Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold477
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: 400253
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
File 3 of 3
Found at i:261010 original size:39 final size:40
Alignment explanation
Indices: 260911--261049 Score: 99
Period size: 39 Copynumber: 3.4 Consensus size: 40
260901 GATAAACTAC
* *
260911 TGATAAA-ATAATAGTATATAATTGATAACATAATAGTAAA
1 TGATAAATAAAATAATA-ATAATTGATAACATAATAGTAAA
* * * *
260951 T-TTATAATTAAA-AATAAATAA-TGATAAGATAATAGTATA
1 TGATA-AATAAAATAAT-AATAATTGATAACATAATAGTAAA
260990 TGATAAATAAAATAATAATAAATTATTGATAA-ATAATAGTAAA
1 TGATAAATAAAATAATAAT--A--ATTGATAACATAATAGTAAA
* * *
261033 TAATTAATAATATAATA
1 TGATAAATAAAATAATA
261050 GTAACTAACG
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
39 28 0.36
40 14 0.18
41 4 0.05
43 25 0.32
44 6 0.08
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.35
Consensus pattern (40 bp):
TGATAAATAAAATAATAATAATTGATAACATAATAGTAAA
Found at i:261026 original size:43 final size:42
Alignment explanation
Indices: 260913--261049 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 42
260903 TAAACTACTG
* * * *
260913 ATAAAATAATAGTATATAATTGATAACATAATAGTAA-ATTT
1 ATAAAATAATAATAAATTATTGATAACATAATAGTAATATTA
* * * * *
260954 AT-AATTAAAAATAAA-TAATGATAAGATAATAGTATATGATAA
1 ATAAAATAATAATAAATTATTGATAACATAATAGTA-AT-ATTA
260996 ATAAAATAATAATAAATTATTGATAA-ATAATAGTAAATAATTA
1 ATAAAATAATAATAAATTATTGATAACATAATAGT-AAT-ATTA
*
261039 ATAATATAATA
1 ATAAAATAATA
261050 GTAACTAACG
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
39 16 0.21
40 10 0.13
41 2 0.03
42 4 0.05
43 34 0.45
44 9 0.12
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (42 bp):
ATAAAATAATAATAAATTATTGATAACATAATAGTAATATTA
Found at i:262337 original size:15 final size:15
Alignment explanation
Indices: 262296--262338 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
262286 CGATATTTTG
* *
262296 TAATTTATTTTTATT
1 TAATTTAATTTGATT
262311 TAATTTAATTTGATT
1 TAATTTAATTTGATT
* *
262326 TGATTTGATTTGA
1 TAATTTAATTTGA
262339 GACATAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (15 bp):
TAATTTAATTTGATT
Found at i:262551 original size:67 final size:66
Alignment explanation
Indices: 262475--262622 Score: 144
Period size: 67 Copynumber: 2.2 Consensus size: 66
262465 ATTAGATTTG
*
262475 ATTTATATATTTATGTTAA-AT-T-AATATTATTT-TATTTTTTAA-TTATAATCATATTTAATG
1 ATTT-TATATTTATGTTAATATATCAATA--ATTTATATTTTTTAATTTATAAT--T-TTTAATA
262535 TATTATAT
60 TATT-TAT
** * *
262543 ATTTTATATAAATTTTAATATATCAATAATTTATATTTTTTAATTTTTAATTTTTAATATATTTA
1 ATTTTATATTTATGTTAATATATCAATAATTTATATTTTTTAATTTATAATTTTTAATATATTTA
262608 T
66 T
262609 ATTTTTATATTTAT
1 A-TTTTATATTTAT
262623 ATTATTTGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
66 4 0.06
67 31 0.46
68 11 0.16
69 11 0.16
70 10 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (66 bp):
ATTTTATATTTATGTTAATATATCAATAATTTATATTTTTTAATTTATAATTTTTAATATATTTA
T
Found at i:262588 original size:14 final size:15
Alignment explanation
Indices: 262568--262644 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 15
262558 TAATATATCA
262568 ATAATTTATATTTTT
1 ATAATTTATATTTTT
*
262583 -TAATTTTTAATTTTT
1 ATAATTTAT-ATTTTT
262598 AATATATTTATATTTTT
1 -ATA-ATTTATATTTTT
262615 AT-ATTTATATTATTT
1 ATAATTTATATT-TTT
* *
262630 GTTATATTATATTTT
1 ATAAT-TTATATTTT
262645 CTACTGATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
14 16 0.31
15 10 0.19
16 6 0.12
17 15 0.29
18 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (15 bp):
ATAATTTATATTTTT
Found at i:262591 original size:7 final size:7
Alignment explanation
Indices: 262569--262620 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
262559 AATATATCAA
*
262569 TAATTTA
1 TAATTTT
*
262576 TATTTTT
1 TAATTTT
262583 TAATTTT
1 TAATTTT
262590 TAATTTT
1 TAATTTT
262597 TAATATATT
1 TAAT-T-TT
262606 TATATTTT
1 TA-ATTTT
262614 TATATTT
1 TA-ATTT
262621 ATATTATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
7 22 0.56
8 10 0.26
9 5 0.13
10 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:262607 original size:32 final size:32
Alignment explanation
Indices: 262495--262614 Score: 111
Period size: 32 Copynumber: 3.6 Consensus size: 32
262485 TTATGTTAAA
*
262495 TTAATATTATTT-TATTTTTTAATTATAATCATAT
1 TTAATA-TATTTATATTTTTTAATTTTAAT-AT-T
* *
262529 TTAATGTATTATATATTTTATATAAATTTTAATATA
1 TTAATATATT-TATATTTT-T-T-AATTTTAATATT
*
262565 TCAATA-ATTTATATTTTTTAATTTTTAAT-TT
1 TTAATATATTTATATTTTTTAA-TTTTAATATT
262596 TTAATATATTTATATTTTT
1 TTAATATATTTATATTTTT
262615 ATATTTATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
31 8 0.11
32 20 0.28
33 5 0.07
34 14 0.19
35 9 0.12
36 5 0.07
37 3 0.04
38 8 0.11
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (32 bp):
TTAATATATTTATATTTTTTAATTTTAATATT
Found at i:263373 original size:2 final size:2
Alignment explanation
Indices: 263361--263393 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
263351 GTACTCCCCT
*
263361 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
263394 TCATCTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:266598 original size:11 final size:11
Alignment explanation
Indices: 266578--266615 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
266568 ACGTTAAACA
266578 TTTA-TTTTAT
1 TTTATTTTTAT
266588 TTTATTTTTATT
1 TTTATTTTTA-T
*
266600 TTTATTTTTCT
1 TTTATTTTTAT
266611 TTTAT
1 TTTAT
266616 AGGATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 4 0.16
11 11 0.44
12 10 0.40
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:267624 original size:17 final size:17
Alignment explanation
Indices: 267602--267652 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
267592 AAATTTATCC
267602 ATTAAATAATATTTAAA
1 ATTAAATAATATTTAAA
*
267619 ATTAAATTAA-ATTT-TA
1 ATTAAA-TAATATTTAAA
267635 A--AAATAATATTTAAA
