Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 34 of 208
Found at i:13352330 original size:5 final size:5
Alignment explanation
Indices: 13352320--13352370 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
13352310 AATATTTAAC
*
13352320 TAAAA TAAAA TAAAAA TAAAA TAAAA TAATAA -ATAA T-AAA TAAAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAA-AA TAAAA TAAAA T-AAAA
13352366 TAAAA
1 TAAAA
13352371 AGAAAGATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 5 0.13
5 23 0.59
6 11 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:13352337 original size:11 final size:11
Alignment explanation
Indices: 13352321--13352370 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
13352311 ATATTTAACT
13352321 AAAATAAAATA
1 AAAATAAAATA
13352332 AAAATAAAAT-
1 AAAATAAAATA
13352342 AAAAT--AATA
1 AAAATAAAATA
13352351 AATAAT-AAATA
1 AA-AATAAAATA
13352362 AAAATAAAA
1 AAAATAAAA
13352371 AGAAAGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 11 0.31
11 19 0.54
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13352352 original size:19 final size:19
Alignment explanation
Indices: 13352322--13352364 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
13352312 TATTTAACTA
13352322 AAATAAAATAA-AAAT-A-
1 AAATAAAATAATAAATAAT
13352338 AAATAAAATAATAAATAAT
1 AAATAAAATAATAAATAAT
13352357 AAATAAAA
1 AAATAAAA
13352365 ATAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.46
17 4 0.17
18 1 0.04
19 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAATAATAAATAAT
Found at i:13352368 original size:20 final size:19
Alignment explanation
Indices: 13352328--13352364 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13352318 ACTAAAATAA
13352328 AATAAAAATAAAATAAAAT
1 AATAAAAATAAAATAAAAT
13352347 AATAAATAAT-AAATAAAA
1 AATAAA-AATAAAATAAAA
13352365 ATAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AATAAAAATAAAATAAAAT
Found at i:13363496 original size:45 final size:46
Alignment explanation
Indices: 13363429--13363552 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
13363419 CATATGACCT
* *
13363429 CTTATCAC-TTGTC-CTTGATCAGATAAGTATAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13363472 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13363518 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13363553 CACTTATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 20 0.27
46 41 0.56
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:13363535 original size:46 final size:45
Alignment explanation
Indices: 13363429--13363663 Score: 198
Period size: 37 Copynumber: 5.8 Consensus size: 45
13363419 CATATGACCT
* *
13363429 CTTATCAC-TTGTC-CTTGATCAGATAAGTATAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13363472 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13363518 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13363555 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13363592 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13363629 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13363664 CACTTATCAC
Statistics
Matches: 176, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 20 0.11
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13363556 original size:37 final size:37
Alignment explanation
Indices: 13363514--13363690 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
13363504 AGCTGAAGCT
* **
13363514 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13363551 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13363588 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13363625 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13363662 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13363691 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13370749 original size:46 final size:45
Alignment explanation
Indices: 13370643--13370801 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
13370633 CATATGACCT
*
13370643 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13370686 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13370732 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13370769 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
13370802 ACCACTTATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13370770 original size:37 final size:37
Alignment explanation
Indices: 13370728--13370904 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
13370718 AGCTGAAGCT
* **
13370728 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13370765 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13370802 ACCACTTATCACTTTGTTTCTTGATCAGATAACTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13370839 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13370876 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13370905 AGTACTCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13371040 original size:88 final size:88
Alignment explanation
Indices: 13370891--13371066 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
13370881 TTATCACTTT
13370891 GTTTCTTGATCAGAAGTACTCAAATCCGGTGTTCCACTTAATTTGATCATTTATTCGATTTTCAC
1 GTTTCTTGATCAGAAGTACTCAAATCCGGTGTTCCACTTAATTTGATCATTTATTCGATTTTCAC
13370956 ATTTTTATTTTATTCTCATTTCA
66 ATTTTTATTTTATTCTCATTTCA
13370979 GTTTCTTGATCAGAAGTACTCAAATCCGGTGTTCCACTTAATTTGATCATTTATTCGATTTTCAC
1 GTTTCTTGATCAGAAGTACTCAAATCCGGTGTTCCACTTAATTTGATCATTTATTCGATTTTCAC
13371044 ATTTTTATTTTATTCTCATTTCA
66 ATTTTTATTTTATTCTCATTTCA
13371067 ACAATAAATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (88 bp):
GTTTCTTGATCAGAAGTACTCAAATCCGGTGTTCCACTTAATTTGATCATTTATTCGATTTTCAC
ATTTTTATTTTATTCTCATTTCA
Found at i:13371986 original size:28 final size:28
Alignment explanation
Indices: 13371955--13372014 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
13371945 TATATTTTTA
13371955 TTTTTATTTTTTAATTTT-AAAATAAATT
1 TTTTTATTTTTTAATTTTAAAAAT-AATT
*
13371983 TTTTTATTTTTTTATTTTAAAAATAATT
1 TTTTTATTTTTTAATTTTAAAAATAATT
13372011 TTTT
1 TTTT
13372015 AATGTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTTATTTTTTAATTTTAAAAATAATT
Found at i:13372512 original size:16 final size:16
Alignment explanation
Indices: 13372490--13372558 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
13372480 TTTGGTTCGC
13372490 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13372506 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13372522 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
13372539 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13372555 TGTA
1 TGTA
13372559 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13372536 original size:33 final size:32
Alignment explanation
Indices: 13372490--13372558 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
13372480 TTTGGTTCGC
13372490 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
13372522 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
13372555 TGTA
1 TGTA
13372559 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:13372623 original size:44 final size:45
Alignment explanation
Indices: 13372539--13372629 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13372529 GGATTAGAGG
* * *
13372539 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13372584 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13372628 TG
1 TG
13372630 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13372815 original size:18 final size:17
Alignment explanation
Indices: 13372794--13372828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13372784 TTATTATTAA
*
13372794 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13372812 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13372829 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13372935 original size:18 final size:17
Alignment explanation
Indices: 13372914--13372948 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13372904 TTATTATTAA
*
13372914 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13372932 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13372949 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13372990 original size:120 final size:120
Alignment explanation
Indices: 13372777--13374239 Score: 2773
Period size: 120 Copynumber: 12.2 Consensus size: 120
13372767 ATCATATTTA
13372777 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13372842 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13372897 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13372962 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
13373017 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTAAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13373082 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13373137 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13373202 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13373257 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13373322 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATG
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13373377 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13373442 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13373497 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13373562 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13373617 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13373682 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13373737 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13373802 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13373857 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13373922 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
13373977 AACATAATTATTACTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13374042 TAATCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13374097 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13374162 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13374217 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
13374240 AACTTGAAAA
Statistics
