATATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:20786284 original size:25 final size:25
Alignment explanation
Indices: 20786256--20786347 Score: 103
Period size: 25 Copynumber: 3.4 Consensus size: 25
20786246 ATGTAAGTTG
20786256 TAAGTTATGTATAATATTAAATAAC
1 TAAGTTATGTATAATATTAAATAAC
* * *
20786281 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGT-A-TAATAT-TAA-A-TAA-C
20786312 TAAGTTATGTATAATATTAAATAAC
1 TAAGTTATGTATAATATTAAATAAC
20786337 TAAGTTATGTA
1 TAAGTTATGTA
20786348 ATTTTTGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 21 0.38
26 4 0.07
27 5 0.09
28 6 0.11
29 5 0.09
30 4 0.07
31 10 0.18
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (25 bp):
TAAGTTATGTATAATATTAAATAAC
Found at i:20786319 original size:22 final size:22
Alignment explanation
Indices: 20786287--20786331 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
20786277 TAACTAAGTT
*
20786287 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20786309 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20786331 A
1 A
20786332 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20786444 original size:13 final size:13
Alignment explanation
Indices: 20786396--20786507 Score: 54
Period size: 13 Copynumber: 8.4 Consensus size: 13
20786386 TATAATTAAC
20786396 TAATTAAGTTATG
1 TAATTAAGTTATG
*
20786409 TAATTTATGTATATTAAG
1 TAA-TTAAGT-TA-T--G
20786427 TAATTAAGTTATG
1 TAATTAAGTTATG
*
20786440 TAATTTATGTATAT-
1 TAA-TTAAGT-TATG
*
20786454 TAACTAA-TTATG
1 TAATTAAGTTATG
* *
20786466 TTATGTAATTTATG
1 TAAT-TAAGTTATG
**
20786480 T-A-TAA-TTAAC
1 TAATTAAGTTATG
20786490 TAATTAAGTTATG
1 TAATTAAGTTATG
20786503 TAATT
1 TAATT
20786508 TATGTATATT
Statistics
Matches: 75, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
10 4 0.05
11 7 0.09
12 6 0.08
13 21 0.28
14 19 0.25
15 6 0.08
16 3 0.04
17 5 0.07
18 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (13 bp):
TAATTAAGTTATG
Found at i:20786445 original size:94 final size:94
Alignment explanation
Indices: 20786325--20787654 Score: 1759
Period size: 94 Copynumber: 14.3 Consensus size: 94
20786315 GTTATGTATA
* * * * *
20786325 ATATTAAATAACTAAGTTATGTAATTTTTGTATAAT-ATTAATGTATGTTATGTAATTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTAATTTATGTAT
20786389 AATTAACTAATTAAGTTATGTAATTTATGT
65 AATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786419 ATATTAAGTAATTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAATTTATGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTATA
20786484 ATTAACTAATTAAGTTATGTAATTTATGT
66 ATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20786513 ATATTAACTAATTAAGTTATGTAATTTCTGTATAAT-ATTAATGTATGTTATTTAATTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTAATTTATGTAT
*
20786577 AATTAACTAATTATGTTATGTAATTTATGT
65 AATTAACTAATTAAGTTATGTAATTTATGT
* *
20786607 ATAATTAACTAATTAAGTTATGTAATTTATGTATATTAAGTAATTAAGTTATGTAATTTATGTAT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTAT
*
20786672 -ATTAACTAATTAAGTTATGTAATTTTTGT
65 AATTAACTAATTAAGTTATGTAATTTATGT
* * * * *
20786701 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTGACTAATTATGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAA-TAACTAATTAAGTTATGTAATTTATGTA
20786765 TAATTAACTAATTAAGTTATGTAATTTATGT
64 TAATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786796 ATATTAAGTTATGTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGT-A--TA---A
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTAATTTATGTA
*
20786854 T-ATTAAATAATTAAGTTATGTAATTTATGT
64 TAATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20786884 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTATGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAA-TAACTAATTAAGTTATGTAATTTATGTA
20786948 T-ATTAACTAATTAAGTTATGTAATTTATGT
64 TAATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20786978 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTATGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAA-TAACTAATTAAGTTATGTAATTTATGTA
20787042 TAATTAACTAATTAAGTTATGTAATTTATGT
64 TAATTAACTAATTAAGTTATGTAATTTATGT
* *
20787073 ATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTCTGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTATA
* *
20787138 A-T-ATTAATGTATGTTATGTAATTTATGT
66 ATTAACTAAT-TAAGTTATGTAATTTATGT
* *
20787166 ATAATTAACTAATTAAGTTATGTAATTTATGTATATTAAGTAATTAAGTTATGTAATTTATGTAT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTAT
*
20787231 -ATTAACTAATTAAGTTATGTAATTTCTGT
65 AATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20787260 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAGTTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAA-TAACTAATTAAGTTATGTAATTTATGTA
*
20787324 T-ATTAAGTAATTAAGTTATGTAATTTATGT
64 TAATTAACTAATTAAGTTATGTAATTTATGT
* *
20787354 ATATTAAGTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTATA
* *
20787419 A-T-ATTAATGTATGTTATGTAATTTATGT
66 ATTAACTAAT-TAAGTTATGTAATTTATGT
* *
20787447 ATAATTAACTAATTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTAT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTAT
*
20787512 AA-T-ATTAATGTAAGTTATGT-A--TA---
65 AATTAACTAAT-TAAGTTATGTAATTTATGT
* * *
20787535 ATATTAAATAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTATGTTATGTAATTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTAATTTATGTAT
*
20787599 AATTAACTAATTATGTTATGTAATTTATGT
65 AATTAACTAATTAAGTTATGTAATTTATGT
20787629 ATATTAACTAATGTAAGTTATGTAAT
1 ATATTAACTAAT-TAAGTTATGTAAT
20787655 ATCTTATATT
Statistics
Matches: 1118, Mismatches: 79, Indels: 77
0.88 0.06 0.06
Matches are distributed among these distances:
86 5 0.00
87 80 0.07
88 54 0.05
89 14 0.01
91 6 0.01
92 22 0.02
93 123 0.11
94 602 0.54
95 175 0.16
96 37 0.03
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (94 bp):
ATATTAACTAATTAAGTTATGTAATTTATGTATAATAACTAATTAAGTTATGTAATTTATGTATA
ATTAACTAATTAAGTTATGTAATTTATGT
Found at i:20786520 original size:125 final size:125
Alignment explanation
Indices: 20786325--20787654 Score: 1757
Period size: 125 Copynumber: 10.7 Consensus size: 125
20786315 GTTATGTATA
* * * * *
20786325 ATATTAAATAACTAAGTTATGTAATTTTTGTATAA-T-ATTAATGTATGTTATGTAATTTATGTA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAAT-TAAGTTATGTAATTTATGTA
*
20786388 TAATTAACTAATTAAGTTATGTAATTTATGTATATTAAGTAATTAAGTTATGTAATTTATGT
65 T-ATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGT
*
20786450 ATATTAACTAATTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
* * * * *
20786515 ATTAACTAATTAAGTTATGTAATTTCTGTATAAT-ATTAATGTATGTTATTTAATTTATGT
66 ATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20786575 ATAATTAACTAATTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
1 AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
* *
20786640 TATTAAGTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTTTGT
65 TATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGT
* * * * *
20786701 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTGACTAATTATGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
* *
20786765 TAATTAACTAATTAAGTTATGTAATTTATGTATATTAAGTTATGTAAGTTATGTAATTTATGT
65 T-ATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGT
* * *
20786828 ATAAT-ATTAATGTAAGTTATGT-A--TA---AT-ATTAAATAATTAAGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
* * * *
20786885 TAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTATGTTATGTAATTTATGT
65 TATTAACTAAT-TAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGT
* *
20786947 ATATTAACTAATTAAGTTATGTAATTTATGTATAA-T-ATTAATGTATGTTATGTAATTTATGTA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAAT-TAAGTTATGTAATTTATGTA
*
20787010 TAATTAACTAATTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGT
65 T-ATTAACTAATTAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20787073 ATATTAACTAATTAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTCTGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
* * *
20787137 AAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGT
66 ATTAACTAAT-TAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGT
* *
20787198 ATATTAAGTAATTAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTCTGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
* * * *
20787262 AAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAGTTTATGT
66 ATTAACTAAT-TAAGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGT
* *
20787323 ATATTAAGTAATTAAGTTATGTAATTTATGTAT-ATTAAGTAATTAAGTTATGTAATTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
* * *
20787387 ATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTATGTTATGTAATTTATGT
66 ATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787447 ATAATTAACTAATTATGTTATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGTA
1 AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
* * *
20787511 TAAT-ATTAATGTAAGTTATGT-A--TA---ATATTAAATAATTAAGTTATGTAATTTATGT
65 TATTAACTAAT-TAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20787566 ATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTATGTTATGTAATTTATGTA
1 ATATTAACTAAT-TAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTA
20787630 TATTAACTAATGTAAGTTATGTAAT
65 TATTAACTAAT-TAAGTTATGTAAT
20787655 ATCTTATATT
Statistics
Matches: 1099, Mismatches: 72, Indels: 71
0.88 0.06 0.06
Matches are distributed among these distances:
117 5 0.00
118 28 0.03
119 110 0.10
120 63 0.06
121 3 0.00
122 4 0.00
123 5 0.00
124 49 0.04
125 490 0.45
126 283 0.26
127 59 0.05
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (125 bp):
ATATTAACTAATTAAGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTAT
ATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGT
Found at i:20786875 original size:25 final size:22
Alignment explanation
Indices: 20786815--20786859 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
20786805 TATGTAAGTT
*
20786815 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20786837 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20786859 A
1 A
20786860 ATAATTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20787345 original size:22 final size:21
Alignment explanation
Indices: 20787300--20787410 Score: 79
Period size: 22 Copynumber: 5.2 Consensus size: 21
20787290 TATAATTAAC
*
20787300 TAATTAAGTTATGT-AGTTTATG
1 TAATTAAGTAAT-TAAG-TTATG
20787322 TATATTAAGTAATTAAGTTATG
1 TA-ATTAAGTAATTAAGTTATG
* *
20787344 TAATTTATGT-A-T-A-TTAAG
1 TAA-TTAAGTAATTAAGTTATG
* *
20787362 TAATTAAGTTATGTAATTTATG
1 TAATTAAGTAAT-TAAGTTATG
*
20787384 TATATTAACTAATTAAGTTATG