1 ATTAAATAATATTTAAA
267650 ATT
1 ATT
267653 CGATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 2 0.07
16 2 0.07
17 10 0.37
18 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAATAATATTTAAA
Found at i:271142 original size:28 final size:27
Alignment explanation
Indices: 271084--271152 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
271074 CACCCATTTG
* *
271084 TTTGTTAAAAATGGTGGTTATTTTGTG
1 TTTGTAAAAAATGGTGGTTATTTTGTA
271111 TTTGTAAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTAAAAAATGGTGGTTAT--TTTGTA
* *
271139 TTTGTCAAATATGG
1 TTTGTAAAAAATGG
271153 AGGCTTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 18 0.50
28 17 0.47
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (27 bp):
TTTGTAAAAAATGGTGGTTATTTTGTA
Found at i:271254 original size:20 final size:20
Alignment explanation
Indices: 271229--271274 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
271219 AAATAGAGGC
*
271229 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
271249 TCCCTCATTCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
271269 TCCCTC
1 TCCCTC
271275 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:273757 original size:21 final size:22
Alignment explanation
Indices: 273728--273773 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
273718 TGTTCAGACA
** *
273728 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
273750 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
273771 AGT
1 AGT
273774 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:275711 original size:28 final size:27
Alignment explanation
Indices: 275657--275727 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
275647 GCCATCCATT
*
275657 TGTTTGTAAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
275684 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
275712 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
275728 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:277036 original size:16 final size:16
Alignment explanation
Indices: 277015--277048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
277005 ATAATATATA
*
277015 TATATATATATGTCTG
1 TATATATATATGTATG
*
277031 TATATATGTATGTATG
1 TATATATATATGTATG
277047 TA
1 TA
277049 CTAACAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (16 bp):
TATATATATATGTATG
Found at i:282315 original size:12 final size:12
Alignment explanation
Indices: 282298--282322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
282288 TTTGCTGGTG
282298 TTTGCTGGTATT
1 TTTGCTGGTATT
282310 TTTGCTGGTATT
1 TTTGCTGGTATT
282322 T
1 T
282323 GCTTGCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTGCTGGTATT
Found at i:282334 original size:22 final size:22
Alignment explanation
Indices: 282281--282334 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
282271 ATGTTGTTGA
*
282281 TTGCTATTTTGCTGGTGTTTGC
1 TTGCTATTTTGCTGGTATTTGC
*
282303 -TGGTATTTTTGCTGGTATTTGC
1 TTGCTA-TTTTGCTGGTATTTGC
*
282325 TTGCTGTTTT
1 TTGCTATTTT
282335 TACTGGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.15
22 19 0.73
23 3 0.12
ACGTcount: A:0.06, C:0.11, G:0.26, T:0.57
Consensus pattern (22 bp):
TTGCTATTTTGCTGGTATTTGC
Found at i:282340 original size:23 final size:21
Alignment explanation
Indices: 282308--282349 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
282298 TTTGCTGGTA
*
282308 TTTTTGCTGGTATTTGCTTGCTG
1 TTTTTACTGGT-TTTG-TTGCTG
282331 TTTTTACTGGTTTTGTTGC
1 TTTTTACTGGTTTTGTTGC
282350 CGTTGCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.05, C:0.12, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTTTACTGGTTTTGTTGCTG
Found at i:282910 original size:25 final size:25
Alignment explanation
Indices: 282882--282943 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
282872 TTCGTTGGTG
282882 TCTTCATTGC-TGCAACTTAATTGCT
1 TCTTCATTGCAT-CAACTTAATTGCT
*
282907 TCTTCATTGCATCAGCTTAATTGCT
1 TCTTCATTGCATCAACTTAATTGCT
282932 TCTTCATTGCAT
1 TCTTCATTGCAT
282944 TATTTCAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.45
Consensus pattern (25 bp):
TCTTCATTGCATCAACTTAATTGCT
Found at i:283110 original size:14 final size:13
Alignment explanation
Indices: 283091--283266 Score: 81
Period size: 14 Copynumber: 12.8 Consensus size: 13
283081 GGCGTGAAAC
283091 ATGCATGAAATGTA
1 ATGCATGAAATG-A
*
283105 ATGCATG-CA--A
1 ATGCATGAAATGA
283115 -TGCATGAAATGAA
1 ATGCATGAAATG-A
283128 ATGCATGAAATGAA
1 ATGCATGAAATG-A
* * * *
283142 CATTACGTAAAATGC
1 -A-TGCATGAAATGA
283157 ATGCATGAAATGTA
1 ATGCATGAAATG-A
*
283171 ATGCATGGAATGCAA
1 ATGCATGAAATG--A
* * *
283186 ATTACGTGAAATGC
1 A-TGCATGAAATGA
283200 ATGCATGAAATGTA
1 ATGCATGAAATG-A
*
283214 ATGCATGGAATGAAA
1 ATGCATGAAATG--A
* * *
283229 ATTACGTGAAATGC
1 A-TGCATGAAATGA
283243 ATGCATGAAATGTA
1 ATGCATGAAATG-A
283257 ATGCATGAAA
1 ATGCATGAAA
283267 ATATGCATGC
Statistics
Matches: 120, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
9 6 0.05
10 2 0.02
13 28 0.23
14 55 0.46
15 5 0.04
16 24 0.20
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.25
Consensus pattern (13 bp):
ATGCATGAAATGA
Found at i:283167 original size:43 final size:42
Alignment explanation
Indices: 283109--283266 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 42
283099 AATGTAATGC
* *
283109 ATGCAATGCATGAAATGAAATGCATGAAATGAACATTACGTAAA
1 ATGC-ATGCATGAAATGTAATGCATGAAATGAA-ATTACGTGAA
*
283153 ATGCATGCATGAAATGTAATGCATGGAATGCAAATTACGTGAA
1 ATGCATGCATGAAATGTAATGCATGAAATG-AAATTACGTGAA
*
283196 ATGCATGCATGAAATGTAATGCATGGAATGAAAATTACGTGAA
1 ATGCATGCATGAAATGTAATGCATGAAATG-AAATTACGTGAA
283239 ATGCATGCATGAAATGTAATGCATGAAA
1 ATGCATGCATGAAATGTAATGCATGAAA
283267 ATATGCATGC
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 102 0.94
44 6 0.06
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.25
Consensus pattern (42 bp):
ATGCATGCATGAAATGTAATGCATGAAATGAAATTACGTGAA