Matches: 1319, Mismatches: 24, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 1319 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13373295 original size:18 final size:17
Alignment explanation
Indices: 13373274--13373308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13373264 TTATTATTAA
*
13373274 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13373292 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13373309 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13373415 original size:18 final size:17
Alignment explanation
Indices: 13373394--13373428 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13373384 TTATTATTAA
*
13373394 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13373412 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13373429 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13377307 original size:33 final size:33
Alignment explanation
Indices: 13377268--13377377 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
13377258 ATTATAAAGC
13377268 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
13377301 ATGTATAATTGACCTAAAATTAATTCTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
13377334 AT-TTTTATTTACCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGA-CCTAAAATTAATTGTTGGTGT
13377367 ATGTATAATTG
1 ATGTATAATTG
13377378 TTGGTGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.09
33 54 0.83
34 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:13377377 original size:18 final size:18
Alignment explanation
Indices: 13377354--13377395 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
13377344 ACCCTAAAAT
13377354 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
13377372 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
13377390 TAATTG
1 TAATTG
13377396 ACCTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TAATTGTTGGTGTATGTA
Found at i:13378773 original size:28 final size:28
Alignment explanation
Indices: 13378740--13378852 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 28
13378730 TTTTTATTAT
13378740 AATATTTTATTATTTCAGTTTATTTCAC
1 AATATTTTATTATTTCAGTTTATTTCAC
* * *
13378768 AATATTTATTTTAAGTATT-AGATATATTATACATT
1 AATATTT-TATT-A-T-TTCAG-TTTATT-T-CA-C
*
13378803 AATATTTATTTTATTATTTCAGTTCATTTCAC
1 AATA--T--TTTATTATTTCAGTTTATTTCAC
13378835 AATATTTTATTATTTCAG
1 AATATTTTATTATTTCAG
13378853 CTTTTATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
28 20 0.31
29 3 0.05
30 2 0.03
31 3 0.05
32 11 0.17
33 3 0.05
34 3 0.05
35 10 0.15
36 3 0.05
37 2 0.03
38 3 0.05
39 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
AATATTTTATTATTTCAGTTTATTTCAC
Found at i:13378778 original size:32 final size:32
Alignment explanation
Indices: 13378742--13378841 Score: 105
Period size: 32 Copynumber: 3.0 Consensus size: 32
13378732 TTTATTATAA
13378742 TATTTTATTATTTCAGTTTATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
* * *
13378774 TATTTTAAGTA-TT-AGATATATTATACATTAATATT
1 TATTTT-ATTATTTCAG-TTTATT-T-CA-CAATATT
*
13378809 TATTTTATTATTTCAGTTCATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
13378841 T
1 T
13378842 TATTATTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.04
32 20 0.37
33 6 0.11
34 6 0.11
35 18 0.33
36 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (32 bp):
TATTTTATTATTTCAGTTTATTTCACAATATT
Found at i:13378859 original size:15 final size:15
Alignment explanation
Indices: 13378839--13378867 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13378829 TTTCACAATA
13378839 TTTTATTATTTCAGC
1 TTTTATTATTTCAGC
13378854 TTTTATTATTTCAG
1 TTTTATTATTTCAG
13378868 TTTATTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTATTATTTCAGC
Found at i:13380589 original size:12 final size:13
Alignment explanation
Indices: 13380574--13380609 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
13380564 TGTGAAAACC
13380574 TTAAAAAA-TAAA
1 TTAAAAAAGTAAA
13380586 TTAAAAAAGTAAA
1 TTAAAAAAGTAAA
13380599 --AAAAAAGTAAA
1 TTAAAAAAGTAAA
13380610 AAAGAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 8 0.35
13 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
TTAAAAAAGTAAA
Found at i:13380602 original size:11 final size:11
Alignment explanation
Indices: 13380588--13380612 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13380578 AAAATAAATT
13380588 AAAAAAGTAAA
1 AAAAAAGTAAA
13380599 AAAAAAGTAAA
1 AAAAAAGTAAA
13380610 AAA
1 AAA
13380613 GAATAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAGTAAA
Found at i:13380609 original size:19 final size:20
Alignment explanation
Indices: 13380575--13380613 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13380565 GTGAAAACCT
*
13380575 TAAAAAATAAATTAAAAAAG
1 TAAAAAATAAAGTAAAAAAG
13380595 TAAAAAA-AAAGTAAAAAAG
1 TAAAAAATAAAGTAAAAAAG
13380614 AATAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
TAAAAAATAAAGTAAAAAAG
Found at i:13381002 original size:30 final size:28
Alignment explanation
Indices: 13380937--13381002 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
13380927 TAATATGATA
*
13380937 AAATTTTAGTCATGTACTCTTCAATTTG
1 AAATTTTAATCATGTACTCTTCAATTTG
* *
13380965 ATTAATTTTAATCATTGTACTTTTTAACTTTG
1 A--AATTTTAATCA-TGTACTCTTCAA-TTTG
13380997 AAATTT
1 AAATTT
13381003 CATTCCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.03
30 15 0.48
31 10 0.32
32 5 0.16
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (28 bp):
AAATTTTAATCATGTACTCTTCAATTTG
Found at i:13393128 original size:44 final size:47
Alignment explanation
Indices: 13393029--13393133 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 47
13393019 ATAAAATATA
* *
13393029 TATGTGTATATACATAAAATTATAAAAATATGAGAAATATATGTATG
1 TATGTGTATATACATAAAATTATAAAAATATGAAAAATATATGTAAG
* * **
13393076 GA--TATATAT-TTTAAAATTAT-AAAATAT-AAAAATATATGTAAG
1 TATGTGTATATACATAAAATTATAAAAATATGAAAAATATATGTAAG
13393118 TATGTGTATATACATA
1 TATGTGTATATACATA
13393134 TATAGGTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
42 14 0.31
43 7 0.16
44 15 0.33
45 8 0.18
47 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (47 bp):
TATGTGTATATACATAAAATTATAAAAATATGAAAAATATATGTAAG
Found at i:13393234 original size:10 final size:10
Alignment explanation
Indices: 13393221--13393262 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
13393211 GTATATATAT
13393221 ATTTATAAAA
1 ATTTATAAAA
13393231 ATTTA-AAAA
1 ATTTATAAAA
13393240 ATGTATATAAAA
1 AT-T-TATAAAA
*
13393252 ATATATAAAA
1 ATTTATAAAA
13393262 A
1 A
13393263 ATACATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 6 0.21
10 14 0.50
11 2 0.07
12 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
ATTTATAAAA
Found at i:13393270 original size:23 final size:23
Alignment explanation
Indices: 13393188--13393297 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 23
13393178 AATTATGAAT
* *
13393188 TATAAAAAA-ATATATACAAGTA
1 TATAAAAAATATATATAAAAATA
* * * *
13393210 TGTATATATATATTTATAAAAAT-
1 TATA-AAAAATATATATAAAAATA
*
13393233 T-TAAAAAATGTATATAAAAATA
1 TATAAAAAATATATATAAAAATA
**
13393255 TATAAAAAATACATATATTTTAAA-A
1 TATAAAAAAT--ATATA-TAAAAATA
13393280 TATAAAAAATATATATAA
1 TATAAAAAATATATATAA
13393298 GTATGTATAT
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
21 14 0.21
22 7 0.11
23 17 0.26
24 9 0.14
25 15 0.23
26 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (23 bp):
TATAAAAAATATATATAAAAATA
Found at i:13393271 original size:25 final size:24
Alignment explanation
Indices: 13393224--13393297 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
13393214 TATATATATT
*
13393224 TATAAAAAT-T-TAAAAAAT-GTA
1 TATAAAAATATATAAAAAATAATA
13393245 TATAAAAATATATAAAAAATACATA
1 TATAAAAATATATAAAAAATA-ATA
**
13393270 TATTTTAAA-ATATAAAAAAT-ATA
1 TA-TAAAAATATATAAAAAATAATA
13393293 TATAA
1 TATAA
13393298 GTATGTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.21
22 2 0.05
23 13 0.30
25 15 0.35
26 4 0.09
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (24 bp):
TATAAAAATATATAAAAAATAATA
Found at i:13395593 original size:7 final size:7
Alignment explanation
Indices: 13395583--13395620 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
13395573 TTATGTGATC
13395583 AGTGACA
1 AGTGACA
13395590 AGTGACA
1 AGTGACA
13395597 AGTGACA
1 AGTGACA
13395604 AGTGACA
1 AGTGACA
*
13395611 AGTGATA
1 AGTGACA
13395618 AGT
1 AGT
13395621 AGTAGCTTCA
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:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:13395647 original size:65 final size:65
Alignment explanation
Indices: 13395539--13395672 Score: 214
Period size: 65 Copynumber: 2.1 Consensus size: 65
13395529 ACTTTTGATC
* * *
13395539 AGTGACAAGTGATAAGTAGTTGCTTTAGCTACACTTATGTGATCAGTGACAAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
** *
13395604 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGGAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
13395669 AGTG
1 AGTG
13395673 GTAGCTTAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (65 bp):
AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
Found at i:13395707 original size:50 final size:51
Alignment explanation
Indices: 13395597--13395717 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 51
13395587 ACAAGTGACA
*
13395597 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATC
** *
13395648 AGTGACAAGTGGGAAGTGATAAGTGGTAGCTT-AACTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATC
*
13395698 ACG-GACAAGTGATAAGTGAT
1 A-GTGACAAGTGACAAGTGAT
13395718 CATACGTAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 33 0.52
51 30 0.48
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAACTACACTTATCTGATC
Found at i:13398473 original size:25 final size:25
Alignment explanation
Indices: 13398434--13398589 Score: 161
Period size: 25 Copynumber: 6.2 Consensus size: 25
13398424 ATTCATGTAT
* *
13398434 GCTCATACGAACTGAATAACGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
13398459 GCTCATGCGAGCTGAATAACGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
* * *
13398484 GCTCATGTGAGCTGTATAATGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
* * *
13398509 GCTCATACGAGCTGAGTATCGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