1 TA-ATTAAGTAATTAAGTTATG
20787406 TAATT
1 TAATT
20787411 TATGTATAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.07
18 8 0.11
19 1 0.01
20 2 0.03
21 6 0.08
22 31 0.43
23 19 0.26
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.49
Consensus pattern (21 bp):
TAATTAAGTAATTAAGTTATG
Found at i:20787547 original size:56 final size:58
Alignment explanation
Indices: 20787431--20787652 Score: 252
Period size: 63 Copynumber: 3.7 Consensus size: 58
20787421 ATTAATGTAT
* *
20787431 GTTATGTAATTTATGTATAATTAACTAAT-TATGTTATGTAATTTATGTATATTAACTAATTAA
1 GTTATGTAATTTATGTATAA-T-ATTAATGTAAGTTATGT-A-TTA--TATATTAACTAATTAA
*
20787494 GTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA-TA-ATATTAAATAATTAA
1 GTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATTATATATTAACTAATTAA
* *
20787550 GTTATGTAATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAT
1 GTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A-TTA--TAT-ATTAACTAATTAA
* *
20787613 GTTATGTAATTTATGTATATTAACTAATGTAAGTTATGTA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTA
20787653 ATATCTTATA
Statistics
Matches: 141, Mismatches: 9, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
56 51 0.36
57 1 0.01
59 4 0.03
61 6 0.04
62 12 0.09
63 52 0.37
64 15 0.11
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (58 bp):
GTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATTATATATTAACTAATTAA
Found at i:20787557 original size:25 final size:22
Alignment explanation
Indices: 20787497--20787541 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
20787487 TAATTAAGTT
*
20787497 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20787519 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20787541 A
1 A
20787542 ATAATTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20787663 original size:31 final size:31
Alignment explanation
Indices: 20786325--20787654 Score: 1752
Period size: 31 Copynumber: 42.8 Consensus size: 31
20786315 GTTATGTATA
* * *
20786325 ATATTAAATAACTAAGTTATGTAATTTTTGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786356 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
20786387 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20786419 ATATTAAGTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
20786450 ATATTAACTAATTATGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
20786481 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20786513 ATATTAACTAATTAAGTTATGTAATTTCTGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * * *
20786544 ATAAT-ATTAATGTATGTTATTTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20786575 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20786607 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20786639 ATATTAAGTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
20786670 ATATTAACTAATTAAGTTATGTAATTTTTGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786701 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
* *
20786732 ATAATTGACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20786764 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
* *
20786796 ATATTAAGTTATGTAAGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
* *
20786828 ATAAT-ATTAATGTAAGTTATGT-A--TA---
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20786853 ATATTAAATAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786884 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20786915 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20786947 ATATTAACTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20786978 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787009 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20787041 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20787073 ATATTAACTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
20787104 ATATTAACTAATTAAGTTATGTAATTTCTGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20787135 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
20787166 ATAATTAACTAATTAAGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20787198 ATATTAAGTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
20787229 ATATTAACTAATTAAGTTATGTAATTTCTGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20787260 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787291 ATAATTAACTAATTAAGTTATGTAGTTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
*
20787323 ATATTAAGTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
20787354 ATATTAAGTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
20787385 ATATTAACTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20787416 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787447 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20787479 ATATTAACTAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* *
20787510 ATAAT-ATTAATGTAAGTTATGT-A--TA---
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787535 ATATTAAATAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20787566 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787597 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20787629 ATATTAACTAATGTAAGTTATGTAAT
1 ATATTAACTAAT-TAAGTTATGTAAT
20787655 ATCTTATATT
Statistics
Matches: 1164, Mismatches: 90, Indels: 89
0.87 0.07 0.07
Matches are distributed among these distances:
25 28 0.02
26 12 0.01
28 8 0.01
30 51 0.04
31 661 0.57
32 359 0.31
33 45 0.04
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (31 bp):
ATATTAACTAATTAAGTTATGTAATTTATGT
Found at i:20787664 original size:31 final size:31
Alignment explanation
Indices: 20787535--20787654 Score: 161
Period size: 32 Copynumber: 3.8 Consensus size: 31
20787525 GTTATGTATA
*
20787535 ATATTAAATAATTAAGTTATGTAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* * *
20787566 ATAAT-ATTAATGTATGTTATGTAATTTATGT
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
*
20787597 ATAATTAACTAATTATGTTATGTAATTTATGT
1 AT-ATTAACTAATTAAGTTATGTAATTTATGT
20787629 ATATTAACTAATGTAAGTTATGTAAT
1 ATATTAACTAAT-TAAGTTATGTAAT
20787655 ATCTTATATT
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
30 5 0.06
31 34 0.43
32 35 0.44
33 5 0.06
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (31 bp):
ATATTAACTAATTAAGTTATGTAATTTATGT
Found at i:20792122 original size:15 final size:15
Alignment explanation
Indices: 20792102--20792139 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20792092 TTGAAATTAA
20792102 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
20792117 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
20792132 CCCTAAAT
1 CCCTAAAT
20792140 TAACCTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:20792744 original size:41 final size:41
Alignment explanation
Indices: 20792720--20793020 Score: 361
Period size: 41 Copynumber: 7.3 Consensus size: 41
20792710 GCACAGTTAG
* * * * * *
20792720 AAACGCCGCTAAAGATCTGAGAATTAGCGGCG-TTTGTATAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAG-ACAA
20792761 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
*
20792802 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGAATAGACAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
20792843 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
* * * *
20792884 AAACGCCGCTAAAGATCCGAGCATTAGTGGCGCTTAGACGA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
* * * * * * * **
20792925 AATCGCTGCTAACGATCGGGGCATTAGCGGCGCTTTCACAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
* * * * *
20792966 AAATGCCGCTAAAGATCTGAGCATTAGCGGCGCTTACACAA
1 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
20793007 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
20793021 GTTTAAAAAA
Statistics
Matches: 230, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 228 0.99
42 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.16
Consensus pattern (41 bp):
AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
Found at i:20792765 original size:82 final size:82
Alignment explanation
Indices: 20792679--20792915 Score: 242
Period size: 82 Copynumber: 2.9 Consensus size: 82
20792669 GCCTAAATAC
* * * * ** * * *
20792679 AAACGCCGTTGAAGACAAGCGAATTAGTGGCGCACAGTTAGAAACGCCGCTAAAGATCTGAGAAT
1 AAACGCCGCTAAAGACAAGAGAATTAGCGGCGCACAGACAAAAACGCCGCTAAAGACCCGAGAAT
20792744 TAGCGGCGTTTGTATAA
66 TAGCGGCGTTTGTATAA
** * * *
20792761 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGAGCAT
1 AAACGCCGCTAAAGACAAGAGAATTAGCGGCGCACAGACAAAAACGCCGCTAAAGACCCGAGAAT
* * *
20792826 TAGCGGCGAATAG-ACAA
66 TAGCGGCG-TTTGTATAA
** * * * *
20792843 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGCAT
1 AAACGCCGCTAAAGACAAGAGAATTAGCGGCGCACAGACAAAAACGCCGCTAAAGACCCGAGAAT
*
20792908 TAGTGGCG
66 TAGCGGCG
20792916 CTTAGACGAA
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
82 133 0.99
83 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.14
Consensus pattern (82 bp):
AAACGCCGCTAAAGACAAGAGAATTAGCGGCGCACAGACAAAAACGCCGCTAAAGACCCGAGAAT
TAGCGGCGTTTGTATAA
Found at i:20793146 original size:40 final size:40
Alignment explanation
Indices: 20793100--20793175 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
20793090 AATTCCTATT
*
20793100 TTTAGCGGCGCTTCCGGAT-AATCGCCGCTGATGCTCTACC
1 TTTAGCGGCGCTT-CGGATAAATCGCCGCTAATGCTCTACC
* *
20793140 TTTAGCGGCGCTTGGGCTAAATCGCCGCTAATGCTC
1 TTTAGCGGCGCTTCGGATAAATCGCCGCTAATGCTC
20793176 GATTTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (40 bp):
TTTAGCGGCGCTTCGGATAAATCGCCGCTAATGCTCTACC
Found at i:20793327 original size:22 final size:22
Alignment explanation
Indices: 20793302--20793381 Score: 54
Period size: 27 Copynumber: 3.3 Consensus size: 22
20793292 TTATTTGAAA
20793302 TTAAATTAAAATTTATTTTTAT
1 TTAAATTAAAATTTATTTTTAT
20793324 TTAATATATAATTAATTTTATTTTT-T
1 TTAA-AT-TAA--AA-TTTATTTTTAT
* *
20793350 ATTATATAAAAATATGTATTTTATAT
1 -TTAAATTAAAAT-T-TATTTT-TAT
20793376 TTAAAT
1 TTAAAT
20793382 AGTGAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
22 5 0.11
23 5 0.11
24 9 0.20
25 8 0.18
26 6 0.13
27 12 0.27
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TTAAATTAAAATTTATTTTTAT
Found at i:20797001 original size:41 final size:41
Alignment explanation
Indices: 20796917--20797020 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
20796907 GAATGTAATA
* * *
20796917 CAGACTTTACGTCTAGCAGGCTTGATGCTAGTGAAATAATT
1 CAGACTTTACGTCTAGCAGGCTTAATGCCAGTGAAACAATT
* * * *
20796958 CAGACTTTACATCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTACGTCTAGCAGGCTTAATGCCAGTGAAACAATT