Found at i:283200 original size:25 final size:24
Alignment explanation
Indices: 283124--283253 Score: 97
Period size: 25 Copynumber: 5.8 Consensus size: 24
283114 ATGCATGAAA
*
283124 TGAAATGCATGAAATGAACATTACG
1 TGAAATGCATGGAATGAA-ATTACG
* *
283149 TAAAATGCAT-GCATGAAA-T--G
1 TGAAATGCATGGAATGAAATTACG
283169 T--AATGCATGGAATGCAAATTACG
1 TGAAATGCATGGAATG-AAATTACG
*
283192 TGAAATGCAT-GCATGAAA-T--G
1 TGAAATGCATGGAATGAAATTACG
283212 T--AATGCATGGAATGAAAATTACG
1 TGAAATGCATGGAATG-AAATTACG
*
283235 TGAAATGCAT-GCATGAAAT
1 TGAAATGCATGGAATGAAAT
283254 GTAATGCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
18 14 0.17
19 8 0.10
20 10 0.12
21 2 0.02
22 2 0.02
23 12 0.14
24 13 0.15
25 23 0.27
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (24 bp):
TGAAATGCATGGAATGAAATTACG
Found at i:283329 original size:15 final size:14
Alignment explanation
Indices: 283307--283372 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 14
283297 CTAGTTCGGG
*
283307 TTTTTTTTCTTTAT
1 TTTTTTTTATTTAT
283321 TTATTTTTT-TATTAT
1 TT-TTTTTTAT-TTAT
* *
283336 TTTTTTATATATACT
1 TTTTTTTTATTTA-T
283351 TTTTTATTTATTTAT
1 TTTTT-TTTATTTAT
283366 TTTTTTT
1 TTTTTTT
283373 ATAAATGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 12 0.28
15 25 0.58
16 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTATTTAT
Found at i:283333 original size:12 final size:12
Alignment explanation
Indices: 283311--283374 Score: 67
Period size: 13 Copynumber: 5.1 Consensus size: 12
283301 TTCGGGTTTT
283311 TTTTCTTTATTTA
1 TTTT-TTTATTTA
283324 TTTTTTTA-TTA
1 TTTTTTTATTTA
283335 TTTTTTTATATATA
1 TTTTTTTAT-T-TA
*
283349 CTTTTTTATTTA
1 TTTTTTTATTTA
*
283361 TTTATTTTTTTTA
1 TTT-TTTTATTTA
283374 T
1 T
283375 AAATGTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
11 11 0.25
12 8 0.18
13 15 0.34
14 10 0.23
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:283951 original size:42 final size:43
Alignment explanation
Indices: 283905--283995 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
283895 CCCTCGAGTT
283905 AAAGCCAAC-AGACAGACAAAA-GGTGAA-AAAGTCTCCAGGGTC
1 AAAGCCAACAAG-CAGACAAAAGGGT-AAGAAAGTCTCCAGGGTC
* ***
283947 AAAGCCGACAAGCAGACTTGAGGGTAAGAAAGTCTCCAGGGTC
1 AAAGCCAACAAGCAGACAAAAGGGTAAGAAAGTCTCCAGGGTC
283990 AAAGCC
1 AAAGCC
283996 GATAGGTAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 16 0.38
43 26 0.62
ACGTcount: A:0.41, C:0.22, G:0.26, T:0.11
Consensus pattern (43 bp):
AAAGCCAACAAGCAGACAAAAGGGTAAGAAAGTCTCCAGGGTC
Found at i:284128 original size:42 final size:43
Alignment explanation
Indices: 283932--284206 Score: 260
Period size: 42 Copynumber: 6.5 Consensus size: 43
283922 AAAAGGTGAA
*
283932 AAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * *
283975 AAAGTCTCCAGGGTCAAAGCCGATAGGTAGACTTGA-AGTGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGT-AAG
* * * *
284018 CAA-TCTCAAAGGTTAAAGCCGACAGGCAGA-TTGAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* ** * *
284059 AAAGT-TCCAGGGTTAAAGTAGATAGGCAGACTTGA-GGTGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGT-AAG
* * *
284101 CAA-TCTCCAAGGTCAAAGCCGACAGGCAGA-TTGAGGGTAAA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * *
284142 AAAGTCTCTAGGGTTAAAGCCGACAGGCAGACTTGA-TGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** *
284184 GCAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAGGGTCAAAGCCGA
284207 TATGTAGACT
Statistics
Matches: 185, Mismatches: 38, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
41 39 0.21
42 105 0.57
43 41 0.22
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (43 bp):
AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
Found at i:284203 original size:84 final size:84
Alignment explanation
Indices: 283936--284206 Score: 366
Period size: 83 Copynumber: 3.2 Consensus size: 84
283926 GGTGAAAAAG
* * *
283936 TCTCCAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGATAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGA-TTGAGGGTAAGAAAGTCTCCAGGGTTAAAGCCGATAG
*
284001 GTAGACTTGAAGTGAGGCAA
65 GCAGACTTGAAGTGAGGCAA
* * **
284021 TCTCAAAGGTTAAAGCCGACAGGCAGATTGAGGGTAAGAAAGT-TCCAGGGTTAAAGTAGATAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAGAAAGTCTCCAGGGTTAAAGCCGATAGG
*
284085 CAGACTTGAGGTGAGGCAA
66 CAGACTTGAAGTGAGGCAA
* * *
284104 TCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAAAAAGTCTCTAGGGTTAAAGCCGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAGAAAGTCTCCAGGGTTAAAGCCGATAGG
* *
284169 CAGACTTGATGT-AGGGCAG
66 CAGACTTGAAGTGA-GGCAA
* *
284188 TCTCTAGGGTCAAAGCCGA
1 TCTCCAAGGTCAAAGCCGA
284207 TATGTAGACT
Statistics
Matches: 164, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
83 76 0.46
84 65 0.40
85 23 0.14
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (84 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAGAAAGTCTCCAGGGTTAAAGCCGATAGG
CAGACTTGAAGTGAGGCAA
Found at i:284220 original size:84 final size:84
Alignment explanation
Indices: 283936--284225 Score: 341
Period size: 84 Copynumber: 3.5 Consensus size: 84
283926 GGTGAAAAAG
* * * *
283936 TCTCCAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGATAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGTAAAAAAGTCTCCAGGGTTAAAGCCGATAG
*
284001 GTAGACTTGAAGTGAGGCAA
65 GCAGACTTGAAGTGAGGCAA
* * * * **
284021 TCTCAAAGGTTAAAGCCGACAGGCAGATTGAGGGTAAGAAAGT-TCCAGGGTTAAAGTAGATAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCCAGGGTTAAAGCCGATAGG
*
284085 CAGACTTGAGGTGAGGCAA
66 CAGACTTGAAGTGAGGCAA
* * *
284104 TCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAAAAAGTCTCTAGGGTTAAAGCCGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCCAGGGTTAAAGCCGATAGG
* *
284169 CAGACTTGATGT-AGGGCAG
66 CAGACTTGAAGTGA-GGCAA
* * * * * *
284188 TCTCTAGGGTCAAAGCCGATATGTAGACTGAGGTTAAA
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAA
284226 GCCGACAGGC