* * *
13398534 GCTCATGCAAGCT-AAGTATCAGGAA
1 GCTCATGCGAGCTGAA-TAACGGGAA
* * * *
13398559 ACTCATGTGAGCTAAATATCGGGAA
1 GCTCATGCGAGCTGAATAACGGGAA
13398584 GCTCAT
1 GCTCAT
13398590 AAGAGCTGTG
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
24 1 0.01
25 106 0.97
26 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAACGGGAA
Found at i:13398564 original size:75 final size:75
Alignment explanation
Indices: 13398434--13398597 Score: 206
Period size: 75 Copynumber: 2.2 Consensus size: 75
13398424 ATTCATGTAT
* * * * **
13398434 GCTCATACGAACTGAATAACGGGAAGCTCATGCGAGCTGAATAACGGGAAGCTCATGTGAGCTGT
1 GCTCATACGAGCTGAATAACGGGAAGCTCATGCAAGCTGAATAACAGGAAACTCATGTGAGCTAA
13398499 ATAAT-GGGAA
66 AT-ATCGGGAA
* * *
13398509 GCTCATACGAGCTGAGTATCGGGAAGCTCATGCAAGCT-AAGTATCAGGAAACTCATGTGAGCTA
1 GCTCATACGAGCTGAATAACGGGAAGCTCATGCAAGCTGAA-TAACAGGAAACTCATGTGAGCTA
13398573 AATATCGGGAA
65 AATATCGGGAA
*
13398584 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
13398598 TGGTGTATCC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
74 4 0.05
75 73 0.95
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (75 bp):
GCTCATACGAGCTGAATAACGGGAAGCTCATGCAAGCTGAATAACAGGAAACTCATGTGAGCTAA
ATATCGGGAA
Found at i:13400559 original size:18 final size:20
Alignment explanation
Indices: 13400538--13400576 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13400528 ATATACATAC
*
13400538 ATAC-TTAT-ATTTTTATAT
1 ATACTTTATAATTATTATAT
13400556 ATACTTTATAATTATTATAT
1 ATACTTTATAATTATTATAT
13400576 A
1 A
13400577 CATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
ATACTTTATAATTATTATAT
Found at i:13407665 original size:5 final size:5
Alignment explanation
Indices: 13407657--13407681 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13407647 ATCAAATCAG
13407657 TCACC TCACC TCACC TCACC TCACC
1 TCACC TCACC TCACC TCACC TCACC
13407682 CCATCTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
TCACC
Found at i:13436792 original size:16 final size:16
Alignment explanation
Indices: 13436770--13436838 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
13436760 TTTGGTTCGC
*
13436770 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
13436786 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13436802 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
13436819 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13436835 TGTA
1 TGTA
13436839 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13436816 original size:33 final size:32
Alignment explanation
Indices: 13436770--13436838 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
13436760 TTTGGTTCGC
13436770 TGTATTGGATTAGAGACGTATTGGATTAGAGG
1 TGTATTGGATTAGAGACGTATTGGATTAGAGG
**
13436802 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGACGTATTGGATTAGAGG
13436835 TGTA
1 TGTA
13436839 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGACGTATTGGATTAGAGG
Found at i:13436903 original size:44 final size:45
Alignment explanation
Indices: 13436819--13436909 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13436809 GGATTAGAGG
* * *
13436819 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13436864 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13436908 TG
1 TG
13436910 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13437227 original size:120 final size:120
Alignment explanation
Indices: 13437056--13438360 Score: 2546
Period size: 120 Copynumber: 10.9 Consensus size: 120
13437046 ATCATATTTA
*
13437056 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
13437120 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437176 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437241 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437296 AACATAATTATTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437360 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437415 AACATAATTATTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
13437479 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437534 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437599 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437654 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437719 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437774 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437838 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437893 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437958 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13438013 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13438078 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13438133 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13438198 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13438253 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
13438318 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
13438361 TGATGCTAGT
Statistics
Matches: 1178, Mismatches: 4, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
119 358 0.30
120 820 0.70
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13437571 original size:239 final size:240
Alignment explanation
Indices: 13437056--13438360 Score: 2546
Period size: 239 Copynumber: 5.5 Consensus size: 240
13437046 ATCATATTTA
*
13437056 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
13437120 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
13437185 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
130 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
13437250 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
195 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437296 AACATAATTATTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437360 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
13437425 TTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAATGTTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13437489 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437534 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437599 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
13437664 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13437729 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13437774 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437838 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
13437903 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13437968 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13438013 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13438078 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
13438143 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13438208 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13438253 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
13438318 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
13438361 TGATGCTAGT
Statistics
Matches: 1057, Mismatches: 4, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
238 120 0.11
239 473 0.45
240 464 0.44
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (240 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13437773 original size:359 final size:360
Alignment explanation
Indices: 13437056--13438360 Score: 2546
Period size: 359 Copynumber: 3.6 Consensus size: 360
13437046 ATCATATTTA
*
13437056 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
13437120 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
13437185 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
130 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
13437250 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
195 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
13437315 ATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
260 ATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
13437379 TCAAATCATAATATATGATACTGTAAAATATAAATT
325 TCAAATCATAATATATGATACTGTAAAATATAAATT
13437415 AACATAATTATTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
13437479 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
13437544 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13437609 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
13437674 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
13437739 CAAATCATAATATATGATACTGTAAAATATAAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATT
13437774 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13437838 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
13437903 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13437968 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
13438033 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
13438098 CAAATCATAATATATGATACTGTAAAATATAAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATT
13438133 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
13438198 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
13438263 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATGTTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
13438328 TTAATTTACTCAAATCATAATATATGATACTGT
196 TTAATTTACTCAAATCATAATATATGATACTGT
13438361 TGATGCTAGT
Statistics
Matches: 938, Mismatches: 4, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
357 2 0.00
358 234 0.25
359 507 0.54
360 195 0.21
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (360 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
CAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13440219 original size:13 final size:12
Alignment explanation
Indices: 13440186--13440213 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13440176 TTTTTTTTAA
13440186 TTTTAAAATACT
1 TTTTAAAATACT
13440198 TTTTAAAATACT
1 TTTTAAAATACT
13440210 TTTT
1 TTTT
13440214 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:13440239 original size:10 final size:11
Alignment explanation
Indices: 13440186--13440257 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 11
13440176 TTTTTTTTAA
13440186 TTTTAAAATACT
1 TTTTAAAATA-T
13440198 TTTTAAAATACTT
1 TTTTAAAATA--T
*
13440211 TTTTTAAAT-T
1 TTTTAAAATAT
13440221 TTTT---A-A-