* *
20796999 CAGACTATAGGTCTAGCAGGCT
1 CAGACTTTACGTCTAGCAGGCT
20797021 AAAAGCCGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
CAGACTTTACGTCTAGCAGGCTTAATGCCAGTGAAACAATT
Found at i:20801722 original size:31 final size:31
Alignment explanation
Indices: 20801629--20801724 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
20801619 GGCAAATTAC
*
20801629 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20801660 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
20801692 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
20801723 AA
1 AA
20801725 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:20803853 original size:24 final size:23
Alignment explanation
Indices: 20803822--20803899 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
20803812 AGGCAACTTT
20803822 TTTTTTGCGCTTTTTTGCTTCTTC
1 TTTTTTGCGCTTTTTTGCTT-TTC
20803846 TTTTTTGCGCTTTTTACT-CTTTTC
1 TTTTTTGCGCTTTTT--TGCTTTTC
*
20803870 -TTTTTGCGTTTTTTTGCTTTTTC
1 TTTTTTGCGCTTTTTTGC-TTTTC
20803893 TGTTTTT
1 T-TTTTT
20803900 TTTGCACTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 18 0.38
24 18 0.38
25 8 0.17
26 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.12, T:0.71
Consensus pattern (23 bp):
TTTTTTGCGCTTTTTTGCTTTTC
Found at i:20803859 original size:23 final size:24
Alignment explanation
Indices: 20803823--20803899 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
20803813 GGCAACTTTT
20803823 TTTTTGCGCTTTTTTGCTTCTTCT-
1 TTTTTGCGC-TTTTTGCTTCTTCTC
* *
20803847 TTTTTGCGCTTTTTAC-TCTTTTC
1 TTTTTGCGCTTTTTGCTTCTTCTC
* * *
20803870 TTTTTGCGTTTTTTTGCTTTTTCTG
1 TTTTTGCG-CTTTTTGCTTCTTCTC
20803895 TTTTT
1 TTTTT
20803900 TTTGCACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 5 0.12
23 14 0.33
24 15 0.35
25 9 0.21
ACGTcount: A:0.01, C:0.17, G:0.12, T:0.70
Consensus pattern (24 bp):
TTTTTGCGCTTTTTGCTTCTTCTC
Found at i:20803921 original size:47 final size:49
Alignment explanation
Indices: 20803818--20803952 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 49
20803808 AGGTAGGCAA
* * *
20803818 CTTTTTTTTTGCGCTTTTTTGC---TTCT-TCTTTTTTGCGCTTTTTAC
1 CTTTTTTTTTGCGTTTTTTTGCTTTTTCTGTTTTTTTTGCACTTTTTAC
20803863 TCTTTTCTTTTTGCGTTTTTTTGCTTTTTCTGTTTTTTTTGCACTTTTTA-
1 -CTTTT-TTTTTGCGTTTTTTTGCTTTTTCTGTTTTTTTTGCACTTTTTAC
*
20803913 C-TTTTTTTTGCGCTTTTTTTTGCTTTTTTTTGTTTTTTTT
1 CTTTTTTTTTGCG--TTTTTTTGC-TTTTTCTGTTTTTTTT
20803953 TGCTGTTTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
46 5 0.06
47 24 0.31
48 3 0.04
49 10 0.13
50 19 0.25
51 16 0.21
ACGTcount: A:0.02, C:0.15, G:0.10, T:0.73
Consensus pattern (49 bp):
CTTTTTTTTTGCGTTTTTTTGCTTTTTCTGTTTTTTTTGCACTTTTTAC
Found at i:20803951 original size:22 final size:22
Alignment explanation
Indices: 20803907--20803972 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
20803897 TTTTTTGCAC
* **
20803907 TTTTTACTTTTTTTTGCGCTTT
1 TTTTTGCTTTTTTTTGCTTTTT
20803929 TTTTTGCTTTTTTTTG-TTTTT
1 TTTTTGCTTTTTTTTGCTTTTT
*
20803950 TTTTGCTGTTTTTTTTTGCTTTT
1 TTTT--TGCTTTTTTTTGCTTTT
20803973 ATTTAAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.19
22 15 0.41
23 11 0.30
24 4 0.11
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.79
Consensus pattern (22 bp):
TTTTTGCTTTTTTTTGCTTTTT
Found at i:20803955 original size:51 final size:51
Alignment explanation
Indices: 20803846--20803952 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
20803836 TTGCTTCTTC
* **
20803846 TTTTTTGCGCTTTTTACTCTTTTCTTTTTGCGTTTTTTTGCTTTTTCTGTT
1 TTTTTTGCACTTTTTACTCTTTTCTTTGCGCGTTTTTTTGCTTTTTCTGTT
* *
20803897 TTTTTTGCACTTTTTACT-TTTT-TTTGCGCTTTTTTTTGCTTTTTTTTGTT
1 TTTTTTGCACTTTTTACTCTTTTCTTTGCGCGTTTTTTTGC-TTTTTCTGTT
20803947 TTTTTT
1 TTTTTT
20803953 TGCTGTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 14 0.28
50 19 0.38
51 17 0.34
ACGTcount: A:0.03, C:0.13, G:0.10, T:0.74
Consensus pattern (51 bp):
TTTTTTGCACTTTTTACTCTTTTCTTTGCGCGTTTTTTTGCTTTTTCTGTT
Found at i:20803962 original size:51 final size:50
Alignment explanation
Indices: 20803846--20803962 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 50
20803836 TTGCTTCTTC
**
20803846 TTTTTTGCGCTTTTTACTCTTTTCTTTTTGCGTTTTTTTGCTTTTTCTGTT
1 TTTTTTGCG-TTTTTACTCTTTTCTTTGCGCGTTTTTTTGCTTTTTCTGTT
* * *
20803897 TTTTTTGCACTTTTTACT-TTTT-TTTGCGCTTTTTTTTGCTTTTTTTTGTTT
1 TTTTTTGC-GTTTTTACTCTTTTCTTTGCGCGTTTTTTTGC-TTTTTCTG-TT
20803948 TTTTTTGCTGTTTTT
1 TTTTTTGC-GTTTTT
20803963 TTTTGCTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
49 14 0.25
50 11 0.20
51 31 0.55
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.74
Consensus pattern (50 bp):
TTTTTTGCGTTTTTACTCTTTTCTTTGCGCGTTTTTTTGCTTTTTCTGTT
Found at i:20803966 original size:13 final size:13
Alignment explanation
Indices: 20803943--20803969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20803933 TGCTTTTTTT
20803943 TGTTTTTTTTTGC
1 TGTTTTTTTTTGC
20803956 TGTTTTTTTTTGC
1 TGTTTTTTTTTGC
20803969 T
1 T
20803970 TTTATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (13 bp):
TGTTTTTTTTTGC
Found at i:20803972 original size:10 final size:10
Alignment explanation
Indices: 20803870--20803964 Score: 88
Period size: 10 Copynumber: 9.5 Consensus size: 10
20803860 TACTCTTTTC
*
20803870 TTTTTGCGTT
1 TTTTTGCTTT
20803880 TTTTTGC-TT
1 TTTTTGCTTT
*
20803889 TTTCTG-TTT
1 TTTTTGCTTT
**
20803898 TTTTTGC-AC
1 TTTTTGCTTT
*
20803907 TTTTTACTTT
1 TTTTTGCTTT
20803917 TTTTTGCGCTTT
1 TTTTT--GCTTT
20803929 TTTTTGCTTT
1 TTTTTGCTTT
*
20803939 TTTTTGTTTT
1 TTTTTGCTTT
20803949 TTTTTGCTGTT
1 TTTTTGCT-TT
20803960 TTTTT
1 TTTTT
20803965 TTGCTTTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
9 20 0.29
10 33 0.48
11 7 0.10
12 9 0.13
ACGTcount: A:0.02, C:0.11, G:0.12, T:0.76
Consensus pattern (10 bp):
TTTTTGCTTT
Found at i:20804569 original size:32 final size:30
Alignment explanation
Indices: 20804511--20804604 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 30
20804501 AAATTACAAG
20804511 AGTAATTGAATCCTAATAAAACTCTTTCAAA
1 AGTAATTGAATCCTAATAAAACTCTTT-AAA
20804542 AGTAATTGAATCCTAATAAAAACTCTTTAAA
1 AGTAATTGAATCCTAAT-AAAACTCTTTAAA
20804573 GAGTAATTGAATCCTAATAAAACTCTTTAAA
1 -AGTAATTGAATCCTAATAAAACTCTTTAAA
20804604 A
1 A
20804605 TTATCTAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
30 1 0.02
31 33 0.54
32 27 0.44
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AGTAATTGAATCCTAATAAAACTCTTTAAA
Found at i:20808688 original size:96 final size:96
Alignment explanation
Indices: 20808511--20808689 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 96
20808501 TCTTCTCTTG
*** *
20808511 TTGGATATTTAATTGGACATTGGAAACCCTTATGATATTTTGAACTATACCAATAACATTGCACA
1 TTGGATATTTAATTGGACATCAAAAACCCTTATGATATTTTGAACTACACCAATAACATTGCACA
*
20808576 AAAGGTGATAACTCAATCTTATTCTCTCTAT
66 AAAGGTGAGAACTCAATCTTATTCTCTCTAT
* * *
20808607 TTGGATATTTAATTGGACATCAAAAACCCTTATGATCTTTTGAACTACACCAATAACATTTCATA
1 TTGGATATTTAATTGGACATCAAAAACCCTTATGATATTTTGAACTACACCAATAACATTGCACA
*
20808672 ACAGGTGAGAGA-TCAATC
66 AAAGGTGAGA-ACTCAATC
20808690 GTTCTCCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATCAAAAACCCTTATGATATTTTGAACTACACCAATAACATTGCACA
AAAGGTGAGAACTCAATCTTATTCTCTCTAT
Found at i:20815222 original size:21 final size:21
Alignment explanation
Indices: 20815177--20815253 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
20815167 ATTTTTGAGG
*
20815177 ATATACAATCTTAGATAT-A-
1 ATATACAATCTTAGAAATGAT
*
20815196 ATATGCAATCTTAGAAATGAT
1 ATATACAATCTTAGAAATGAT
* *
20815217 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGAAATGAT
20815238 ATATACAATCTTAGAA
1 ATATACAATCTTAGAA
20815254 GATATGATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.31
20 1 0.02
21 34 0.67
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATACAATCTTAGAAATGAT
Found at i:20815470 original size:44 final size:44
Alignment explanation
Indices: 20815383--20815470 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
20815373 TTCATTGTCA
*
20815383 AAAAAAAAAGAATCAATAAAAAAGGGAGAACGATTGGCAGTTTT
1 AAAAAAAAAGAATCAATAAAAAAGGGAGAACGATTGACAGTTTT
* * *
20815427 AAAAAAAAAGAATCAGTAAAAAAGGGAGAATGATTGACTGTTTT
1 AAAAAAAAAGAATCAATAAAAAAGGGAGAACGATTGACAGTTTT
20815471 CTTTTTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (44 bp):
AAAAAAAAAGAATCAATAAAAAAGGGAGAACGATTGACAGTTTT
Found at i:20815497 original size:19 final size:21
Alignment explanation
Indices: 20815473--20815511 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
20815463 ACTGTTTTCT
*
20815473 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
20815492 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
20815512 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:20815738 original size:3 final size:3
Alignment explanation
Indices: 20815717--20815763 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
20815707 GTTTTTAGTC
20815717 TAT T-T TAT TAAT T-T TAT TAT TAT TAT TA- TAT TAT ATAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
20815761 TAT
1 TAT
20815764 ACCTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.15
3 27 0.69
4 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20815763 original size:18 final size:19
Alignment explanation
Indices: 20815717--20815764 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
20815707 GTTTTTAGTC
*
20815717 TATT-TTATTA-ATTTTAT
1 TATTATTATTATATTATAT
20815734 TATTATTATTATATTATA-
1 TATTATTATTATATTATAT
20815752 TATTATTATTATA
1 TATTATTATTATA
20815765 CCTACATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTATTATATTATAT
Found at i:20818254 original size:25 final size:26
Alignment explanation
Indices: 20818203--20818268 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
20818193 ATAAAAAATA
20818203 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTATTT
20818230 ACCAAAATATGTAT-A-TTTTTTATTT
1 ACCAAAATAT-TATAACTTTTTTATTT
20818255 ACCAAAATA-TATAA
1 ACCAAAATATTATAA
20818269 AAAAAAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.08
24 1 0.03
25 19 0.51
27 11 0.30
28 3 0.08
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (26 bp):
ACCAAAATATTATAACTTTTTTATTT
Found at i:20818353 original size:27 final size:27
Alignment explanation
Indices: 20818320--20818392 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
20818310 CCTTGGTCAC
20818320 GCCAAAACGATTGGCGGCACCAAAGGT
1 GCCAAAACGATTGGCGGCACCAAAGGT
* *
20818347 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAAAACGATTGGCGGCACCAAAGGT
*
20818374 GCC-AAAGGCATTGGCGGCA
1 GCCAAAACG-ATTGGCGGCA
20818393 TTACTTGAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.07