Statistics
Matches: 177, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
83 76 0.43
84 78 0.44
85 23 0.13
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (84 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCCAGGGTTAAAGCCGATAGG
CAGACTTGAAGTGAGGCAA
Found at i:284235 original size:66 final size:66
Alignment explanation
Indices: 284153--284286 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
284143 AAGTCTCTAG
284153 GGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTG
1 GGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTG
284218 A
66 A
284219 GGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTG
1 GGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTG
284284 A
66 A
284285 GG
1 GG
284287 GTAAGAAAGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (66 bp):
GGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTG
A
Found at i:284282 original size:42 final size:42
Alignment explanation
Indices: 284223--284998 Score: 553
Period size: 42 Copynumber: 18.4 Consensus size: 42
284213 GACTGAGGTT
* * **
284223 AAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * * *
284265 AAAGCCGATATGTAGAC-TGAGGGTAAGAAAGTCTCCAGGGTC
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCTAGGGTC
** * ** * *
284307 AAAGCCGACAAACAGACTTGAGGTGAGGCAGTCTCTAAGGTT
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * * *
284349 AAAGCCGACAAGCAGACTGGGGGTAAGAAAGTCTCCAGGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * *
284391 AAATCCGACAGGCAGACATGAGGTTAAG-CAGTCTCTAGGGTC
1 AAAGCCGACAGGCAGACTTGAGG-TAAGAAAGTCTCTAGGGTC
*** * *
284433 AAAGCCGACAATAAGAC-TCAGGGTAAGAAAGTCTCTAAGGTC
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCTAGGGTC
* * * * * * ** * *
284475 AAAGCTGATAGGTAGACTTAAGATGAGGCAGTCTCCAAGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * *
284517 AAAGTCGACAGGTAGA-TTGAAGGTAGGAAAGTCTCTAGGGTC
1 AAAGCCGACAGGCAGACTTG-AGGTAAGAAAGTCTCTAGGGTC
* * * * * ** * *
284559 AAAGCCGATAGGCAGAATTAATGTGAGGCAGTCTCCAGGTTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * *
284601 AAAGCCGATAGGGAGAC-TGAGGGTAAGAAAGTCT-TCAAGGTC
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCT-AGGGTC
* * * * ** * *
284643 AAAGTCGACATGTAGACTTGAGATAAGGCAGTCTCCAAGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * * *
284685 GAAGCCAACAGGCAGAC-TGAGGGTAAAAAAGTCTCTAGGGTT
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCTAGGGTC
* ** * * *
284727 AAAGCCGACAGGTAGACTTGAGGTTGGGATAGTCTCCAAGGTC
1 AAAGCCGACAGGCAGACTTGAGG-TAAGAAAGTCTCTAGGGTC
* *
284770 AAAGCCAACAGGCAGAC-TGAGGGTAAGAAAGTCTCTAGGGTT
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCTAGGGTC
* * ** **
284812 AAAGTCGACAGGTAGACTTGAGGTTGGGGCAGTCTCTAGGGTC
1 AAAGCCGACAGGCAGACTTGAGG-TAAGAAAGTCTCTAGGGTC
* * ** * *
284855 AAAGCCGATAAGCAGACTAAAGGTAGGAAAGTCTTTAGGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * * *
284897 AAAGTCGACAGGCAGACTTGAGGTGAGATAGTCTCTAAGGTC
1 AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
* * *
284939 AAAGCTGACAGGCAGA-TTAAGGGTAAGAAAGTCTTTAGGGTC
1 AAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCTAGGGTC
* *
284981 AAAGCTGACAAGCAGACT
1 AAAGCCGACAGGCAGACT
284999 GAAAGTAGGG
Statistics
Matches: 556, Mismatches: 158, Indels: 39
0.74 0.21 0.05
Matches are distributed among these distances:
41 19 0.03
42 456 0.82
43 81 0.15
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (42 bp):
AAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCTAGGGTC
Found at i:284340 original size:150 final size:150
Alignment explanation
Indices: 284082--284356 Score: 374
Period size: 150 Copynumber: 1.8 Consensus size: 150
284072 TAAAGTAGAT
*
284082 AGGCAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGTAAAAAAGT
1 AGGCAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGT
* * ** * *
284147 CTCTAGGGTTAAAGCCGACAGGCAGACTTGATGTAGGGCAGTCTCTAGGGTCAAAGCCGATATGT
66 CTCCAGGGTCAAAGCCGACAAACAGACTTGAGGTAGGGCAGTCTCTAAGGTCAAAGCCGATATGT
284212 AGACTGAGGTTAAAGCCGAC
131 AGACTGAGGTTAAAGCCGAC
* * * * * * * *
284232 AGGCAGACTTGATGT-AGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGGGTAAGAAAG
1 AGGCAGACTTGAGGTGA-GGCAATCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAG
*
284296 TCTCCAGGGTCAAAGCCGACAAACAGACTTGAGGT-GAGGCAGTCTCTAAGGTTAAAGCCGA
65 TCTCCAGGGTCAAAGCCGACAAACAGACTTGAGGTAG-GGCAGTCTCTAAGGTCAAAGCCGA
284357 CAAGCAGACT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 2 0.02
150 105 0.98
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (150 bp):
AGGCAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGT
CTCCAGGGTCAAAGCCGACAAACAGACTTGAGGTAGGGCAGTCTCTAAGGTCAAAGCCGATATGT
AGACTGAGGTTAAAGCCGAC
Found at i:284366 original size:84 final size:84
Alignment explanation
Indices: 284223--284998 Score: 795
Period size: 84 Copynumber: 9.2 Consensus size: 84
284213 GACTGAGGTT
* * * * *
284223 AAAGCCGACAGGCAGACTTGATGT-AGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGG
1 AAAGCCGACAGGCAGACTTGAGGTGA-GGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGG
*
284287 GTAAGAAAGTCTCCAGGGTC
65 GTAAGAAAGTCTCTAGGGTC
** * * *
284307 AAAGCCGACAAACAGACTTGAGGTGAGGCAGTCTCTAAGGTTAAAGCCGACAAGCAGACTGGGGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
*
284372 TAAGAAAGTCTCCAGGGTC
66 TAAGAAAGTCTCTAGGGTC
* * * * * *** *
284391 AAATCCGACAGGCAGACATGAGGTTAAGCAGTCTCTAGGGTCAAAGCCGACAATAAGACTCAGGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
*
284456 TAAGAAAGTCTCTAAGGTC
66 TAAGAAAGTCTCTAGGGTC
* * * * * * * * * *
284475 AAAGCTGATAGGTAGACTTAAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGTAGATTGAAGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
*
284540 TAGGAAAGTCTCTAGGGTC
66 TAAGAAAGTCTCTAGGGTC
* * * * * * *
284559 AAAGCCGATAGGCAGAATTAATGTGAGGCAGTCTC-CAGGTTCAAAGCCGATAGGGAGACTGAGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGG-TCAAAGCCGACAGGCAGACTGAGG