1 TTTTAAAATAT
13440227 TTTTAAAATAT
1 TTTTAAAATAT
13440238 TTTTAAAA-AT
1 TTTTAAAATAT
13440248 TTTTAAAATA
1 TTTTAAAATA
13440258 AAAATGGGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 1 0.02
10 16 0.32
11 9 0.18
12 10 0.20
13 9 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:13440247 original size:41 final size:41
Alignment explanation
Indices: 13440138--13440245 Score: 175
Period size: 40 Copynumber: 2.7 Consensus size: 41
13440128 ATATATTTAT
* *
13440138 TTTTTTAATTTTAAAATATTTTT-ACATACTTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATA
13440178 TTTTTTAATTTTAAAATACTTTTTAAAATACTTTTTTTAA-A
1 TTTTTTAATTTTAAAATA-TTTTTAAAATACTTTTTTTAATA
13440219 TTTTTTAATTTTAAAATATTTTTAAAA
1 TTTTTTAATTTTAAAATATTTTTAAAA
13440246 ATTTTTAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 27 0.42
41 23 0.36
42 14 0.22
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATA
Found at i:13440470 original size:46 final size:46
Alignment explanation
Indices: 13440404--13440565 Score: 251
Period size: 46 Copynumber: 3.6 Consensus size: 46
13440394 CACCTCTACT
* *
13440404 TCTGATC-AGTGGCAAAGTGATAAGTGGTTGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13440449 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
13440495 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCT-TTAGCTACACTTA
*
13440541 TCTTATCAAG-GAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13440566 ATCATACGTA
Statistics
Matches: 110, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
44 12 0.11
45 10 0.09
46 88 0.80
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:13441821 original size:28 final size:29
Alignment explanation
Indices: 13441758--13441823 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
13441748 ATATAAAATT
* *
13441758 ATATATTTATGATTTTTATAAAAATATAA
1 ATATTTTTATGATTTTAATAAAAATATAA
* * * *
13441787 ATATTTTTATTATTTTAATAGAATTATAT
1 ATATTTTTATGATTTTAATAAAAATATAA
13441816 AT-TTTTTA
1 ATATTTTTA
13441824 AAATTAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATATTTTTATGATTTTAATAAAAATATAA
Found at i:13442193 original size:40 final size:40
Alignment explanation
Indices: 13442118--13442386 Score: 296
Period size: 40 Copynumber: 6.8 Consensus size: 40
13442108 ATTTTATGAC
* * **
13442118 TTTACCAAAATATTTAAC-AATTACCAATAATTCTAAATA
1 TTTACCAAAATATCTAACGATTTACCAATAATTCTAAGGA
* * *
13442157 TTTATCAAAATATTTAACAATTTACCAATAATTCTAAGGA
1 TTTACCAAAATATCTAACGATTTACCAATAATTCTAAGGA
* *
13442197 TTTACCAAAATATCTAATGATTTACCAATATTTCTAAGGA
1 TTTACCAAAATATCTAACGATTTACCAATAATTCTAAGGA
* * * * * *
13442237 TATACCAATATATCTAACAATTTGCCAA-AATTTTTAACGA
1 TTTACCAAAATATCTAACGATTTACCAATAA-TTCTAAGGA
13442277 TTTACCAATAAT-TCTAACGATTTACCAATAATT-TCAAGGA
1 TTTACCAA-AATATCTAACGATTTACCAATAATTCT-AAGGA
* * *
13442317 TTTATCAAAATATCTAACGCTTTACCAA-AATTTCTAATGA
1 TTTACCAAAATATCTAACGATTTACCAATAA-TTCTAAGGA
*
13442357 TTTATCAAAATATCTAACGATTTACCAATA
1 TTTACCAAAATATCTAACGATTTACCAATA
13442387 TTTATGAGAC
Statistics
Matches: 195, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
39 24 0.12
40 165 0.85
41 6 0.03
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (40 bp):
TTTACCAAAATATCTAACGATTTACCAATAATTCTAAGGA
Found at i:13442199 original size:20 final size:20
Alignment explanation
Indices: 13442138--13442386 Score: 208
Period size: 20 Copynumber: 12.4 Consensus size: 20
13442128 TATTTAACAA
**
13442138 TTACCAATAATTCTAAATAT
1 TTACCAATAATTCTAACGAT
* * *
13442158 TTATCAA-AATATTTAACAAT
1 TTACCAATAAT-TCTAACGAT
*
13442178 TTACCAATAATTCTAAGGAT
1 TTACCAATAATTCTAACGAT
*
13442198 TTACCAA-AATATCTAATGAT
1 TTACCAATAAT-TCTAACGAT
* *
13442218 TTACCAATATTTCTAAGGAT
1 TTACCAATAATTCTAACGAT
* *
13442238 ATACCAAT-ATATCTAACAAT
1 TTACCAATAAT-TCTAACGAT
* *
13442258 TTGCCAA-AATTTTTAACGAT
1 TTACCAATAA-TTCTAACGAT
13442278 TTACCAATAATTCTAACGAT
1 TTACCAATAATTCTAACGAT
*
13442298 TTACCAATAATT-TCAAGGAT
1 TTACCAATAATTCT-AACGAT
* *
13442318 TTATCAA-AATATCTAACGCT
1 TTACCAATAAT-TCTAACGAT
*
13442338 TTACCAA-AATTTCTAATGAT
1 TTACCAATAA-TTCTAACGAT
*
13442358 TTATCAA-AATATCTAACGAT
1 TTACCAATAAT-TCTAACGAT
13442378 TTACCAATA
1 TTACCAATA
13442387 TTTATGAGAC
Statistics
Matches: 184, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.07
20 161 0.88
21 11 0.06
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TTACCAATAATTCTAACGAT
Found at i:13442232 original size:80 final size:80
Alignment explanation
Indices: 13442118--13442389 Score: 336
Period size: 80 Copynumber: 3.4 Consensus size: 80
13442108 ATTTTATGAC
* * * ** *
13442118 TTTACCAAAATATTTAAC-AATTACCAATAATTCTAAATATTTATCAAAATATTTAACAATTTAC
1 TTTACCAAAATATCTAACGATTTACCAATATTTCTAAGGATTTATCAAAATATCTAACAATTTAC
*
13442182 CAATAA-TTCTAAGGA
66 CAA-AATTTCTAACGA
* * * * *
13442197 TTTACCAAAATATCTAATGATTTACCAATATTTCTAAGGATATACCAATATATCTAACAATTTGC
1 TTTACCAAAATATCTAACGATTTACCAATATTTCTAAGGATTTATCAAAATATCTAACAATTTAC
*
13442262 CAAAATTTTTAACGA
66 CAAAATTTCTAACGA
**
13442277 TTTACCAATAAT-TCTAACGATTTACCAATAATTTC-AAGGATTTATCAAAATATCTAACGCTTT
1 TTTACCAA-AATATCTAACGATTTACCAAT-ATTTCTAAGGATTTATCAAAATATCTAACAATTT
*
13442340 ACCAAAATTTCTAATGA
64 ACCAAAATTTCTAACGA
*
13442357 TTTATCAAAATATCTAACGATTTACCAATATTT
1 TTTACCAAAATATCTAACGATTTACCAATATTT
13442390 ATGAGACTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
79 25 0.15
80 132 0.80
81 8 0.05
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (80 bp):
TTTACCAAAATATCTAACGATTTACCAATATTTCTAAGGATTTATCAAAATATCTAACAATTTAC
CAAAATTTCTAACGA
Found at i:13442528 original size:20 final size:19
Alignment explanation
Indices: 13442503--13442587 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
13442493 TATCTAAAAC
13442503 TTTACCAATAGTTTTATGGA
1 TTTACCAATA-TTTTATGGA
* * *
13442523 TTTACCAAAATATCTA-AGA
1 TTTACCAATAT-TTTATGGA
**
13442542 CTTTACCAATATTTTTATTAA
1 -TTTACCAATA-TTTTATGGA
*
13442563 TTTACCAGTATTTATATGGA
1 TTTACCAATATTT-TATGGA
13442583 TTTAC
1 TTTAC
13442588 TTTACTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
19 6 0.12
20 42 0.84
21 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (19 bp):
TTTACCAATATTTTATGGA
Found at i:13442532 original size:40 final size:40
Alignment explanation
Indices: 13442488--13442569 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
13442478 GCGAATTTGT
*
13442488 CAAAATATCTAAAACTTTACCAATAGTTTTATGGATTTAC
1 CAAAATATCTAAAACTTTACCAATAGTTTTATGAATTTAC
* * *
13442528 CAAAATATCTAAGACTTTACCAATATTTTTATTAATTTAC
1 CAAAATATCTAAAACTTTACCAATAGTTTTATGAATTTAC
13442568 CA
1 CA
13442570 GTATTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (40 bp):
CAAAATATCTAAAACTTTACCAATAGTTTTATGAATTTAC
Found at i:13442748 original size:20 final size:21
Alignment explanation
Indices: 13442678--13442750 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
13442668 ACAATTAGAC
*
13442678 TTTATCAAAATATCTAACATT
1 TTTACCAAAATATCTAACATT
13442699 TTTACCAAAATATCTAACATT
1 TTTACCAAAATATCTAACATT
* *
13442720 TTTATCAAAATATCTAATA-T
1 TTTACCAAAATATCTAACATT
13442740 TTTACCAAAAT
1 TTTACCAAAAT
13442751 TTTTAAAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 11 0.23
21 37 0.77
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTACCAAAATATCTAACATT
Found at i:13449946 original size:3 final size:3
Alignment explanation
Indices: 13449938--13449969 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13449928 TATGTAAAAC
13449938 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13449970 TAGCAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13450110 original size:10 final size:9
Alignment explanation
Indices: 13450084--13450165 Score: 57
Period size: 8 Copynumber: 9.1 Consensus size: 9
13450074 ATTACTACTT
13450084 TAATTTT-A
1 TAATTTTAA
13450092 TAATTTTAA
1 TAATTTTAA
13450101 TAATTTT--
1 TAATTTTAA
13450108 TAATTTTAAA
1 TAATTTT-AA
*
13450118 TAATAGTTCTTA
1 TAAT--TT-TAA
**
13450130 TAATTTTTT
1 TAATTTTAA
13450139 TGAATTTTAA
1 T-AATTTTAA
13450149 -AATTTTAA
1 TAATTTTAA
13450157 -AATTTTAA
1 TAATTTTAA
13450165 T
1 T
13450166 TAAATGTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
7 7 0.11
8 23 0.38
9 11 0.18
10 12 0.20
12 7 0.11
13 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (9 bp):
TAATTTTAA
Found at i:13450113 original size:16 final size:18
Alignment explanation
Indices: 13450084--13450121 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
13450074 ATTACTACTT
13450084 TAATTTTATAATTTT-AA
1 TAATTTTATAATTTTAAA
13450101 TAATTTT-TAATTTTAAA
1 TAATTTTATAATTTTAAA
13450118 TAAT
1 TAAT
13450122 AGTTCTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTTATAATTTTAAA
Found at i:13451039 original size:16 final size:15
Alignment explanation
Indices: 13451003--13451037 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13450993 AATTTTGAAG
13451003 AAAAATGAATATTGT
1 AAAAATGAATATTGT
* *
13451018 AAAAATGTATGTTGT
1 AAAAATGAATATTGT
13451033 AAAAA
1 AAAAA
13451038 ATATTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:13455060 original size:3 final size:3
Alignment explanation
Indices: 13455052--13455076 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13455042 AGTATGAAAT
13455052 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
13455077 CTTGGTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13466767 original size:3 final size:3
Alignment explanation
Indices: 13466761--13466790 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13466751 TGTTAAATGT
13466761 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13466791 CAACAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13469069 original size:31 final size:31
Alignment explanation
Indices: 13469033--13469096 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
13469023 TTAATCATTT
*
13469033 TTTTTAA-ATACTTAAATTGTCCCTGTTTAAC
1 TTTTTAAGATACTTAAATTATCCCTG-TTAAC
* *
13469064 TTTTTAAGATACTTTAATTATCCTTGTTAAC
1 TTTTTAAGATACTTAAATTATCCCTGTTAAC
13469095 TT
1 TT
13469097 AATATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.52
Consensus pattern (31 bp):
TTTTTAAGATACTTAAATTATCCCTGTTAAC
Found at i:13477050 original size:27 final size:27
Alignment explanation