27 38 0.93
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.12
Consensus pattern (27 bp):
GCCAAAACGATTGGCGGCACCAAAGGT
Found at i:20818493 original size:11 final size:11
Alignment explanation
Indices: 20818477--20818516 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
20818467 GGTGTTGCGG
20818477 AAAAGAAGAGA
1 AAAAGAAGAGA
20818488 AAAAG-AGAGA
1 AAAAGAAGAGA
*
20818498 AAGAGAAGAGA
1 AAAAGAAGAGA
20818509 AAAAGAAG
1 AAAAGAAG
20818517 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:20818506 original size:21 final size:20
Alignment explanation
Indices: 20818476--20818514 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
20818466 AGGTGTTGCG
20818476 GAAAAGAAGAGAAAAAGAGA
1 GAAAAGAAGAGAAAAAGAGA
20818496 GAAAGAGAAGAGAAAAAGA
1 GAAA-AGAAGAGAAAAAGA
20818515 AGGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAAGAAGAGAAAAAGAGA
Found at i:20818641 original size:3 final size:3
Alignment explanation
Indices: 20818635--20818663 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20818625 TTAGTTATTA
20818635 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
20818664 AGTATTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:20819088 original size:17 final size:17
Alignment explanation
Indices: 20819066--20819100 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
20819056 ATCAAAAACA
20819066 AAAGTTATAAAATTTTT
1 AAAGTTATAAAATTTTT
*
20819083 AAAGTTATAAATTTTTT
1 AAAGTTATAAAATTTTT
20819100 A
1 A
20819101 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
AAAGTTATAAAATTTTT
Found at i:20824139 original size:20 final size:20
Alignment explanation
Indices: 20824116--20824155 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20824106 ATACTGGTGG
20824116 CTTGTCCACAATACTGGCAA
1 CTTGTCCACAATACTGGCAA
** *
20824136 CTTGTCTGCATTACTGGCAA
1 CTTGTCCACAATACTGGCAA
20824156 TTTATCTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (20 bp):
CTTGTCCACAATACTGGCAA
Found at i:20824170 original size:20 final size:20
Alignment explanation
Indices: 20824127--20824172 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
20824117 TTGTCCACAA
* *
20824127 TACTGGCAACTTGTCTGCAT
1 TACTGGCAACTTATCTGCAC
* *
20824147 TACTGGCAATTTATCTGTAC
1 TACTGGCAACTTATCTGCAC
20824167 TACTGG
1 TACTGG
20824173 TGGCTTATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (20 bp):
TACTGGCAACTTATCTGCAC
Found at i:20831532 original size:16 final size:16
Alignment explanation
Indices: 20831513--20831543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20831503 ATATTAATGT
*
20831513 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
20831529 TATTTAATATTAAAA
1 TATTTAATATTAAAA
20831544 CAATGCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:20832630 original size:31 final size:31
Alignment explanation
Indices: 20832595--20832656 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
20832585 TGGAGGGCTA
*
20832595 AATTAGCCATATATGCCACTGTTTTTTTTTT
1 AATTAGCCATATAAGCCACTGTTTTTTTTTT
* * * *
20832626 AATTAGGCTTATAAGCCTCTTTTTTTTTTTT
1 AATTAGCCATATAAGCCACTGTTTTTTTTTT
20832657 GAAAATTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.55
Consensus pattern (31 bp):
AATTAGCCATATAAGCCACTGTTTTTTTTTT
Found at i:20833128 original size:20 final size:20
Alignment explanation
Indices: 20833081--20833130 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20833071 TAATTTTCGT
**
20833081 TATTTTTTATTAAGTTAAATT
1 TATTTTTT-TTAAGTTAAAAA
* *
20833102 TAATTTTTTTAATTTAAAAA
1 TATTTTTTTTAAGTTAAAAA
20833122 TATTTTTTT
1 TATTTTTTT
20833131 GTCGTTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTTTTAAGTTAAAAA
Found at i:20845812 original size:34 final size:35
Alignment explanation
Indices: 20845757--20845823 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20845747 CAAACACCAG
*
20845757 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
20845792 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
20845824 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:20845902 original size:29 final size:30
Alignment explanation
Indices: 20845855--20845911 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
20845845 GACCCTTAAT
** *
20845855 GTGCAATTATTTACATG-AACTTTAATTTG
1 GTGCAATTATACACATGAAACTCTAATTTG
*
20845884 GTGCAATTATACACGTGAAACTCTAATT
1 GTGCAATTATACACATGAAACTCTAATT
20845912 GTAGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (30 bp):
GTGCAATTATACACATGAAACTCTAATTTG
Found at i:20864922 original size:27 final size:27
Alignment explanation
Indices: 20864861--20864953 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 27
20864851 AATAAAATGA
*
20864861 AAGCCCTTGTGGCAATCTATGAAAAGG
1 AAGCCTTTGTGGCAATCTATGAAAAGG
* * * **
20864888 ATGTCTTTGTGGCAATTTATGAAATTG
1 AAGCCTTTGTGGCAATCTATGAAAAGG
* ** *
20864915 AAGCCTTTTTGGTGTATCTA--AAAGGG
1 AAGCCTTTGTGG-CAATCTATGAAAAGG
20864941 AAGCCTTTGTGGC
1 AAGCCTTTGTGGC
20864954 GTATCCGAAA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
26 15 0.31
27 30 0.61
28 4 0.08
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (27 bp):
AAGCCTTTGTGGCAATCTATGAAAAGG
Found at i:20864943 original size:26 final size:26
Alignment explanation
Indices: 20864914--20864973 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
20864904 TTATGAAATT
* * *
20864914 GAAGCCTTTTTGGTGTATCTAAAAGG
1 GAAGCCTTTGTGGCGTATCCAAAAGG
* *
20864940 GAAGCCTTTGTGGCGTATCCGAAATG
1 GAAGCCTTTGTGGCGTATCCAAAAGG
20864966 GAAGCCTT
1 GAAGCCTT
20864974 CATGGAAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
GAAGCCTTTGTGGCGTATCCAAAAGG
Found at i:20867949 original size:19 final size:19
Alignment explanation
Indices: 20867919--20868047 Score: 222
Period size: 19 Copynumber: 6.8 Consensus size: 19
20867909 ATCTTCAAGT
*
20867919 ATATGCAGTCTTAGATATG
1 ATATGCAATCTTAGATATG
*
20867938 ATATGTAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
20867957 ATATGCAGTCTTAGATATG
1 ATATGCAATCTTAGATATG
20867976 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
20867995 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
20868014 ATATGTAATCTTAGATATG
1 ATATGCAATCTTAGATATG
20868033 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
20868048 AGATATGATT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 103 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:20867963 original size:38 final size:38
Alignment explanation
Indices: 20867919--20868070 Score: 232
Period size: 38 Copynumber: 3.9 Consensus size: 38
20867909 ATCTTCAAGT
*
20867919 ATATGCAGTCTTAGATATGATATGTAATCTTAGATATG
1 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG
* *
20867957 ATATGCAGTCTTAGATATGATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG
20867995 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG
1 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG
*
20868033 ATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
20868071 GATTTAATTT
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
38 85 0.80
41 8 0.08
42 13 0.12
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.39
Consensus pattern (38 bp):
ATATGCAATCTTAGATATGATATGTAATCTTAGATATG
Found at i:20867988 original size:57 final size:57
Alignment explanation
Indices: 20867919--20868070 Score: 223
Period size: 57 Copynumber: 2.6 Consensus size: 57
20867909 ATCTTCAAGT
* *
20867919 ATATGCAGTCTTAGATATGATATGTAATCTTAGATATGATATGCAGTCTTAGATATG
1 ATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATGCAATCTTAGATATG
* *
20867976 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGTAATCTTAGATATG
1 ATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATGCAATCTTAGATATG
*
20868033 ATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
20868071 GATTTAATTT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
57 65 0.76
60 8 0.09
61 12 0.14
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.39
Consensus pattern (57 bp):
ATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATGCAATCTTAGATATG
Found at i:20868534 original size:3 final size:3
Alignment explanation
Indices: 20868526--20868564 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
20868516 ATCTTGTATC
* *
20868526 ATT ATT ATT ATT ATTT ATA ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
20868565 ATTCATGCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20869036 original size:88 final size:88
Alignment explanation
Indices: 20868887--20869273 Score: 677
Period size: 88 Copynumber: 4.4 Consensus size: 88
20868877 GTTAAGATAA
* *
20868887 CAGATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
20868952 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
20868975 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
20869040 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
20869063 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20869128 GTAGCTGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
20869151 CATATCTTGCCTTCCTTCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
**
20869216 ACAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
20869239 CAGATCTTGCCTTCCT-CACCGACAGCGAAGCAGAT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
20869274 TGATGACCCC
Statistics
Matches: 286, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
87 18 0.06
88 268 0.94
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:20869264 original size:44 final size:45
Alignment explanation
Indices: 20868954--20869271 Score: 157
Period size: 44 Copynumber: 7.2 Consensus size: 45
20868944 CCTGGGTTGT
* *
20868954 AGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* ** * * * * * **** *
20868999 AGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
20869042 AGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* ** * * * * * **** *
20869087 AGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
20869130 AGCTG-AGCAGGTTAAAAATAGCATATCTTGCCTTCCTTCACCGAC
1 AGC-GAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * ** * * * * * ****
20869175 AGCGAAGTAGATCGAAGACACCAG-CCTTGCCTCCCTG-GGTTAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
*
20869218 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCT-CACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
20869262 AGCGAAGCAG
1 AGCGAAGCAG
20869272 ATTGATGACC
Statistics
Matches: 175, Mismatches: 90, Indels: 17
0.62 0.32 0.06
Matches are distributed among these distances:
43 50 0.29
44 77 0.44
45 48 0.27
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (45 bp):
AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