*
284623 GTAAGAAAGTCT-TCAAGGTC
65 GTAAGAAAGTCTCT-AGGGTC
* * * * * * * *
284643 AAAGTCGACATGTAGACTTGAGATAAGGCAGTCTCCAAGGTCGAAGCCAACAGGCAGACTGAGGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
* *
284708 TAAAAAAGTCTCTAGGGTT
66 TAAGAAAGTCTCTAGGGTC
* * * *
284727 AAAGCCGACAGGTAGACTTGAGGTTG-GGATAGTCTCCAAGGTCAAAGCCAACAGGCAGACTGAG
1 AAAGCCGACAGGCAGACTTGAGG-TGAGG-CAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAG
*
284791 GGTAAGAAAGTCTCTAGGGTT
64 GGTAAGAAAGTCTCTAGGGTC
* * * * * * * *
284812 AAAGTCGACAGGTAGACTTGAGGTTGGGGCAGTCTCTAGGGTCAAAGCCGATAAGCAGACTAAAG
1 AAAGCCGACAGGCAGACTTGAGG-TGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGG
* *
284877 GTAGGAAAGTCTTTAGGGTC
65 GTAAGAAAGTCTCTAGGGTC
* ** * * *
284897 AAAGTCGACAGGCAGACTTGAGGTGAGATAGTCTCTAAGGTCAAAGCTGACAGGCAGATTAAGGG
1 AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
*
284962 TAAGAAAGTCTTTAGGGTC
66 TAAGAAAGTCTCTAGGGTC
* *
284981 AAAGCTGACAAGCAGACT
1 AAAGCCGACAGGCAGACT
284999 GAAAGTAGGG
Statistics
Matches: 578, Mismatches: 106, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
83 4 0.01
84 421 0.73
85 151 0.26
86 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (84 bp):
AAAGCCGACAGGCAGACTTGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGG
TAAGAAAGTCTCTAGGGTC
Found at i:284401 original size:234 final size:233
Alignment explanation
Indices: 283990--284440 Score: 591
Period size: 234 Copynumber: 1.9 Consensus size: 233
283980 CTCCAGGGTC
* * * *
283990 AAAGCCGATAGGTAGACTTGAAGTGAGGCAATCTCAAAGGTTAAAGCCGACAGGCAGATTGAGGG
1 AAAGCCGACAGGCAGACTTGAAGTGAGGCAATCTCAAAGGTCAAAGCCGACAGGCAGACTGAGGG
* * * **
284055 TAAGAAAGTTCCAGGGTTAAAGTAGATAGGCAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGC
66 TAAGAAAGTTCCAGGGTCAAAGCAGACAAACAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGC
* * * * * * *
284120 CGACAGGCAGATTGAGGGTAAAAAAGTCTCTAGGGTTAAAGCCGACAGGCAGACTTGATG-TAGG
131 CGACAAGCAGACTGAGGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACATGAGGTTA-A
284184 GCAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGGTT
195 GCAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGGTT
* * * * * * *
284223 AAAGCCGACAGGCAGACTTGATGT-AGGGCAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGG
1 AAAGCCGACAGGCAGACTTGAAGTGA-GGCAATCTCAAAGGTCAAAGCCGACAGGCAGACTGAGG
* * * *
284287 GTAAGAAAGTCTCCAGGGTCAAAGCCGACAAACAGACTTGAGGTGAGGCAGTCTCTAAGGTTAAA
65 GTAAGAAAGT-TCCAGGGTCAAAGCAGACAAACAGACTTGAGGTGAGGCAATCTCCAAGGTCAAA
* * *
284352 GCCGACAAGCAGACTGGGGGTAAGAAAGTCTCCAGGGTCAAATCCGACAGGCAGACATGAGGTTA
129 GCCGACAAGCAGACTGAGGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACATGAGGTTA
284417 AGCAGTCTCTAGGGTCAAAGCCGA
194 AGCAGTCTCTAGGGTCAAAGCCGA
284441 CAATAAGACT
Statistics
Matches: 185, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
232 1 0.01
233 61 0.33
234 121 0.65
235 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (233 bp):
AAAGCCGACAGGCAGACTTGAAGTGAGGCAATCTCAAAGGTCAAAGCCGACAGGCAGACTGAGGG
TAAGAAAGTTCCAGGGTCAAAGCAGACAAACAGACTTGAGGTGAGGCAATCTCCAAGGTCAAAGC
CGACAAGCAGACTGAGGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACATGAGGTTAAG
CAGTCTCTAGGGTCAAAGCCGATATGTAGACTGAGGTT
Found at i:285210 original size:44 final size:44
Alignment explanation
Indices: 285162--285269 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
285152 GGGTTTAACC
* * *
285162 AAGGTGGTAACTAGATGTCAAATTAGAATGAG-AAAAATCTGACT
1 AAGGTGGTAACCATATGTCAAATCAGAATGAGAAAAAAT-TGACT
*
285206 AAGGTGATAACCATATGTCAAATCAGAATGAGAAAAAATTGACT
1 AAGGTGGTAACCATATGTCAAATCAGAATGAGAAAAAATTGACT
*
285250 AGGGTGGTAACCATATGTCA
1 AAGGTGGTAACCATATGTCA
285270 GGCTAAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 51 0.89
45 6 0.11
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (44 bp):
AAGGTGGTAACCATATGTCAAATCAGAATGAGAAAAAATTGACT
Found at i:297771 original size:23 final size:23
Alignment explanation
Indices: 297723--297775 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
297713 TTGATTACTA
* *
297723 TTTTGCTGGTGTTTGCTGGTAAT
1 TTTTGCTGGTATTTGCTGCTAAT
*
297746 TTTTGCTGGTATTTGCTTGCT-GT
1 TTTTGCTGGTATTTGC-TGCTAAT
297769 TTTTGCT
1 TTTTGCT
297776 AGTTTTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.06, C:0.11, G:0.26, T:0.57
Consensus pattern (23 bp):
TTTTGCTGGTATTTGCTGCTAAT
Found at i:298536 original size:14 final size:13
Alignment explanation
Indices: 298517--298607 Score: 55
Period size: 14 Copynumber: 6.8 Consensus size: 13
298507 GGCGTGAAAC
298517 ATGCATGAAATATA
1 ATGCATGAAAT-TA
298531 ATGCATG----TA
1 ATGCATGAAATTA
298540 ATGCATGAAATGTA
1 ATGCATGAAAT-TA
*
298554 ATGCATGAAATGCAA
1 ATGCATGAAAT--TA
* * **
298569 ATTACGTGAAATGC
1 A-TGCATGAAATTA
298583 ATGCATGAAATGTA
1 ATGCATGAAAT-TA
298597 ATGCATGAAAT
1 ATGCATGAAAT
298608 GCATGAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 9 0.15
13 8 0.14
14 32 0.54
15 2 0.03
16 8 0.14
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (13 bp):
ATGCATGAAATTA
Found at i:298547 original size:23 final size:23
Alignment explanation
Indices: 298517--298624 Score: 95
Period size: 23 Copynumber: 4.9 Consensus size: 23
298507 GGCGTGAAAC
*
298517 ATGCATGAAATATAATGCATGTA
1 ATGCATGAAATATAATGCATGAA
*
298540 ATGCATGAAATGTAATGCATGAA
1 ATGCATGAAATATAATGCATGAA
* * *
298563 ATGC---AAAT-TACGTGAAATG-C
1 ATGCATGAAATATA-ATG-CATGAA
*
298583 ATGCATGAAATGTAATGCATGAA
1 ATGCATGAAATATAATGCATGAA
298606 ATGCATGAAA-AT-ATGCATG
1 ATGCATGAAATATAATGCATG
298625 CAATATTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.03
20 10 0.14
21 10 0.14
22 4 0.06
23 41 0.59
24 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (23 bp):
ATGCATGAAATATAATGCATGAA
Found at i:298608 original size:14 final size:14
Alignment explanation
Indices: 298535--298608 Score: 87
Period size: 14 Copynumber: 5.2 Consensus size: 14