Indices: 13476972--13477051 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
13476962 TACATAGTAT
* *
13476972 TGGTGCCTATTTGGGAGGCGCCAAAGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
* *
13476999 TGGTGCCTATCTAGGAGGCACCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
13477026 TGGTGCCTATCTGGGAGGCGCCAATG
1 TGGTGCCTATCTGGGAGGCGCCAATG
13477052 CTCTGATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.23
Consensus pattern (27 bp):
TGGTGCCTATCTGGGAGGCGCCAATGG
Found at i:13477092 original size:19 final size:19
Alignment explanation
Indices: 13477068--13477108 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
13477058 TTTTTTTGGG
*
13477068 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
13477087 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
13477106 TTT
1 TTT
13477109 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:13477509 original size:241 final size:245
Alignment explanation
Indices: 13477075--13477556 Score: 909
Period size: 241 Copynumber: 2.0 Consensus size: 245
13477065 GGGTTTAGGG
13477075 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
13477140 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
13477205 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
*
13477270 CGACATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
*
13477320 TTAT-TTA-AAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTTAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
13477383 TTAGTAATAAATTACAAAATTACTAATAAG-T-TACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
13477446 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
13477511 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
13477557 TAAAATTGCA
Statistics
Matches: 234, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
241 141 0.60
242 1 0.00
243 85 0.36
244 3 0.01
245 4 0.02
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (245 bp):
TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
Found at i:13477551 original size:27 final size:27
Alignment explanation
Indices: 13477515--13477570 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
13477505 ATATCCCGAC
13477515 ATTACAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
13477542 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
13477569 AT
1 AT
13477571 ATTTTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:13477691 original size:48 final size:49
Alignment explanation
Indices: 13477607--13477705 Score: 164
Period size: 48 Copynumber: 2.0 Consensus size: 49
13477597 GGTTATCTAT
13477607 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* * *
13477656 ATTTTGTATGAATATTG-CATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
13477704 AT
1 AT
13477706 ATTATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 31 0.66
49 16 0.34
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:13477971 original size:12 final size:12
Alignment explanation
Indices: 13477954--13477985 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13477944 CCGTATTTTT
13477954 TTAAAAAAATTA
1 TTAAAAAAATTA
13477966 TTAAAAAAA-TA
1 TTAAAAAAATTA
13477977 -TAAAAAAAT
1 TTAAAAAAAT
13477986 ATTTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 2 0.11
12 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:13499335 original size:19 final size:18
Alignment explanation
Indices: 13499299--13499345 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
13499289 ATTTTTGTAG
*
13499299 TATAAATAATTTTAAGTA
1 TATAAAAAATTTTAAGTA
13499317 CTATAAAAAATTATT-AGTA
1 -TATAAAAAATT-TTAAGTA
13499336 TGATAAAAAA
1 T-ATAAAAAA
13499346 ATTCTAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.88
20 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (18 bp):
TATAAAAAATTTTAAGTA
Found at i:13500141 original size:18 final size:20
Alignment explanation
Indices: 13500103--13500143 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13500093 CTTCTAAGCC
13500103 ATAATATTTACAACATTTTT
1 ATAATATTTACAACATTTTT
*
13500123 ATAATATTT-CAA-TTTTTT
1 ATAATATTTACAACATTTTT
13500141 ATA
1 ATA
13500144 GTAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATATTTACAACATTTTT
Found at i:13505845 original size:21 final size:21
Alignment explanation
Indices: 13505810--13505851 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13505800 TAACCATGTG
13505810 TTTAGTTATTTGTTTTAATTTA
1 TTTAGTTATTTGTTTT-ATTTA
*
13505832 TTTATTTA-TTGTTTTATTTA
1 TTTAGTTATTTGTTTTATTTA
13505852 GTTTTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTAGTTATTTGTTTTATTTA
Found at i:13511691 original size:18 final size:19
Alignment explanation
Indices: 13511668--13511707 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
13511658 CAAACCAAAG
13511668 AAACAACACATTTA-CAAT
1 AAACAACACATTTAGCAAT
*
13511686 AAACAACATATTTAGCAAT
1 AAACAACACATTTAGCAAT
13511705 AAA
1 AAA
13511708 GAAGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (19 bp):
AAACAACACATTTAGCAAT
Found at i:13513825 original size:108 final size:107
Alignment explanation
Indices: 13513707--13514034 Score: 399
Period size: 108 Copynumber: 3.0 Consensus size: 107
13513697 AATTTTTTTC
* * *
13513707 GGTGGCCTGCCAATGGCCGGCACCACCATTTTTGGGGAAACTTTTTTTTTCACTTTTTTCGTGTA
1 GGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGAAA-TTTTTTTTTCACTTTTTTCGTGTT
*
13513772 AATAGCAGATATCAGTATACGAAAAAAGTAAAAAAATTTTGGT
65 AATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTGGT
*
13513815 GGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGGAAAAAAATTTAGTTTTTTTTTTACTTT
1 GGTGGCCTGCCAATGGCCGACACCACCTTTTTT-GGGG-----AA---A-TTTTTTTTTCACTTT
* *
13513880 TTTCGTGTTAATAGCTGGTATCAGTATACGAAAAAAGTAAAAAAAAAATTTGGT
56 TTTCGTGTTAATAGCAGATATCAGTATACGAAAAAAGT--AAAAAAAATTTGGT
* ***
13513934 GGTGGCCTGCCAATAGCCGACACCACCTTTTTTCAAGAAA-TTTTTTTTCACTTTTTTCGTGTTA
1 GGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGAAATTTTTTTTTCACTTTTTTCGTGTTA
* *
13513998 ATAGCA-AGTATCAATATACGAAAACAGTAAAAAAAAT
66 ATAGCAGA-TATCAGTATACGAAAAAAGTAAAAAAAAT
13514035 CTTTTTCCCA
Statistics
Matches: 191, Mismatches: 17, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
106 9 0.05
108 77 0.40
109 4 0.02
110 1 0.01
113 2 0.01
114 2 0.01
117 50 0.26
118 1 0.01
119 45 0.24
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (107 bp):
GGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGAAATTTTTTTTTCACTTTTTTCGTGTTA
ATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTGGT
Found at i:13513879 original size:117 final size:118
Alignment explanation
Indices: 13513748--13513966 Score: 368
Period size: 117 Copynumber: 1.9 Consensus size: 118
13513738 TTGGGGAAAC
*
13513748 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGT-AAAAAAATTTT
1 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAAATTT
*
13513812 GGTGGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGGAAAAAAATTTAG
66 GGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGGGGGAAAAAAATTTAG
* * * *
13513865 TTTTTTTTTTACTTTTTTCGTGTTAATAGCTGGTATCAGTATACGAAAAAAGTAAAAAAAAAATT
1 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGT-AAAAAAAAATT
13513930 TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTT
65 TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTT
13513967 CAAGAAATTT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 49 0.52
119 45 0.48
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (118 bp):
TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAAATTT
GGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGGGGGAAAAAAATTTAG
Found at i:13513989 original size:117 final size:114
Alignment explanation
Indices: 13513748--13514034 Score: 351
Period size: 119 Copynumber: 2.5 Consensus size: 114
13513738 TTGGGGAAAC
*
13513748 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAATTTTG
1 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTG
*
13513813 GTGGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGGAAAAAAATTTAGT
66 GTGGTGGCCTGCCAATAGCCGACACCACCTTTTTT----GAAAAAAATTTAGT
* * *
13513866 TTTTTTTTT-ACTTTTTTCGTGTTAATAGCTGGTATCAGTATACGAAAAAAGTAAAAAAAAAATT
1 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGT--AAAAAAAATT
* *
13513930 TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTT--CAAGAA---A--
64 TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGAAAAAAATTTAGT
* * *
13513974 -TTTTTTTTCACTTTTTTCGTGTTAATAGCA-AGTATCAATATACGAAAACAGTAAAAAAAAT
1 TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGA-TATCAGTATACGAAAAAAGTAAAAAAAAT
13514035 CTTTTTCCCA
Statistics
Matches: 154, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
106 9 0.06
107 8 0.05
108 38 0.25
110 1 0.01
113 4 0.03
117 40 0.26
118 9 0.06
119 45 0.29
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (114 bp):
TTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTG
GTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGAAAAAAATTTAGT
Found at i:13513989 original size:119 final size:117
Alignment explanation
Indices: 13513746--13514034 Score: 350
Period size: 117 Copynumber: 2.5 Consensus size: 117
13513736 TTTTGGGGAA
*
13513746 ACTTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAATTT
1 ACTTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATT
* ***
13513811 TGGTGGTGGCCTGCCAATGGCCGACACCACCTTTTTTGGGGGAAAAAAATTT
66 TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGCAAGAAAAAAATTT
* * * * *
13513863 AGTTTTTTTTTTACTTTTTTCGTGTTAATAGCTGGTATCAGTATACGAAAAAAGTAAAAAAAAAA
1 ACTTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGT--AAAAAAAA
13513928 TTTGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTT-CAAG-----AA---
64 TTTGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGCAAGAAAAAAATTT
* * *
13513973 A--TTTTTTTTCACTTTTTTCGTGTTAATAGCA-AGTATCAATATACGAAAACAGTAAAAAAAAT
1 ACTTTTTTTTTCACTTTTTTCGTGTAAATAGCAGA-TATCAGTATACGAAAAAAGTAAAAAAAAT
13514035 CTTTTTCCCA
Statistics
Matches: 154, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
106 9 0.06
108 46 0.30
110 1 0.01
113 2 0.01
117 50 0.32
118 1 0.01
119 45 0.29
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (117 bp):