Found at i:20869356 original size:44 final size:44
Alignment explanation
Indices: 20869293--20869408 Score: 166
Period size: 44 Copynumber: 2.6 Consensus size: 44
20869283 CAGCTTTATT
20869293 TCCCTTGA-CAACAGTGGAATAGGTTGAAGATTGT-AAGTCCTATC
1 TCCC-TGAGCAACAGTGGAATAGGTTGAAGATTGTGAA-TCCTATC
*
20869337 TCCCT-AGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATC
1 TCCCTGAG-CAACAGTGGAATAGGTTGAAGATTGTGAATCCTATC
*
20869381 TCCCTGAGCAACAGTGGAGTAGGTTGAA
1 TCCCTGAGCAACAGTGGAATAGGTTGAA
20869409 AATAGCAGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
42 1 0.02
43 1 0.02
44 59 0.91
45 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
TCCCTGAGCAACAGTGGAATAGGTTGAAGATTGTGAATCCTATC
Found at i:20869530 original size:50 final size:50
Alignment explanation
Indices: 20869476--20869579 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
20869466 ATCGCATTGA
* * *
20869476 CGTTGCAATGGAAAAGATTGAAGCCACAAAGGCGAATCTTATTTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAAAGGCGAATCTGATCTCCCTGG
* * * *
20869526 CGTTGTAGCGGAAAAGATTGAAGCCACGACGGCGAATCTGATCTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAAAGGCGAATCTGATCTCCCTGG
20869576 CGTT
1 CGTT
20869580 AAGGCTTGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
CGTTGCAACGGAAAAGATTGAAGCCACAAAGGCGAATCTGATCTCCCTGG
Found at i:20869818 original size:44 final size:44
Alignment explanation
Indices: 20869770--20870233 Score: 157
Period size: 44 Copynumber: 10.7 Consensus size: 44
20869760 GAAGATGACG
20869770 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGA-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-ACAT
* * * *
20869814 AATCTTATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCACAT
* * * * *
20869858 GATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T--CGCATC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-CAT
* * * * *
20869898 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTA-AGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACA-T
* * * * * **
20869941 AAGCTTTATC-CTCCTGAAGTTGTAGT-GAGGCAAACTGAAG-ATGGT
1 AATC-TTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCA-CAT
** *
20869986 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTCAAATCACA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCACAT
* ** *
20870031 GATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-T----CACAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACAT
** * * *** * *
20870069 CGGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCCAAG-AAAGCG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACA--T
* *
20870116 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTT-AAG-AAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCACAT
* * * * **
20870159 CAAGTCTTATCCCCCTGAAATTGTAGTGG-GCCAGACTAAATAAACA-
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAA-GCACAT
* * *
20870205 AATCTCATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
20870234 TGGATTAGAA
Statistics
Matches: 314, Mismatches: 67, Indels: 77
0.69 0.15 0.17
Matches are distributed among these distances:
37 4 0.01
39 2 0.01
40 40 0.13
41 13 0.04
42 3 0.01
43 18 0.06
44 125 0.40
45 98 0.31
46 8 0.03
47 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACAT
Found at i:20869924 original size:84 final size:84
Alignment explanation
Indices: 20869816--20870099 Score: 270
Period size: 84 Copynumber: 3.3 Consensus size: 84
20869806 AAGCGAATAA
* * *
20869816 TCTTATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCA
20869881 GAGAGCAGATCGCATCTAG
66 GAGAGCAGATCGCATCTAG
* * * * *
20869900 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AGCT-TTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AATCACAGATCTTATCTCT-CTGAAGTT
* * * * * *
20869962 GTAGTGAGGCA-AACTGAAGATGGTGAA
63 GCAGAGA-GCAGATC-G--CAT-CT-AG
* * *
20869989 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTCAAATCACAGATCTTATCTTTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCA
* **
20870054 GAGAGCAGATCACATCGGG
66 GAGAGCAGATCGCATCTAG
*
20870073 TCTTATCTCCCTGAAGTTACAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
20870100 TAGACCCAAG
Statistics
Matches: 155, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
83 2 0.01
84 75 0.48
85 7 0.05
86 6 0.04
87 6 0.04
88 7 0.05
89 51 0.33
90 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCA
GAGAGCAGATCGCATCTAG
Found at i:20870141 original size:45 final size:45
Alignment explanation
Indices: 20870072--20870233 Score: 157
Period size: 45 Copynumber: 3.6 Consensus size: 45
20870062 ATCACATCGG
* * *
20870072 GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAA
** *
20870117 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTTAAGAAATCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAA
* * * ** *
20870162 GTCTTATCCCCCTGAAATTGTAGTGG-GCCAGACTAAATAAA-CAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAG-CAGACCCAAGAAAGCAA
* * * *
20870206 ATCTCATCTCCCTAAAGTTGTAGTGGAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAG
20870234 TGGATTAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
44 25 0.25
45 74 0.75
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAA
Found at i:20870768 original size:19 final size:19
Alignment explanation
Indices: 20870744--20870816 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
20870734 AATCTTCAAG
*
20870744 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20870763 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
20870782 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20870801 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20870817 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20870838 original size:23 final size:22
Alignment explanation
Indices: 20870757--20870839 Score: 70
Period size: 19 Copynumber: 4.0 Consensus size: 22
20870747 ATGCAGTCTT
*
20870757 AGATATGATATGTAATCTT---
1 AGATATGATATGCAATCTTAGA
* *
20870776 AGATATAATATGTAATCTT---
1 AGATATGATATGCAATCTTAGA
20870795 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
20870817 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
20870840 GATTTAATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 35 0.64
22 8 0.15
23 12 0.22
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:20871067 original size:23 final size:23
Alignment explanation
Indices: 20871023--20871067 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20871013 TCTTATTTTG
* *
20871023 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20871046 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20871068 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20871312 original size:13 final size:13
Alignment explanation
Indices: 20871294--20871323 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20871284 ATCTTGTATC
20871294 ATTATTATTATTT
1 ATTATTATTATTT
20871307 ATTATTATTATTT
1 ATTATTATTATTT
20871320 -TTAT
1 ATTAT
20871324 ATTCATGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:20878256 original size:14 final size:15
Alignment explanation
Indices: 20878230--20878262 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20878220 TCCCAAGCTG
20878230 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
20878245 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
20878259 GGAA
1 GGAA
20878263 AAACGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:20880062 original size:45 final size:45
Alignment explanation
Indices: 20879656--20880062 Score: 157
Period size: 44 Copynumber: 9.2 Consensus size: 45
20879646 CCTGGGTTGT
* * *
20879656 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTACACTGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * * * * * ****
20879701 AGCGAAGCAGATTGAAGATACCAG-CCTTGCCTCCCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * * *
20879744 AACGGAGCAGGTTAAAAATTGCAGATCTTGCCTTCCTGTACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * * ** * * * * * * **** *
20879789 AGCAAAGTAGATCGAAGACACCAG-CCTTGCCTCCCGGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * *
20879832 AGTGTAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
**** * * * * * **** *
20879877 AGCGAAGCAGAACGAAGACACCA-ACCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
*
20879920 AGC-AGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
1 AGCGA-AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* * ** * * * * ****
20879965 AGCGAAGTAGATCGAAGACACCAG-TCTTGCCTCCCTG-GGTTAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
20880008 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
20880053 AGCGAAGCAG
1 AGCGAAGCAG
20880063 ATCGATGACC
Statistics
Matches: 234, Mismatches: 118, Indels: 20
0.63 0.32 0.05
Matches are distributed among these distances:
42 1 0.00
43 64 0.27
44 95 0.41
45 73 0.31
46 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (45 bp):
AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
Found at i:20880088 original size:88 final size:88
Alignment explanation
Indices: 20879592--20880067 Score: 736
Period size: 88 Copynumber: 5.4 Consensus size: 88
20879582 AAGATAACAC
*
20879592 ATCTTGCCTTCCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
20879657 GCGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * * *
20879680 ATCTTGCCTTCCTACACTGACAGCGAAGCAGATTGAAGATACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
* *
20879745 ACGGAGCAGGTTAAAAATTGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * *
20879768 ATCTTGCCTTCCTGTACCGACAGCAAAGTAGATCGAAGACACCAGCCTTGCCTCCCGGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
* * *
20879833 GTGTAGTAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* *
20879856 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGAACGAAGACACCAACCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
*
20879921 GCAGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * **
20879944 ATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCGAAGACACCAGTCTTGCCTCCCTGGGTTACA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
20880009 GCGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
*
20880032 ATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
20880068 TGACCCCAAC
Statistics
Matches: 345, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 345 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
GCGGAGCAGGTTAAAAATAGCAG
Found at i:20880128 original size:44 final size:43
Alignment explanation
Indices: 20880078--20880199 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 43
20880068 TGACCCCAAC