298525 AATATAATGC
298535 ATGTAATGCATGAA
1 ATGTAATGCATGAA
298549 ATGTAATGCATGAA
1 ATGTAATGCATGAA
* * *
298563 ATGCAAATTACGTGAA
1 ATG-TAA-TGCATGAA
*
298579 ATG-CATGCATGAA
1 ATGTAATGCATGAA
298592 ATGTAATGCATGAA
1 ATGTAATGCATGAA
298606 ATG
1 ATG
298609 CATGAAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 9 0.18
14 30 0.60
15 2 0.04
16 9 0.18
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (14 bp):
ATGTAATGCATGAA
Found at i:298610 original size:9 final size:9
Alignment explanation
Indices: 298530--298615 Score: 51
Period size: 9 Copynumber: 10.2 Consensus size: 9
298520 CATGAAATAT
*
298530 AATGCATGT
1 AATGCATGA
298539 AATGCATGA
1 AATGCATGA
298548 AATG--T--
1 AATGCATGA
298553 AATGCATGA
1 AATGCATGA
298562 AATGCA--A
1 AATGCATGA
* * *
298569 ATTACGTGA
1 AATGCATGA
298578 AATGCATG-
1 AATGCATGA
* * *
298586 CATGAAATGT
1 AATG-CATGA
298596 AATGCATGA
1 AATGCATGA
298605 AATGCATGA
1 AATGCATGA
298614 AA
1 AA
298616 ATATGCATGC
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
5 4 0.07
7 6 0.11
8 3 0.05
9 41 0.72
10 3 0.05
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (9 bp):
AATGCATGA
Found at i:298626 original size:43 final size:43
Alignment explanation
Indices: 298517--298626 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 43
298507 GGCGTGAAAC
*
298517 ATGCATGAAATATAATGCATGTAATGCATGAAATGTAATGCATGAA
1 ATGCATGAAA-AT-ATGCATG-CATGCATGAAATGTAATGCATGAA
* *
298563 ATGC---AAATTACGTGAAATGCATGCATGAAATGTAATGCATGAA
1 ATGCATGAAAATA--TG-CATGCATGCATGAAATGTAATGCATGAA
298606 ATGCATGAAAATATGCATGCA
1 ATGCATGAAAATATGCATGCA
298627 ATATTTATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 37 0.70
44 5 0.09
46 9 0.17
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCATGAAAATATGCATGCATGCATGAAATGTAATGCATGAA
Found at i:298673 original size:4 final size:4
Alignment explanation
Indices: 298664--298726 Score: 74
Period size: 4 Copynumber: 15.2 Consensus size: 4
298654 GGTTTTTTTC
* *
298664 TTTA TTTA TTTTA TTTA TTTTA TTTA TATA TACT- TTTA TTTA TTTA TTTA
1 TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
298714 TTTA TTTA TTTA T
1 TTTA TTTA TTTA T
298727 AAATGTTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
3 1 0.02
4 42 0.81
5 9 0.17
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:300016 original size:20 final size:20
Alignment explanation
Indices: 299993--300127 Score: 73
Period size: 20 Copynumber: 6.7 Consensus size: 20
299983 ACATTTGGAA
299993 ATGTATCGATACATTTATTT
1 ATGTATCGATACATTTATTT
*
300013 ATGTATCGATACAATTT-TTCG
1 ATGTATCGATAC-ATTTATT-T
* *
300034 ACTAGAATGCG--ACA-TGATTT
1 A-T-GTAT-CGATACATTTATTT
* ***
300054 -TGTATCTATACATTTGAGAC
1 ATGTATCGATACATTT-ATTT
*
300074 ATGTATCGATACATTCATTT
1 ATGTATCGATACATTTATTT
* * *
300094 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTTATTT
300114 ATTGTATCGATACA
1 A-TGTATCGATACA
300128 AATCGTAGAA
Statistics
Matches: 86, Mismatches: 17, Indels: 23
0.68 0.13 0.18
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 4 0.05
19 1 0.01
20 36 0.42
21 33 0.38
22 3 0.03
23 3 0.03
24 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATTT
Found at i:300121 original size:21 final size:20
Alignment explanation
Indices: 300074--300127 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
300064 CATTTGAGAC
* *
300074 ATGTATCGATACATTCATTT
1 ATGTATCGATACATTCACTA
300094 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
300114 ATTGTATCGATACA
1 A-TGTATCGATACA
300128 AATCGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:302637 original size:43 final size:43
Alignment explanation
Indices: 302520--302656 Score: 104
Period size: 43 Copynumber: 3.3 Consensus size: 43
302510 TAAACTACTG
* * * * *
302520 ATAAAATAATAGTATATAATTAATAACATAATAGTAAAT--T-T
1 ATAAAATAATAATAAATAA-TGATAAGATAATAGTAAATAATAA
* * * *
302561 AT-AATTAAAAATAAATAATGATAAGATAATAGTATATGATAA
1 ATAAAATAATAATAAATAATGATAAGATAATAGTAAATAATAA
* * *
302603 ATAAAATAATAATAAATTATTGATAA-ATAGTAGTAAATAATTA
1 ATAAAATAATAATAAA-TAATGATAAGATAATAGTAAATAATAA
*
302646 ATAATATAATA
1 ATAAAATAATA
302657 GTAACTACCA
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 16 0.21
40 12 0.16
41 3 0.04
42 2 0.03
43 34 0.45
44 8 0.11
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (43 bp):
ATAAAATAATAATAAATAATGATAAGATAATAGTAAATAATAA
Found at i:302639 original size:21 final size:21
Alignment explanation
Indices: 302523--302660 Score: 104
Period size: 22 Copynumber: 6.6 Consensus size: 21
302513 ACTACTGATA
*
302523 AAATAATAGTATATAATTAAT
1 AAATAATAGTAAATAATTAAT
302544 AACATAATAGTAAAT--TT-AT
1 AA-ATAATAGTAAATAATTAAT
* * * *
302563 AATTAAAAATAAATAA-TGAT
1 AAATAATAGTAAATAATTAAT
* * *
302583 AAGATAATAGTATATGATAAAT
1 AA-ATAATAGTAAATAATTAAT
* * *
302605 AAAATAATAATAAATTATTGAT
1 -AAATAATAGTAAATAATTAAT
*
302627 AAATAGTAGTAAATAATTAAT
1 AAATAATAGTAAATAATTAAT
302648 AATATAATAGTAA
1 AA-ATAATAGTAA
302661 CTACCAAAAT
Statistics
Matches: 88, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
18 9 0.10
19 5 0.06
20 6 0.07
21 30 0.34
22 36 0.41
23 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (21 bp):
AAATAATAGTAAATAATTAAT
Found at i:303629 original size:10 final size:11
Alignment explanation
Indices: 303599--303627 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
303589 TTCTTAAATC
303599 TAAAAAAATTT
1 TAAAAAAATTT
303610 TAAAAAAATTT
1 TAAAAAAATTT
303621 TAAAAAA
1 TAAAAAA
303628 TTGATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:303959 original size:2 final size:2
Alignment explanation
Indices: 303952--303978 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
303942 AGGTACCCCT
303952 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
303979 ATGTCGACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:305917 original size:24 final size:26
Alignment explanation