ACTTTTTTTTTCACTTTTTTCGTGTAAATAGCAGATATCAGTATACGAAAAAAGTAAAAAAAATT
TGGTGGTGGCCTGCCAATAGCCGACACCACCTTTTTTGCAAGAAAAAAATTT
Found at i:13517639 original size:14 final size:16
Alignment explanation
Indices: 13517607--13517636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13517597 ATTTTTAAAA
13517607 AAAAATTATATATTTT
1 AAAAATTATATATTTT
13517623 AAAAATTAT-TATTT
1 AAAAATTATATATTT
13517637 AAACTCGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAAATTATATATTTT
Found at i:13522524 original size:30 final size:31
Alignment explanation
Indices: 13522472--13522536 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
13522462 AACAACCAAG
*
13522472 TGACTTAAATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
* *
13522503 TGACTTAAAT-GAAATTTTTGAATAATTCAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
13522533 TGAC
1 TGAC
13522537 CACTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:13523552 original size:6 final size:6
Alignment explanation
Indices: 13523535--13523568 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
13523525 TAACTATTTT
13523535 TAATTAA TAATTA TAATTA TAATTA TAATT- TAAT
1 TAATT-A TAATTA TAATTA TAATTA TAATTA TAAT
13523569 CATCACAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 4 0.15
6 18 0.67
7 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:13547196 original size:20 final size:20
Alignment explanation
Indices: 13547171--13547217 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13547161 AAATTTAAAA
13547171 TTTTAACATTCTT-TAGATTT
1 TTTTAA-ATTCTTATAGATTT
* *
13547191 TTTTAAATTTTTATATATTT
1 TTTTAAATTCTTATAGATTT
13547211 TTTTAAA
1 TTTTAAA
13547218 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAAATTCTTATAGATTT
Found at i:13554998 original size:19 final size:21
Alignment explanation
Indices: 13554976--13555024 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
13554966 GCATAAAAAC
* *
13554976 ATATAA-ATATTTTAAA-TAT
1 ATATAATAAATTTAAAATTAT
13554995 ATATAATAAATTTAAAATTAT
1 ATATAATAAATTTAAAATTAT
13555016 ATAT-ATAAA
1 ATATAATAAA
13555025 AAATTATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATAATAAATTTAAAATTAT
Found at i:13555217 original size:22 final size:22
Alignment explanation
Indices: 13555173--13555217 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13555163 ATAATCATTT
* *
13555173 TTTATTTTTATATATTTTTAAA
1 TTTATTATTATATATTTTGAAA
13555195 TTTATTATTATAT-TTTTGGAAA
1 TTTATTATTATATATTTT-GAAA
13555217 T
1 T
13555218 ATTTATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTATTATTATATATTTTGAAA
Found at i:13579155 original size:18 final size:18
Alignment explanation
Indices: 13579132--13579180 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13579122 GGATTTAATC
*
13579132 TTTTAAAAAAAATATAAA
1 TTTTAAAAAAAATAAAAA
**
13579150 TTTTAAAATTAATAAAAA
1 TTTTAAAAAAAATAAAAA
* *
13579168 TGTTAAATAAAAT
1 TTTTAAAAAAAAT
13579181 TCAAAATAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TTTTAAAAAAAATAAAAA
Found at i:13579581 original size:27 final size:26
Alignment explanation
Indices: 13579521--13579582 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
13579511 TTATTTCTAA
13579521 AAAACAATTTGAAAGAATTTTAATATT
1 AAAA-AATTTGAAAGAATTTTAATATT
** *
13579548 ACTAAATTTGAAAAGAGTTTTAA-ATAT
1 AAAAAATTTG-AAAGAATTTTAATAT-T
13579575 AAAAAATT
1 AAAAAATT
13579583 AATCAAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAAAATTTGAAAGAATTTTAATATT
Found at i:13580524 original size:26 final size:24
Alignment explanation
Indices: 13580495--13580543 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
13580485 TATATATTTA
13580495 TTATATAATATAAAATATAGATATAT
1 TTATATAATATAAAA-ATA-ATATAT
*
13580521 TTATATAATTTAAAAATAATATA
1 TTATATAATATAAAAATAATATA
13580544 AAATAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATATAATATAAAAATAATATAT
Found at i:13581015 original size:31 final size:31
Alignment explanation
Indices: 13580994--13581100 Score: 106
Period size: 31 Copynumber: 3.3 Consensus size: 31
13580984 ATATTTTTTA
13580994 TATCATTATATTAAATTATTTAAATATCATT
1 TATCATTATATTAAATTATTTAAATATCATT
* * *
13581025 TATCATTATATTAATTTACTTAAATATTATTCATAAA
1 TATCATTATATTAAATTA-TTTAA-A-TA-TCAT--T
* *
13581062 TATCGTTATATTAAATTATTCAAATATCATT
1 TATCATTATATTAAATTATTTAAATATCATT
*
13581093 CATCATTA
1 TATCATTA
13581101 GGTATAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
31 23 0.38
32 4 0.07
33 5 0.08
34 4 0.07
35 5 0.08
36 4 0.07
37 16 0.26
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (31 bp):
TATCATTATATTAAATTATTTAAATATCATT
Found at i:13581072 original size:37 final size:37
Alignment explanation
Indices: 13580993--13581095 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 37
13580983 TATATTTTTT
*
13580993 ATATCATTATATTAAATTATTTAAATATCA-T--T--
1 ATATCATTATATTAAATTATTCAAATATCATTCATAA
* *
13581025 -TATCATTATATTAATTTACTT-AAATATTATTCATAA
1 ATATCATTATATTAAATTA-TTCAAATATCATTCATAA
*
13581061 ATATCGTTATATTAAATTATTCAAATATCATTCAT
1 ATATCATTATATTAAATTATTCAAATATCATTCAT
13581096 CATTAGGTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
31 24 0.41
32 3 0.05
34 1 0.02
36 2 0.03
37 28 0.48
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.49
Consensus pattern (37 bp):
ATATCATTATATTAAATTATTCAAATATCATTCATAA
Found at i:13581116 original size:68 final size:68
Alignment explanation
Indices: 13580993--13581121 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 68
13580983 TATATTTTTT
* * * *
13580993 ATATCATTATATTAAATTATTTAAATATCATTTATCATTATATTAATTTACTT-AAATATTATTC
1 ATATCATTATATTAAATTATTCAAATATCATTCATCATTATATAAAATTA-TTAAAATATTATTC
13581057 ATAA
65 ATAA
*
13581061 ATATCGTTATATTAAATTATTCAAATATCATTCATCATTAGGTATAAAATT-TTAAAATATT
1 ATATCATTATATTAAATTATTCAAATATCATTCATCATTA--TATAAAATTATTAAAATATT
13581122 TTATTTTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
68 39 0.74
69 7 0.13
70 7 0.13
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (68 bp):
ATATCATTATATTAAATTATTCAAATATCATTCATCATTATATAAAATTATTAAAATATTATTCA
TAA
Found at i:13581232 original size:20 final size:21
Alignment explanation
Indices: 13581200--13581238 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13581190 TTCATGTATC
*
13581200 ATTATATTAAATTATTTAAAT
1 ATTATATTAAATTAATTAAAT
13581221 ATTATA-TAAATTAATTAA
1 ATTATATTAAATTAATTAA
13581239 TTTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATATTAAATTAATTAAAT
Found at i:13581849 original size:17 final size:17
Alignment explanation
Indices: 13581827--13581863 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13581817 AATATTTGAA
13581827 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
13581844 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
13581861 TTA
1 TTA
13581864 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:13583120 original size:46 final size:46
Alignment explanation
Indices: 13583037--13583173 Score: 190
Period size: 46 Copynumber: 3.0 Consensus size: 46
13583027 CATGGAAAAA
* *
13583037 TTGTGAAAAGTAGGTA---TGTTTCAGTGAAGAAATCCATACTAAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
13583080 TTGTGAAAAGTATGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
13583126 TTGTGAAAAATAGGTATGGTATTCCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
13583172 TT
1 TT
13583174 ATAGCATTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 15 0.18
46 68 0.82
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:13584965 original size:23 final size:23
Alignment explanation
Indices: 13584922--13584973 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
13584912 TGAACCCAAG
*
13584922 TTAAATATACATTTAATATATATT
1 TTAAATATACATATAATATAT-TT
13584946 TTAAATATA-ATATAATATATTT
1 TTAAATATACATATAATATATTT
*
13584968 ATAAAT
1 TTAAAT
13584974 TATTTTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAATATACATATAATATATTT
Found at i:13587557 original size:19 final size:19
Alignment explanation
Indices: 13587533--13587570 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13587523 ATTTACCAAT
13587533 ATATAATACGAAAATATAA
1 ATATAATACGAAAATATAA
* *
13587552 ATATAATATGAATATATAA
1 ATATAATACGAAAATATAA
13587571 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATAATACGAAAATATAA
Found at i:13592963 original size:3 final size:3
Alignment explanation
Indices: 13592955--13592984 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13592945 AAGCATAAAC
13592955 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13592985 CATTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13594784 original size:44 final size:44
Alignment explanation
Indices: 13594680--13595738 Score: 944
Period size: 44 Copynumber: 24.1 Consensus size: 44
13594670 TGCCATCGTC
* * * * *
13594680 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * * *
13594725 GATCTGC-ATCGTCGATCCACTTTCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTTCCACCAATATAGGAAGACAA
* * * * *
13594768 GACCTGCTATCTTCGATCTAC-TTCACGCCAATACATGAAGATAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13594812 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTT-CCACCAATATAGGAAGACAA
* * *
13594857 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * *
13594900 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATG-AGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13594943 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * *
13594988 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * *
13595031 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13595075 GATCTGCTTTCTTCGATCTACTTCGCCACCAATAT-GGGAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * *
13595119 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * *
13595162 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13595206 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * *
13595251 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * * *
13595294 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATGAAGATAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13595338 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * *
13595383 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * * *
13595426 GATCTGATATCTTCGATCTAC-TTCACGCCAAAACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13595470 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * *
13595515 GATCTGC-ATCTTCGATCCAC-TTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * *
13595558 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
* * *
13595602 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-TCCACCAATATAGGAAGACAA
* * * * *
13595647 GATCTGC-ATCTTTGATCCAC-TTCCTACTAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTTCC-ACCAATATAGGAAGACAA
* * * *
13595690 GATCTGATATCTTCGATCTAC-TTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTTC-CACCAATATAGGAAGACAA
13595734 GATCT
1 GATCT
13595739 ACTTTAATGA
Statistics
Matches: 810, Mismatches: 165, Indels: 79
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.00
42 21 0.03
43 203 0.25
44 430 0.53
45 148 0.18
46 6 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTTCCACCAATATAGGAAGACAA
Found at i:13594922 original size:132 final size:132
Alignment explanation
Indices: 13594680--13595743 Score: 1970
Period size: 132 Copynumber: 8.1 Consensus size: 132
13594670 TGCCATCGTC
* * * *
13594680 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * *
13594745 TTTCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13594810 AA
131 AA
* *
13594812 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
13594877 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG-AGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13594941 AA
131 AA
13594943 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
13595008 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595073 AA
131 AA
13595075 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGG-AGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
13595139 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595204 AA
131 AA
13595206 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
13595271 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595336 AA
131 AA
13595338 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
13595403 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAAAACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595468 AA
131 AA
13595470 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
13595535 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595600 AA
131 AA
*
13595602 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
13595667 TTCCTACTAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
13595732 AA
131 AA
*
13595734 GATCTACTTT
1 GATCTGCTTT
13595744 AATGACTTCA
Statistics
Matches: 910, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
131 259 0.28
132 651 0.72
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:13609579 original size:43 final size:42
Alignment explanation
Indices: 13609405--13610114 Score: 402
Period size: 42 Copynumber: 16.0 Consensus size: 42
13609395 AAGGAGCTGC
*
13609405 TATCTATCGATCTACTTCACGCCAATACATGAAGATACAGAATCTG
1 TATCT-TCGATCTACTTC-CACCAATACATGAAGATA-AG-ATCTG
* *** *
13609451 CTTTCTGTCGAATCTACTTTGCACCACCAATATGGGAAG-CAAGATCTG
1 -TATCT-TCG-ATCTAC-TT---CCACCAATACATGAAGATAAGATCTG
* * * * *
13609499 CCATCGTTGCGAATCCACTTCCTACCAATATAGGAAGATAGGATCTG
1 -TATC-TT-CG-ATCTACTTCC-ACCAATACATGAAGATAAGATCTG
* *
13609546 ATATCTTCGATCTACTTCCGCCAATACATGAAGACAAGATCTG
1 -TATCTTCGATCTACTTCCACCAATACATGAAGATAAGATCTG
* *
13609589 CTTTCTTCGATCTACTTCGCCACCAAT-CATGGGAAGACAAGATCTGG
1 -TATCTTCGATCTACTT--CCACCAATACAT--GAAGATAAGATCT-G
* * * *
13609636 CATCTTCCCGATCTCACTGCCTACCGAAATGTCATATGGAAGATAGGATCTG
1 TATCTT--CGATCT-ACTTCC-ACC--AA--T-ACAT-GAAGATAAGATCTG
* * * *
13609688 ATATCTTCGATCTCATCTTCGATTC--TACTTCGAATCATGAAGGATCTG
1 -TATCTTCGATCT-A-CTTCCA-CCAATACAT-GAA-GAT-AA-GATCTG
* *
13609736 T-TCTTCGATCTACTTCCGCCAAT-CATGGAAGACAAGATCTG
1 TATCTTCGATCTACTTCCACCAATACAT-GAAGATAAGATCTG
** * * * *
13609777 CGTCTTCGATCCACTTCCACCAATATAGGAAGATAGGATCTG
1 TATCTTCGATCTACTTCCACCAATACATGAAGATAAGATCTG
*
13609819 ATATCTTCGATCTACTTCACGCCAATACATGAAGA-AAGATCTG
1 -TATCTTCGATCTACTTC-CACCAATACATGAAGATAAGATCTG
* *** *
13609862 CTTTCTTCGATCTACTTCCACC-ATATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTCCACCAATACATGAAGATAAGATCTG
* * * *
13609904 CATCTTCGATCCACTTCCACCAATATAGGAAGAT-AGATCTG
1 TATCTTCGATCTACTTCCACCAATACATGAAGATAAGATCTG
*
13609945 TATCTTCGATCTACTTCACGCCAA-ACATGAAGA-AAGATCTG
1 TATCTTCGATCTACTTC-CACCAATACATGAAGATAAGATCTG
* *
13609986 CTTTCTTCGATCTACTTCGCACCAAT--ATGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-CACCAATACAT-GAAGATAAGATCTG
* * * * *
13610029 CATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTG
1 TATCTTCGATCTACTTCC-ACCAATACATGAAGATAAGATCTG
* *
13610072 ATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
1 -TATCTTCGATCTACTTC-CACCAATACATGAAGATAAGATCT
13610115 ACTTTAATGA
Statistics
Matches: 522, Mismatches: 92, Indels: 101
0.73 0.13 0.14
Matches are distributed among these distances:
41 71 0.14
42 106 0.20
43 94 0.18
44 68 0.13
45 19 0.04
46 45 0.09
47 22 0.04
48 32 0.06
49 16 0.03
50 3 0.01
51 20 0.04
52 7 0.01
53 17 0.03
54 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
TATCTTCGATCTACTTCCACCAATACATGAAGATAAGATCTG
Found at i:13609834 original size:273 final size:251
Alignment explanation
Indices: 13609378--13610119 Score: 877
Period size: 273 Copynumber: 2.8 Consensus size: 251
13609368 GCTTACTCTC
* *
13609378 CCAATATAGGTAAGATCAAGGAGCTGCTATCTATCGATCTACTTCACGCCAATACATGAAGATAC
1 CCAATATAGG-AAGAT--A-GATCTG-TATCT-TCGATCTACTTCACACCAA-ACATGAAG----
*
13609443 AGAATCTGCTTTCTGTCGAATCTACTTTGCACCACCAATATGGGAAG-CAAGATCTGCCATCGTT
55 AG-ATCTGC-TTCT-TCG-ATCTAC-TT-C-GCACCAATAT-GGAAGACAAGATCTG-CATC-TT
13609507 GCGAATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTC-CGCCAAT
110 -CG-ATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAAT
13609571 ACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATCATGGGAAGACAAGATCTGG
173 ACATGAAGACAAGATCTGCTTTCTTCGATCTACTT--CCACC-AT-ATGGGAAGACAAGATCT-G
13609636 CATCTTCCCGATCTCACTGCCTA
233 CATCTT--CGATC-CACTGCC-A
*
13609659 CCGAAATGTCATATGGAAGATAGGATCTGATATCTTCGATCTCATCTTCGATTCTACTTCGAATC
1 CC--AA--T-ATA-GGAAGATA-GATCTG-TATCTTCGATCT-A-CTTC-A--C-AC--C-AAAC
* *
13609724 ATGAAG-GATCTG-TTCTTCGATCTACTTC-CGCCAATCATGGAAGACAAGATCTGCGTCTTCGA
49 ATGAAGAGATCTGCTTCTTCGATCTACTTCGCACCAAT-ATGGAAGACAAGATCTGCATCTTCGA
13609786 TCCACTTCC-ACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
113 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
13609850 AAGA-AAGATCTGCTTTCTTCGATCTACTTCCACCATATGGGAAGACAAGATCTGCATCTTCGAT
178 AAGACAAGATCTGCTTTCTTCGATCTACTTCCACCATATGGGAAGACAAGATCTGCATCTTCGAT
*
13609914 CCACTTCCA
243 CCACTGCCA
*
13609923 CCAATATAGGAAGATAGATCTGTATCTTCGATCTACTTCACGCCAAACATGAAGAAAGATCTGCT
1 CCAATATAGGAAGATAGATCTGTATCTTCGATCTACTTCACACCAAACATGAAG--AGATCTGC-
13609988 TTCTTCGATCTACTTCGCACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
63 TTCTTCGATCTACTTCGCACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
*
13610053 TATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACT
128 TATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
13610118 TT
193 TT
13610120 AATGACTTCA
Statistics
Matches: 423, Mismatches: 12, Indels: 79
0.82 0.02 0.15
Matches are distributed among these distances:
247 9 0.02
248 1 0.00
250 7 0.02
251 1 0.00
252 50 0.12
253 66 0.16
254 15 0.04
255 1 0.00
256 12 0.03
257 6 0.01
258 8 0.02
259 3 0.01
260 1 0.00
262 2 0.00
264 3 0.01
265 6 0.01
266 5 0.01
268 7 0.02
269 17 0.04
270 2 0.00
271 5 0.01
273 67 0.16
274 26 0.06
275 2 0.00
276 2 0.00
277 14 0.03
278 11 0.03
279 1 0.00
280 2 0.00
281 8 0.02
282 3 0.01
283 13 0.03
284 13 0.03
285 10 0.02
286 10 0.02
287 2 0.00
288 1 0.00
289 1 0.00
291 8 0.02
292 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (251 bp):
CCAATATAGGAAGATAGATCTGTATCTTCGATCTACTTCACACCAAACATGAAGAGATCTGCTTC
TTCGATCTACTTCGCACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
AGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCCACCATATGGGAAGACAAGATCTGCATCTTCGATCCACTGCCA
Found at i:13610031 original size:125 final size:127
Alignment explanation
Indices: 13609378--13610119 Score: 897
Period size: 125 Copynumber: 5.6 Consensus size: 127
13609368 GCTTACTCTC
* *
13609378 CCAATATAGGTAAGATCAAGGAGCTGCTATCTATCGATCTACTTCACGCCAATACATGAAGATAC
1 CCAATATAGG-AAGAT--AGGATCTGATATCT-TCGATCTACTTCACGCCAATACATGAAGA-A-
13609443 AGAATCTGCTTTCTGTCGAATCTACTTTGCACCACCAATATGGGAAG-CAAGATCTGCCATCGTT
60 AG-ATCTGCTTTCT-TCG-ATCTAC-TT---CCACCAATAT-GGAAGACAAGATCTG-CATC-TT
13609507 GCGAATCCACTTCCTA
115 -CG-ATCCACTTCC-A
13609523 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA-AAGATC
13609587 TGCTTTCTTCGATCTACTTCGCCACCAATCATGGGAAGACAAGATCTGGCATCTTCCCGATCTCA
65 TGCTTTCTTCGATCTACTT--CCACCAAT-AT-GGAAGACAAGATCT-GCATCTT--CGATC-CA
*
13609652 CTGCCTA
122 CTTCC-A
** * * * *
13609659 CCGAAATGTCATATGGAAGATAGGATCTGATATCTTCGATCTCATCTTCGATTCTACTTCGAATC
1 CC--AA--T-ATA-GGAAGATAGGATCTGATATCTTCGATCT-A-CTTC-ACGCCAATAC--ATG
* * * *
13609724 ATGAAGGATCTG--TTCTTCGATCTACTTCCGCCAATCATGGAAGACAAGATCTGCGTCTTCGAT
55 AAGAAAGATCTGCTTTCTTCGATCTACTTCCACCAAT-ATGGAAGACAAGATCTGCATCTTCGAT
13609787 CCACTTCCA
119 CCACTTCCA
13609796 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAAAGATCT
1 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAAAGATCT
13609861 GCTTTCTTCGATCTACTTCCACC-ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCA
66 GCTTTCTTCGATCTACTTCCACCAATAT-GGAAGACAAGATCTGCATCTTCGATCCACTTCCA
13609923 CCAATATAGGAAGATA-GATCTG-TATCTTCGATCTACTTCACGCCAA-ACATGAAGAAAGATCT
1 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAAAGATCT
13609985 GCTTTCTTCGATCTACTTCGCACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
66 GCTTTCTTCGATCTACTTC-CACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCC-A
13610049 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA-AAGATC
*
13610114 TACTTT
65 TGCTTT
13610120 AATGACTTCA
Statistics
Matches: 542, Mismatches: 28, Indels: 69
0.85 0.04 0.11
Matches are distributed among these distances:
124 35 0.06
125 61 0.11
126 41 0.08
127 57 0.11