20880078 CTTATCTCCCTCGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CTTATCTCCCT-GACAGCAGTGGAATAGGTTGAAGATTGTGAA-T
*
20880122 CTTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CTTATCTCCCT-GACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* ** *
20880166 CCTATCTCCCTGAGCAATAGTGGAGTAGGTTGAA
1 CTTATCTCCCTGA-CAGCAGTGGAATAGGTTGAA
20880200 AATAACAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
CTTATCTCCCTGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:20880655 original size:44 final size:44
Alignment explanation
Indices: 20880562--20880660 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
20880552 GAAGATGACG
* * *
20880562 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAGGAGAAT
1 AATCTTATCTCCCTGAAGTCGAAGTGGAGCAGATTAAGAAGAAC
* * **
20880606 AATCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAA-AATCAC
1 AATCTTATCTCCCTGAAGTCGAAGTGGAGCAGATTAAGAAGAAC
20880649 AGATCTTATCTC
1 A-ATCTTATCTC
20880661 TTTAAAGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.06
44 44 0.94
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTCGAAGTGGAGCAGATTAAGAAGAAC
Found at i:20880708 original size:84 final size:84
Alignment explanation
Indices: 20880608--20880892 Score: 256
Period size: 84 Copynumber: 3.3 Consensus size: 84
20880598 AGGAGAATAA
* *
20880608 TCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCA
*
20880673 GAGAGCAGATCGTATCTAG
66 GAGAGCAGATCGCATCTAG
* * * * * *
20880692 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG-CCTTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AATCACAGATCTTATCTCT-TTGAAGTT
* * * * * *
20880754 GTAGTGAGGTAGA-CTGAAGATGGTGAA
63 GCAGAGA-GCAGATC-G--CAT-CT-AG
* * *
20880781 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTCAAGTCACAGATCTTATCT-TTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTT-TGAAGTTGC
**
20880845 AGAGAGCAGATCGCATCGGG
65 AGAGAGCAGATCGCATCTAG
*
20880865 TCTTATCTCCCTAAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
20880893 AGACCCAAGA
Statistics
Matches: 154, Mismatches: 33, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
83 2 0.01
84 75 0.49
85 7 0.05
86 6 0.04
87 5 0.03
88 8 0.05
89 51 0.33
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCA
GAGAGCAGATCGCATCTAG
Found at i:20880895 original size:173 final size:174
Alignment explanation
Indices: 20880606--20880933 Score: 482
Period size: 173 Copynumber: 1.9 Consensus size: 174
20880596 TAAGGAGAAT
20880606 AATCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTG
1 AATCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTG
* * * * * *
20880671 CAGAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCAA
66 CAGAGAGCAGATCGCATCGAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCAA
*
20880735 GCCTTATC-CTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGTG
131 GCCTTATCTC-CCTGAAGTTGCAGTGAGGTAGACTGAAGATGGTG
* * * * *
20880779 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTCAAGTCACAGATCTTATCT-TTCTGAAGTT
1 AATCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTT-TAAAGTT
* *
20880843 GCAGAGAGCAGATCGCATCGGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
65 GCAGAGAGCAGATCGCATCGAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
*
20880908 AGTCTTATCTCCCTGAAGTTGCAGTG
130 AGCCTTATCTCCCTGAAGTTGCAGTG
20880934 GAGCAGACTC
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
172 2 0.01
173 104 0.76
174 30 0.22
175 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (174 bp):
AATCTTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTAAAGTTG
CAGAGAGCAGATCGCATCGAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCAA
GCCTTATCTCCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGTG
Found at i:20880915 original size:45 final size:45
Alignment explanation
Indices: 20880864--20881025 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
20880854 ATCGCATCGG
* *
20880864 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAACAA
* * *
20880909 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAA
1 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAACAA
* * * *
20880954 GTCTTATCCCCCTGAAA-TTGCAGTGGGGCAGA-CTAAAAAAACAA
1 GTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACCCAAGAAAACAA
* **
20880998 ATCCCATCTCCCTAAAGTTGCAGTGGAG
1 GTCTTATCTCCCTAAAGTTGCAGTGGAG
20881026 TGGATTAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
43 3 0.03
44 27 0.27
45 67 0.68
46 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (45 bp):
GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAACAA
Found at i:20881561 original size:19 final size:19
Alignment explanation
Indices: 20881537--20881609 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
20881527 AATCTTCAAG
* *
20881537 GATATGCAGTCTTAGCTAT
1 GATATGCAATCTTAGATAT
*
20881556 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20881575 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20881594 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20881610 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20881635 original size:22 final size:22
Alignment explanation
Indices: 20881553--20881632 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 22
20881543 CAGTCTTAGC
*
20881553 TATGATATGTAATCTT---AGA
1 TATGATATGAAATCTTAGAAGA
*
20881572 TATGATATGTAATCTT--A-GA
1 TATGATATGAAATCTTAGAAGA
*
20881591 TATGATATGCAATCTTAGAAGA
1 TATGATATGAAATCTTAGAAGA
*
20881613 TATGATTTTGAAATCTTAGA
1 TATGA-TATGAAATCTTAGA
20881633 GATTTAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.62
21 1 0.02
22 7 0.13
23 12 0.23
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (22 bp):
TATGATATGAAATCTTAGAAGA
Found at i:20881858 original size:23 final size:23
Alignment explanation
Indices: 20881814--20881858 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20881804 TTTTATTTTG
* *
20881814 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20881837 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20881859 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20882126 original size:19 final size:19
Alignment explanation
Indices: 20882078--20882130 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
20882068 ATGTGGCATC
* *
20882078 ATTAATCTTGTATCATTATT
1 ATTAATATT-TATTATTATT
20882098 ATT-ATGATTTATTATTATT
1 ATTAAT-ATTTATTATTATT
20882117 ATTAATATTT-TTAT
1 ATTAATATTTATTAT
20882131 ATTCATGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 4 0.14
19 18 0.62
20 7 0.24
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTAATATTTATTATTATT
Found at i:20884352 original size:7 final size:7
Alignment explanation
Indices: 20884342--20884407 Score: 105
Period size: 7 Copynumber: 9.4 Consensus size: 7
20884332 TTAAAGGTTA
*
20884342 AAAGATG
1 AAAGAAG
20884349 AAAGAAG
1 AAAGAAG
20884356 AAAGAAG
1 AAAGAAG
20884363 AAAGAAG
1 AAAGAAG
*
20884370 AGAGAAG
1 AAAGAAG
*
20884377 AGAGAAG
1 AAAGAAG
20884384 AAAGAAG
1 AAAGAAG
20884391 AAAGAAG
1 AAAGAAG
20884398 AAAGAAG
1 AAAGAAG
20884405 AAA
1 AAA
20884408 AGAGTTATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (7 bp):
AAAGAAG
Found at i:20885794 original size:27 final size:28
Alignment explanation
Indices: 20885763--20885867 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 28
20885753 ACACACCAAA
*
20885763 AAATGGAAGCCCTTGTGGC-TATCTATG
1 AAATGGAAGCCTTTGTGGCATATCTATG
*
20885790 AAATGGATA-TCTTTGTGGCA-ATCTATG
1 AAATGGA-AGCCTTTGTGGCATATCTATG
**
20885817 AAATAAAAGCCTTTGTGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCATATCTATG
20885843 AAATGGAAGCCTTTGTGGCATATCT
1 AAATGGAAGCCTTTGTGGCATATCT
20885868 GAAATGAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
26 25 0.38
27 37 0.56
28 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (28 bp):
AAATGGAAGCCTTTGTGGCATATCTATG
Found at i:20885889 original size:26 final size:26
Alignment explanation
Indices: 20885800--20885878 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
20885790 AAATGGATAT
*
20885800 CTTTGTGGCA-ATCTATGAAATAAAAGC
1 CTTTGTGGCATATC--TGAAATGAAAGC
*
20885827 CTTTGTGGCATATCTGAAATGGAAGC
1 CTTTGTGGCATATCTGAAATGAAAGC
20885853 CTTTGTGGCATATCTGAAATGAAAGC
1 CTTTGTGGCATATCTGAAATGAAAGC
20885879 TTTCATGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
26 35 0.73
27 10 0.21
28 3 0.06
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTTGTGGCATATCTGAAATGAAAGC
Found at i:20888444 original size:9 final size:8
Alignment explanation
Indices: 20888408--20888444 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
20888398 TCCAAGGTTG
*
20888408 TTTTATAA
1 TTTTGTAA
20888416 TTTTGTAA
1 TTTTGTAA
20888424 TTTTGTAA
1 TTTTGTAA
20888432 TTTTGTAAA
1 TTTTGT-AA
20888441 TTTT
1 TTTT
20888445 TCATAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (8 bp):
TTTTGTAA
Found at i:20891408 original size:12 final size:12
Alignment explanation
Indices: 20891391--20891416 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20891381 AATGTTACAC
20891391 GGCCTGGCACAT
1 GGCCTGGCACAT
20891403 GGCCTGGCACAT
1 GGCCTGGCACAT
20891415 GG
1 GG
20891417 GCGTGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (12 bp):
GGCCTGGCACAT
Found at i:20892092 original size:18 final size:18
Alignment explanation
Indices: 20892069--20892104 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20892059 CCGTATCTGA
20892069 GGGCCGGGGAGGAGAGGC
1 GGGCCGGGGAGGAGAGGC
20892087 GGGCCGGGGAGGAGAGGC
1 GGGCCGGGGAGGAGAGGC
20892105 TAAGGAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.67, T:0.00
Consensus pattern (18 bp):
GGGCCGGGGAGGAGAGGC
Found at i:20898475 original size:18 final size:18
Alignment explanation
Indices: 20898454--20898488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20898444 GTATAGGTTG
20898454 ACTTGCGATTAATGATCC
1 ACTTGCGATTAATGATCC
* *
20898472 ACTTGTGTTTAATGATC
1 ACTTGCGATTAATGATC
20898489 TAGTTGTTAT
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:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (18 bp):
ACTTGCGATTAATGATCC
Found at i:20900193 original size:19 final size:21
Alignment explanation
Indices: 20900157--20900195 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
20900147 TTAAATTAAC
20900157 AACTAATATGCAAATGAAATA
1 AACTAATATGCAAATGAAATA
20900178 AACTAA-ATGC-AATGAAAT
1 AACTAATATGCAAATGAAAT
20900196 TGTTTATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AACTAATATGCAAATGAAATA
Found at i:20914060 original size:38 final size:38
Alignment explanation
Indices: 20913954--20914064 Score: 161
Period size: 37 Copynumber: 2.9 Consensus size: 38
20913944 GATCCAATTA