Indices: 305828--305921 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 26
305818 AAAAGTTACC
*
305828 CTTTG-TGTTTGTCAACAATGATGGT-TA
1 CTTTGTTGTTTGTCAA-AA--ATGGTGTG
* *
305855 CTTTG-TATTTGTCAAAAATGGTGTT
1 CTTTGTTGTTTGTCAAAAATGGTGTG
* *
305880 CTTTTTTGTTTGTCAAAAATTGTG-G
1 CTTTGTTGTTTGTCAAAAATGGTGTG
305905 C-TTGTTGTTTGTCAAAA
1 CTTTGTTGTTTGTCAAAA
305922 TTGATGGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
24 20 0.34
25 6 0.10
26 18 0.31
27 14 0.24
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (26 bp):
CTTTGTTGTTTGTCAAAAATGGTGTG
Found at i:310915 original size:20 final size:19
Alignment explanation
Indices: 310886--310960 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
310876 AAAAAGACAT
310886 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
310905 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
310926 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
310946 AATGTATCGATACAT
1 AATGTATCGATACAT
310961 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:310943 original size:40 final size:39
Alignment explanation
Indices: 310883--310960 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
310873 GGTAAAAAGA
*
310883 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
310922 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
310961 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:311830 original size:29 final size:29
Alignment explanation
Indices: 311540--312582 Score: 1267
Period size: 29 Copynumber: 35.6 Consensus size: 29
311530 GTTCCCATCA
*
311540 ACTTGTGTTGGCTTTGAAAAGG-GTTGCCACCG
1 ACTTGTG--GGCTTTG-AAAGGAG-TGCCACTG
* *
311572 ACTTATGTGGGCTTTGAAATGGATTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAGTGCCACTG
* *
311604 ACTTGTGTGGGCTTTGAAATGG-GTTACCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTG
*
311636 ACTTGTGTGGGCTTTGAAATGG-GTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTG
*
311668 ACTTGTGTGGGCTTTGAAATGG-GTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTG
*
311700 ACTTGTGTGGGCTTTGAAATGG-GTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTG
*
311732 ACTTGTGTGGGCTTTGAAAAGG-GTTGCCACCG
1 AC-T-TGTGGGCTTTG-AAAGGAG-TGCCACTG
* *
311764 ACTTGTGTGGGCTTTGAAATG-GTACCACTG
1 AC-T-TGTGGGCTTTGAAAGGAGTGCCACTG
311794 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
311823 ACTTGTGGGCTTTGAAATG-GTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
311851 ACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
311880 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
311908 ACTTGTGGGTTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
311937 ACTTGTGGGCTTTGAAATG-GTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
311965 ACTCGTGGGCTTTGAAAGG-GTGCCAATG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* * *
311993 ACTTGTGGGCTTTGAAAAGAGTGACACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
312022 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312051 ACTTGTGGGCTTTGAAAAGAGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312080 ACTTGTGGGCTTTGAAAGGA-TGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312108 ACTTGTGGGCTTTAAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312137 ACTTGTGGGCTTTGAAATGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
** *
312166 ACTTGTGGGCTTTGAAAAAAGTGCCGCTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312195 ACTTGTGGGCTTTGAAATG-GTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312223 ACTTGTGGGCTTTGAAAGGAGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312252 ACTTGTGGGCTTTGAAAGGA-TGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312280 ACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
312309 ACTTGTGGGCTTTGAAATG-GTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312337 ACTCGTAGGCTTTGAAAGG-GTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312365 ACTTATGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
312394 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312423 ACTTGTGGGCTTTGAAAAGAGTGCCCCTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
312452 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* *
312480 ACTTGTGGGCTTTAAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
312509 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
* * **
312537 ACTTGTGGGCTTTGAAAAGAGTACCGTTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTG
312566 ACTTGTGGGCTTTGAAA
1 ACTTGTGGGCTTTGAAA
312583 TGATGAACGT
Statistics
Matches: 925, Mismatches: 70, Indels: 35
0.90 0.07 0.03
Matches are distributed among these distances:
28 298 0.32
29 417 0.45
30 8 0.01
31 8 0.01
32 186 0.20
33 4 0.00
34 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
ACTTGTGGGCTTTGAAAGGAGTGCCACTG
Found at i:311849 original size:57 final size:57
Alignment explanation
Indices: 311540--312584 Score: 1223
Period size: 57 Copynumber: 17.8 Consensus size: 57
311530 GTTCCCATCA
* *
311540 ACTTGTGTTGGCTTTGAAAAGG-GTTGCCACCGACTTATGTGGGCTTTGAAATGGATTGCCACCG
1 ACTTGTG--GGCTTTG-AAAGGAG-TGCCACTGAC-T-TGTGGGCTTTGAAATGG--TGCCACTG
* * *
311604 ACTTGTGTGGGCTTTGAAATGG-GTTACCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAT-GG-TGCCACTG
* *
311668 ACTTGTGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAT-GG-TGCCACTG
* *
311732 ACTTGTGTGGGCTTTGAAAAGG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGTACCACTG
1 AC-T-TGTGGGCTTTG-AAAGGAG-TGCCACTGAC-T-TGTGGGCTTTGAAATGGTGCCACTG
*
311794 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTG
*
311851 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTG
* *
311908 ACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTG
* * * * *
311965 ACTCGTGGGCTTTGAAAGG-GTGCCAATGACTTGTGGGCTTTGAAAAGAGTGACACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* *
312022 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* * *
312080 ACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* ** *