128 48 0.09
129 13 0.02
130 12 0.02
131 28 0.05
132 3 0.01
133 1 0.00
134 9 0.02
135 17 0.03
136 30 0.06
137 7 0.01
138 19 0.04
139 7 0.01
140 18 0.03
141 21 0.04
142 54 0.10
143 11 0.02
144 9 0.02
145 25 0.05
146 4 0.01
147 7 0.01
148 5 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (127 bp):
CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAAAGATCT
GCTTTCTTCGATCTACTTCCACCAATATGGAAGACAAGATCTGCATCTTCGATCCACTTCCA
Found at i:13632255 original size:22 final size:21
Alignment explanation
Indices: 13632226--13632278 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
13632216 ATAAAACTCG
*
13632226 TTTT-AAAAATCATTAAAATTA
1 TTTTAAAAAAT-ATAAAAATTA
13632247 TTTTAAAAAAAATATAAAAATTA
1 TTTT--AAAAAATATAAAAATTA
13632270 -TTTAAAAAA
1 TTTTAAAAAA
13632279 CATATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 3 0.11
23 9 0.32
24 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAATATAAAAATTA
Found at i:13632283 original size:22 final size:22
Alignment explanation
Indices: 13632226--13632283 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
13632216 ATAAAACTCG
*
13632226 TTTTAAAAATCAT-TAAAATTA
1 TTTTAAAAAACATATAAAATTA
*
13632247 TTTTAAAAAAAATATAAAAATTA
1 TTTTAAAAAACATAT-AAAATTA
13632270 -TTTAAAAAACATAT
1 TTTTAAAAAACATAT
13632284 TTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.34
22 14 0.44
23 7 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTTAAAAAACATATAAAATTA
Found at i:13635562 original size:15 final size:15
Alignment explanation
Indices: 13635542--13635575 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
13635532 CGATGGGGTT
13635542 AACATGGAAGGTGGG
1 AACATGGAAGGTGGG
13635557 AACATGGAAGGTGGG
1 AACATGGAAGGTGGG
13635572 AACA
1 AACA
13635576 ACCCAGCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.41, T:0.12
Consensus pattern (15 bp):
AACATGGAAGGTGGG
Found at i:13643431 original size:40 final size:40
Alignment explanation
Indices: 13643387--13643466 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
13643377 CCCATCCATG
** *
13643387 ACATGACACGGTATCAACCAAAGTTCCAAATTTTTTTAAT
1 ACATGACACGACATCAACCAAAGTTCCAAAATTTTTTAAT
13643427 ACATGACACGACATCAACCAAAGTTCCAAAATTTTTTAAT
1 ACATGACACGACATCAACCAAAGTTCCAAAATTTTTTAAT
13643467 CAGTCTTACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (40 bp):
ACATGACACGACATCAACCAAAGTTCCAAAATTTTTTAAT
Found at i:13645399 original size:28 final size:29
Alignment explanation
Indices: 13645368--13645445 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
13645358 TATTATTATT
*
13645368 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
13645396 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
13645424 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
13645446 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:13645445 original size:31 final size:28
Alignment explanation
Indices: 13645379--13645446 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
13645369 ATATAAATAT
**
13645379 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
13645407 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
13645438 ATAAATTAA
1 ATAAATTAA
13645447 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:13645668 original size:11 final size:11
Alignment explanation
Indices: 13645652--13645677 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13645642 AGAAAGAGAC
13645652 GAAACAGGGGA
1 GAAACAGGGGA
13645663 GAAACAGGGGA
1 GAAACAGGGGA
13645674 GAAA
1 GAAA
13645678 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:13646355 original size:18 final size:18
Alignment explanation
Indices: 13646332--13646380 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
13646322 ATGTGAGGTA
*
13646332 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
13646350 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
13646368 ATTATTATTATTA
1 AGTATTATTATTA
13646381 TGAGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:13646360 original size:3 final size:3
Alignment explanation
Indices: 13646334--13646381 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
13646324 GTGAGGTAAG
* * * *
13646334 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13646382 GAGTTGGGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:13646381 original size:12 final size:12
Alignment explanation
Indices: 13646334--13646381 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
13646324 GTGAGGTAAG
* *
13646334 TATTAATATTAG
1 TATTAGTATTAT
13646346 TATTAGTATTAT
1 TATTAGTATTAT
13646358 TATTAGTATTAT
1 TATTAGTATTAT
*
13646370 TATTATTATTAT
1 TATTAGTATTAT
13646382 GAGTTGGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:13646577 original size:24 final size:24
Alignment explanation
Indices: 13646523--13646594 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
13646513 TGTGTGAAGT
*
13646523 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
13646546 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
13646571 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
13646595 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:13661749 original size:48 final size:48
Alignment explanation
Indices: 13661638--13661794 Score: 228
Period size: 48 Copynumber: 3.2 Consensus size: 48
13661628 TTGCACATTG
* * *
13661638 TCACATATCATACACCGAAGCCATAGCCCA-ACTATGGTCTTACACAGAAA
1 TCACATATC--ACACCGATGCCATATCCCAGA-TATGGTCTTACACGGAAA
* *
13661688 -CACATATCACACCGATGTCATATCCCAGATATGATCTTACACGGAAA
1 TCACATATCACACCGATGCCATATCCCAGATATGGTCTTACACGGAAA
13661735 TCACATATCACACCGATGCCATATCCCAGATATGGTCTTACACGGAAA
1 TCACATATCACACCGATGCCATATCCCAGATATGGTCTTACACGGAAA
13661783 TCACATATCACA
1 TCACATATCACA
13661795 TCACACTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
47 32 0.33
48 58 0.59
49 8 0.08
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.22
Consensus pattern (48 bp):
TCACATATCACACCGATGCCATATCCCAGATATGGTCTTACACGGAAA
Found at i:13664705 original size:49 final size:51
Alignment explanation
Indices: 13664640--13664735 Score: 151
Period size: 49 Copynumber: 1.9 Consensus size: 51
13664630 AATCCCATAG
*
13664640 TAATTCTCAACGATGAATTAACC-AA-ACTACACTCCTGGAGCTCCATATA
1 TAATTCTCAACAATGAATTAACCAAACACTACACTCCTGGAGCTCCATATA
* *
13664689 TAATTCTCAACAATGAATTAACCAAACACTACACTCTTTGAGCTCCA
1 TAATTCTCAACAATGAATTAACCAAACACTACACTCCTGGAGCTCCA
13664736 ACAGTAATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 22 0.52
50 2 0.05
51 18 0.43
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (51 bp):
TAATTCTCAACAATGAATTAACCAAACACTACACTCCTGGAGCTCCATATA
Found at i:13666938 original size:18 final size:18
Alignment explanation
Indices: 13666915--13666953 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
13666905 TCAAAACTGC
13666915 ACCGTTTTGGCCACTAAT
1 ACCGTTTTGGCCACTAAT
*
13666933 ACCGTTTTGGCCACTGAT
1 ACCGTTTTGGCCACTAAT
13666951 ACC
1 ACC
13666954 AAGGCCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (18 bp):
ACCGTTTTGGCCACTAAT
Found at i:13679351 original size:14 final size:14
Alignment explanation
Indices: 13679315--13679353 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13679305 GCTTAATAAA
13679315 TTATGACATATGCT
1 TTATGACATATGCT
* * *
13679329 TAATAACATATGGT
1 TTATGACATATGCT
13679343 TTATGACATAT
1 TTATGACATAT
13679354 AAACTAATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (14 bp):
TTATGACATATGCT
Found at i:13679584 original size:21 final size:21
Alignment explanation
Indices: 13679543--13679585 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13679533 AATAAAGTAG
**
13679543 ATTATATATATTTTTTATAGT
1 ATTATATATATGATTTATAGT
13679564 ATTATATATTATGATTT-TAGT
1 ATTATATA-TATGATTTATAGT
13679585 A
1 A
13679586 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATATGATTTATAGT
Found at i:13679638 original size:20 final size:21
Alignment explanation
Indices: 13679601--13679650 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
13679591 ATATAATAAT
13679601 AATTATATTAAGAATTTTATTA
1 AATTATA-TAAGAATTTTATTA
13679623 AATTATATAA-AATTTTATTA
1 AATTATATAAGAATTTTATTA
13679643 AATTATAT
1 AATTATAT
13679651 TTAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 3 0.11
22 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:13679651 original size:10 final size:10
Alignment explanation
Indices: 13679601--13679651 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
13679591 ATATAATAAT
13679601 AATTATATTAA
1 AATTATATT-A
*
13679612 GAATTTTATTA
1 -AATTATATTA
*
13679623 AATTATATAA
1 AATTATATTA
*
13679633 AATTTTATTA
1 AATTATATTA
13679643 AATTATATT
1 AATTATATT
13679652 TAATAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 24 0.73
11 1 0.03
12 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATTATATTA
Found at i:13679664 original size:58 final size:58
Alignment explanation
Indices: 13679577--13679732 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 58
13679567 ATATATTATG
* *
13679577 ATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAATTATATA-AA
1 ATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAATTATATATAA
* * * * *
13679634 ATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATTA
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATAA
* * *
13679692 TTTTTATTAAATCATTTTTAATAATAATCT-TATTAAAATTT
1 ATTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
13679733 AATAACAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
56 3 0.04
57 27 0.33
58 52 0.63
59 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (58 bp):
ATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATAA
Found at i:13679917 original size:45 final size:44
Alignment explanation
Indices: 13679825--13679917 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
13679815 ATTACAACAT
* *
13679825 CATTCTATTCAACCAAACACAAGAATACTGTTACAACTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
*
13679869 CATTCCATTCAACCAAACA-ATTA-AATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA--AGAA-TACTATTACAACTCTATTC
13679914 CATT
1 CATT
13679918 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 22 0.51
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
Done.