*
20913954 CACCAGCACAAAGCCTGCTAGGCACAAAACCCGAATAT
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* * *
20913992 CATCGGCACAAAGCTTGCT-GGCACAAAGCCCGAATAT
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
20914029 CACCAGCACGAAGCCTGCTAGGCACAGAGCCCGAAT
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCCGAAT
20914065 TAACGTTACG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 32 0.51
38 31 0.49
ACGTcount: A:0.34, C:0.33, G:0.21, T:0.12
Consensus pattern (38 bp):
CACCAGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
Found at i:20924877 original size:26 final size:26
Alignment explanation
Indices: 20924841--20924890 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20924831 TTGGATAAAA
20924841 AGGGGTCGCTAAGTGCAGATTCCCTG
1 AGGGGTCGCTAAGTGCAGATTCCCTG
* *
20924867 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTCGCTAAGTGCAGATTCCC
20924891 CAAATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCTG
Found at i:20924963 original size:74 final size:74
Alignment explanation
Indices: 20924872--20925020 Score: 208
Period size: 74 Copynumber: 2.0 Consensus size: 74
20924862 CCCTGAGGGG
* * * * *
20924872 TTGCTAAGTGCTGATTCCCCAAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCACTGT
1 TTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
20924937 ATATTTGAT
66 ATATTTGAT
* * * *
20924946 TTGCTATGTGCTGATTCCCCATATCACTGAATATAAATGTGGTTGCTAAGTGTTGATTCCACCGT
1 TTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
*
20925011 ATCTTTGAT
66 ATATTTGAT
20925020 T
1 T
20925021 GTGAAAGGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (74 bp):
TTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
ATATTTGAT
Found at i:20924993 original size:42 final size:41
Alignment explanation
Indices: 20924946--20925085 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 41
20924936 TATATTTGAT
* *
20924946 TTGCTATGTGCTGATTCCCCATATCACTGAATATAAATGTGG
1 TTGCTAAGTGCTGATTCCCCGTATCACTGAAT-TAAATGTGG
* ** * *
20924988 TTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAA-GGGG
1 TTGCTAAGTGCTGATTCC-CCGTATCACTGAAT-T-AAATGTGG
* *
20925031 TTGCTATGTGCTGATTCCCCGTATCACTGAATTTAATGTGG
1 TTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAATGTGG
20925072 TTGCTAAGTGCTGA
1 TTGCTAAGTGCTGA
20925086 ATCCACCGAG
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.03
41 17 0.22
42 27 0.34
43 30 0.38
44 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
TTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAATGTGG
Found at i:20945025 original size:27 final size:26
Alignment explanation
Indices: 20944980--20945032 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
20944970 TTCCTATTTA
*
20944980 AAAAAGCTTTAATTTTTTAATTATTTTT
1 AAAAAGCTTTAATATTTT-ATT-TTTTT
*
20945008 AAAAAGTTTTAA-ATTTTATTTTTTT
1 AAAAAGCTTTAATATTTTATTTTTTT
20945033 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 4 0.17
28 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
AAAAAGCTTTAATATTTTATTTTTTT
Found at i:20946149 original size:7 final size:7
Alignment explanation
Indices: 20946135--20946181 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
20946125 TAGTCGATTG
20946135 GTATTTA
1 GTATTTA
*
20946142 GCATTTA
1 GTATTTA
20946149 GTATTTA
1 GTATTTA
20946156 GTATTTA
1 GTATTTA
20946163 GTATTTA
1 GTATTTA
20946170 GTATTTA
1 GTATTTA
20946177 GTATT
1 GTATT
20946182 ATGTATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:20946859 original size:18 final size:18
Alignment explanation
Indices: 20946836--20946878 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20946826 TGCCAGGTAC
* *
20946836 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
20946854 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
20946872 GTTTCCT
1 GTATCCT
20946879 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:20950800 original size:126 final size:126
Alignment explanation
Indices: 20950575--20950989 Score: 629
Period size: 126 Copynumber: 3.3 Consensus size: 126
20950565 CCAAACATGC
* * ** *
20950575 GCTACTGTAGCAAAAGCGCGTCCATGTAGAAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCC
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATCC
*
20950639 TGCTTAAAGCATTTTTGACACCATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
65 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
*
20950701 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* *
20950766 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAAGTATTTTTTCAAGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* *
20950827 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* * *
20950892 GCTTAAAGCCTTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTA-TTTTT-AGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* * * * *
20950951 GCTACTGTAGCAAAAACGCGTCCACGTAAGAGCTTCTTT
1 GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTT
20950990 AAATTAACAA
Statistics
Matches: 268, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
124 36 0.13
125 5 0.02
126 226 0.84
127 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (126 bp):
GCTACTATACCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
Found at i:20951166 original size:98 final size:95
Alignment explanation
Indices: 20951029--20951207 Score: 243
Period size: 98 Copynumber: 1.9 Consensus size: 95
20951019 CTAAACCCCA
* * * * * *
20951029 AACCCTAATTTATTTGTGTTTTTACTTAAAAATCCTAAACACTAAAGCCTAATCTAATTTTTTTA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAA-CCTAATCCAA--TTTTGA
20951094 AAAATTTATAATTAATTTACTCAAGTAACCCTG
63 AAAATTTATAATTAATTTACTCAAGTAACCCTG
*
20951127 AACCCTAATTTATTTG-ATTTTTCCTTAAAAAACAATAAACACGAAACCTAATCCAATTTTGAAA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAAAC-ATAAACACGAAACCTAATCCAATTTTGAAA
*
20951191 AATTTATGATTAATTTA
65 AATTTATAATTAATTTA
20951208 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 23 0.32
97 23 0.32
98 26 0.36
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (95 bp):
AACCCTAATTTATTTGTATTTTTACTTAAAAAACATAAACACGAAACCTAATCCAATTTTGAAAA
ATTTATAATTAATTTACTCAAGTAACCCTG
Found at i:20951298 original size:35 final size:33
Alignment explanation
Indices: 20951258--20951323 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
20951248 TTTTCTCTAA
*
20951258 AACCCTAAACCTAAAAACACCAAAACTCTAACCCT
1 AACCCTAAACC-AAAAAC-CCAAAACCCTAACCCT
*
20951293 AACCCTAAACCAATAACCCAAAACCCTAACC
1 AACCCTAAACCAAAAACCCAAAACCCTAACC
20951324 GCAGGACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (33 bp):
AACCCTAAACCAAAAACCCAAAACCCTAACCCT
Found at i:20953323 original size:48 final size:47
Alignment explanation
Indices: 20953260--20953350 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
20953250 AACACACCAT
* **
20953260 TTGTGGACAAGCCACCACATAATTGCTGATAAACGGCAACATAACACA
1 TTGTAGACAAGCCACCACATAATTGCCAAT-AACGGCAACATAACACA
*
20953308 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCCACATAA
1 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAA
20953351 TTGCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (47 bp):
TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAACACA
Found at i:20960280 original size:27 final size:27
Alignment explanation
Indices: 20960250--20960418 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
20960240 CCCCATGCTC
* * *
20960250 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
20960277 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
20960304 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
20960332 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
20960359 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
20960386 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
20960413 AGTGCT
1 AGTGCT
20960419 GTACAACTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:20960387 original size:82 final size:81
Alignment explanation
Indices: 20960262--20960417 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20960252 TGCTATATAA
* *
20960262 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20960327 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20960344 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20960408 CACTTAGTGC
65 CACTTAGTGC
20960418 TGTACAACTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20963325 original size:40 final size:40
Alignment explanation
Indices: 20963281--20963504 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
20963271 TCCTCGTTCA
* *
20963281 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20963321 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
20963361 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
20963401 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
20963441 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
20963481 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20963505 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20971156 original size:40 final size:40
Alignment explanation
Indices: 20971112--20971335 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
20971102 TCCTCGTTCA
* *
20971112 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20971152 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
20971192 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
20971232 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
20971272 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
20971312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20971336 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20978667 original size:5 final size:5
Alignment explanation
Indices: 20978657--20978683 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20978647 AAAACACATT
20978657 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
20978684 CGATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:20987132 original size:3 final size:3
Alignment explanation
Indices: 20987124--20987171 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
20987114 GGTTCTACAT
* *
20987124 TTG TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TT- TCTA TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T-TG TTG TTG
20987169 TTG
1 TTG
20987172 CTGTCGACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:20993031 original size:21 final size:21
Alignment explanation
Indices: 20993012--20993080 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
20993002 AGCTAATAAA
* *
20993012 AGCTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCAAAAG
20993033 AGCTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCAAAAG
20993054 AGCTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCAAAAG
20993075 AGCTGA
1 AGCTGA
20993081 TCCACCCGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCAAAAG
Found at i:20995268 original size:41 final size:41
Alignment explanation
Indices: 20995211--20995328 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
20995201 AGCGGCGATT
* *
20995211 CTCAGATCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
** *
20995252 CTCAGATCTTTAGCGGCATTTTCCAAAAAGCGCCACTAATG
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
* **
20995293 CTCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGC
20995329 AAAAACATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (41 bp):
CTCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATG
Found at i:20995767 original size:14 final size:15
Alignment explanation
Indices: 20995734--20995767 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20995724 TAAGGTTTAT
20995734 AGATTATGGAATTAG
1 AGATTATGGAATTAG
20995749 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
20995763 GGATT
1 AGATT
20995768 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:20995947 original size:89 final size:89
Alignment explanation
Indices: 20995854--20996029 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
20995844 TTCAATGTTA
* *
20995854 AGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
20995919 TTAGGGGTTAGGGATTCGGGGTCG
66 TTAGGGGTTAGGGATTCGGGGTCG
* *
20995943 AGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
* * *
20996008 TTAGTGGTTAGGGGTTTGGGGT
66 TTAGGGGTTAGGGATTCGGGGT
20996030 TTGGGGTTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (89 bp):
AGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGGGGTTAGGGATTCGGGGTCG
Found at i:20996037 original size:21 final size:22
Alignment explanation
Indices: 20995998--20996038 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20995988 TATTAAATAA
*
20995998 GGTTTAGGGGTTAGTGGTTAGG
1 GGTTTAGGGGTTAGGGGTTAGG
*
20996020 GGTTT-GGGGTTTGGGGTTA
1 GGTTTAGGGGTTAGGGGTTA
20996039 AGAGTTAGTG
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:0.10, C:0.00, G:0.51, T:0.39
Consensus pattern (22 bp):
GGTTTAGGGGTTAGGGGTTAGG
Found at i:20997179 original size:22 final size:23
Alignment explanation
Indices: 20997149--20997213 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
20997139 AAAATCCACT
20997149 CCCCTTAAAATCCCCAACTTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
20997172 CGCC-TAAAATCCCTAA-TTTCC
1 CCCCTTAAAATCCCCAACTTTCC
* *
20997193 CCCCTTGAAACCCCCAACTTT
1 CCCCTTAAAATCCCCAACTTT
20997214 ACAAACATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 8 0.24
22 20 0.59
23 6 0.18
ACGTcount: A:0.26, C:0.45, G:0.03, T:0.26
Consensus pattern (23 bp):
CCCCTTAAAATCCCCAACTTTCC
Found at i:21001126 original size:42 final size:42
Alignment explanation
Indices: 21001066--21001305 Score: 173
Period size: 43 Copynumber: 5.6 Consensus size: 42
21001056 TAATTTTTTT
* * * *
21001066 TAAAGATTATGTT-TTTAGCGGCGTTT-TAGCTAGAAGCACTGC
1 TAAAGGTT-TGTTCTTTAGCGGCGTTTGT-GATAAAAGCACCGC
*
21001108 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
* *
21001150 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGA-AAAA-CGCCGC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGT--GATAAAAGCACCGC
* * * * *** *
21001193 TAAAGGTCGTGGTCATTAGCGGCATTTGTGGGGAAAGCGCCGC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
* * ** ** *
21001236 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGT
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
*
21001279 TAAAGGTCTTGGTCTTTAGCGGCGTTT
1 TAAAGGT-TTGTTCTTTAGCGGCGTTT
21001306 TTTTCTGAAA
Statistics
Matches: 173, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
41 5 0.03
42 40 0.23
43 122 0.71
44 4 0.02
45 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (42 bp):
TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCACCGC
Found at i:21001175 original size:43 final size:43
Alignment explanation
Indices: 21001106--21001305 Score: 269
Period size: 43 Copynumber: 4.7 Consensus size: 43
21001096 TAGAAGCACT
* *
21001106 GCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
*
21001148 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGGAAAAACGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGA-GAAAAGCGCC
* * * * *
21001191 GCTAAAGGTCGTGGTCATTAGCGGCATTTGTGGGGAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
* * *
21001234 GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
*
21001277 GTTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTT
21001306 TTTTCTGAAA
Statistics
Matches: 139, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 10 0.07
43 129 0.93
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCC
Found at i:21001398 original size:22 final size:22
Alignment explanation
Indices: 21001370--21001411 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21001360 GGCACTTCTC
*
21001370 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
21001392 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
21001412 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:21002868 original size:26 final size:24
Alignment explanation
Indices: 21002834--21002885 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
21002824 TATATACTAA
*
21002834 ATCAATTAATAATAAAATAATAAAAT
1 ATCAATTAAAAATAAAAT--TAAAAT
* *
21002860 ATCATTTAAAAATCAAATTAAAAT
1 ATCAATTAAAAATAAAATTAAAAT
21002884 AT
1 AT
21002886 TAATAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCAATTAAAAATAAAATTAAAAT
Found at i:21004322 original size:18 final size:17
Alignment explanation
Indices: 21004281--21004323 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
21004271 GTTTACAAAT
21004281 ATTTTTAAATTATTGAA
1 ATTTTTAAATTATTGAA
* *
21004298 ATCTTTTCAATTATTTATA
1 AT-TTTTAAATTATTGA-A
21004317 ATTTTTA
1 ATTTTTA
21004324 CTTGATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 16 0.76
19 3 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTTAAATTATTGAA
Found at i:21015333 original size:29 final size:29
Alignment explanation
Indices: 21015300--21015366 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
21015290 TTCTTAAATG
*
21015300 ATAATCACTCTCAGACTTTTGTTTGGCGA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
* * *
21015329 ATAATCACTGTCAGACTCTTGTTTTGCTA
1 ATAATCACTCTCAGACTCTTGTTTGGCGA
21015358 ATAATCACT
1 ATAATCACT
21015367 ATGACTCTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (29 bp):
ATAATCACTCTCAGACTCTTGTTTGGCGA
Found at i:21018205 original size:7 final size:7
Alignment explanation
Indices: 21018196--21018233 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
21018186 AGAAGGGCCT
*
21018196 CCCTCCT
1 CCCTCCC
21018203 CCCTCCC
1 CCCTCCC
21018210 CCCTCCC
1 CCCTCCC
21018217 CCCTCCC
1 CCCTCCC
21018224 CCCTCCC
1 CCCTCCC
21018231 CCC
1 CCC
21018234 AATCAGTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.84, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTCCC
Found at i:21021283 original size:9 final size:9
Alignment explanation
Indices: 21021269--21021299 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21021259 GTTAAACGAA
21021269 TCGAGTTAT
1 TCGAGTTAT
*
21021278 TCGAGTTAA
1 TCGAGTTAT
21021287 TCGAGTTAT
1 TCGAGTTAT
21021296 TCGA
1 TCGA
21021300 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21028971 original size:30 final size:30
Alignment explanation
Indices: 21028935--21028994 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21028925 AGTAAGTTAT
21028935 GATACCTTTTCAGACTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
*
21028965 GATACCTTTTCAGTCTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
21028995 ACAGCACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (30 bp):
GATACCTTTTCAGACTAGTTTCAGATAATC
Found at i:21057121 original size:40 final size:40
Alignment explanation
Indices: 21057058--21057229 Score: 265
Period size: 40 Copynumber: 4.3 Consensus size: 40
21057048 ACTAAGATCT
* * *
21057058 GAAGGCATTTTGTGCGAGATACTAATTCCGGGTTAAGTCCT
1 GAAGGCA-TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
21057099 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
21057139 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * *
21057179 GAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
21057219 GAAGGCATTTG
1 GAAGGCATTTG
21057230 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 115 0.93
41 9 0.07
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:21057247 original size:80 final size:80
Alignment explanation
Indices: 21057078--21057262 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
21057068 TGTGCGAGAT
* * * *
21057078 ACTAATTCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAG
** *
21057143 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTG
*
21057158 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAA
21057222 GGCATTTGAACGAG-G
65 GGCATTTGAACGAGTG
* * *
21057237 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
21057263 TACGTGATTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 15 0.16
80 75 0.82
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAG
GCATTTGAACGAGTG
Found at i:21058639 original size:25 final size:24
Alignment explanation
Indices: 21058606--21058667 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
21058596 TTCATTCGCA
21058606 TTTTC-TTTTCTTTCTCTTTCACT
1 TTTTCTTTTTCTTTCTCTTTCACT
** **
21058629 TATTTCTTTTTCAATCTCTTTTTCT
1 T-TTTCTTTTTCTTTCTCTTTCACT
21058654 TTTT-TTTTTCTTTC
1 TTTTCTTTTTCTTTC
21058668 AATTTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 9 0.29
24 7 0.23
25 15 0.48
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTTCTTTCTCTTTCACT
Found at i:21058640 original size:6 final size:6
Alignment explanation
Indices: 21058606--21058742 Score: 76
Period size: 6 Copynumber: 23.8 Consensus size: 6
21058596 TTCATTCGCA
* ** * * *
21058606 TTTTC- TTTTCT TTCTCT TTCACT TATTTCT TTTTCA ATCTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT
* * * *
21058654 TTTT-T TTTTC- -TTTCA ATTTCT TTTTCA ATTTCT TTTTCT TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
21058698 TTTTC- -TTTCAA TTTCCT TTTT-T TATTTC- TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTC-T TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTC
21058743 ATTCTTTTTC
Statistics
Matches: 102, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
4 8 0.08
5 21 0.21
6 66 0.65
7 7 0.07
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCT
Done.