312137 ACTTGTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCGCTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAATGGTGCCACTG
* * *
312195 ACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* *
312252 ACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* * * *
312309 ACTTGTGGGCTTTGAAATG-GTGCCACTGACTCGTAGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTG
* * *
312365 ACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTG
* *
312423 ACTTGTGGGCTTTGAAAAGAGTGCCCCTGACTTGTGGGCTTTGAAA-GGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTG
* *
312480 ACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTG
* * **
312537 ACTTGTGGGCTTTGAAAAGAGTACCGTTGACTTGTGGGCTTTGAAATG
1 ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATG
312585 ATGAACGTTC
Statistics
Matches: 908, Mismatches: 54, Indels: 44
0.90 0.05 0.04
Matches are distributed among these distances:
56 58 0.06
57 477 0.53
58 160 0.18
59 18 0.02
60 12 0.01
61 1 0.00
62 8 0.01
63 5 0.01
64 159 0.18
65 6 0.01
66 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (57 bp):
ACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTG
Found at i:312176 original size:372 final size:372
Alignment explanation
Indices: 311641--312584 Score: 1480
Period size: 372 Copynumber: 2.5 Consensus size: 372
311631 CACCGACTTG
* * * *
311641 TGTGGGCTTTGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-
* * * * *
311705 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGT
59 TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTAAAAAGAG-TGCCACTGAC-T-T
* * *
311770 GTGGGCTTTGAAATG-GTACCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
117 GTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCGCTGACTTGTGGGCT
*
311834 TTGAAATGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
182 TTGAAATGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* *
311899 ATGCCACTGACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACT
247 ATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACT
* *
311964 GACTCGTGGGCTTTGAAAGGGTGCCAATGACTTGTGGGCTTTGAAAAGAGTGACACTAACT
312 GACTCGTAGGCTTTGAAAGGGTGCCAATGACTTATGGGCTTTGAAAAGAGTGACACTAACT
*
312025 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
312090 TTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAT
66 TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAT
*
312155 GAGTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCGCTGACTTGTGGGCTTTGAAATGGTGCCA
131 GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCGCTGACTTGTGGGCTTTGAAATGGTGCCA
* *
312220 CTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTG
196 CTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTG
312285 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTCGTAGGCTTT
261 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTCGTAGGCTTT
* * *
312350 GAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACT
326 GAAAGGGTGCCAATGACTTATGGGCTTTGAAAAGAGTGACACTAACT
*
312397 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCCCTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
312462 TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
66 TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAT
* *
312527 GA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTACCGTTGACTTGTGGGCTTTGAAATG
131 GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCGCTGACTTGTGGGCTTTGAAATG
312585 ATGAACGTTC
Statistics
Matches: 526, Mismatches: 32, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
371 69 0.13
372 355 0.67
373 9 0.02
374 16 0.03
375 1 0.00
376 10 0.02
378 14 0.03
379 1 0.00
380 8 0.02
381 16 0.03
382 1 0.00
383 11 0.02
384 15 0.03
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (372 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
TTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAT
GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCGCTGACTTGTGGGCTTTGAAATGGTGCCA
CTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTG
TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTCGTAGGCTTT
GAAAGGGTGCCAATGACTTATGGGCTTTGAAAAGAGTGACACTAACT
Found at i:313825 original size:1 final size:1
Alignment explanation
Indices: 313821--313883 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
313811 TTTTTCTTGG
* * * * * *
313821 TTTTTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
313884 GTAAAGGATG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:313835 original size:9 final size:9
Alignment explanation
Indices: 313820--313885 Score: 98
Period size: 9 Copynumber: 7.2 Consensus size: 9
313810 TTTTTTCTTG
313820 GTTTTTTTT
1 GTTTTTTTT
313829 -TTGTTTTTT
1 GTT-TTTTTT
313838 GTTTTTTTT
1 GTTTTTTTT
313847 GTTTTTTTT
1 GTTTTTTTT
313856 GTTTTTTTT
1 GTTTTTTTT
313865 GTTTTTTTTT
1 G-TTTTTTTT
*
313875 ATTTTTTTT
1 GTTTTTTTT
313884 GT
1 GT
313886 AAAGGATGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 2 0.04
9 40 0.77
10 10 0.19
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:313841 original size:18 final size:18
Alignment explanation
Indices: 313810--313885 Score: 100
Period size: 18 Copynumber: 4.1 Consensus size: 18
313800 TTTTTGCTAT
313810 TTTTTTCTTGGTTTTTTTT-
1 TTTTTT-TT-GTTTTTTTTG
313829 TTGTTTTTTGTTTTTTTTG
1 TT-TTTTTTGTTTTTTTTG
313848 TTTTTTTTGTTTTTTTTG
1 TTTTTTTTGTTTTTTTTG
*
313866 TTTTTTTTTATTTTTTTTG
1 -TTTTTTTTGTTTTTTTTG
313885 T
1 T
313886 AAAGGATGCC
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
18 26 0.49
19 23 0.43
20 4 0.08
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.87
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTTTG
Found at i:313842 original size:28 final size:26
Alignment explanation
Indices: 313797--313885 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 26
313787 TCTAGACCCC
* * *
313797 TTTTTTTTGCTATTTT-TTTCTTGGTT
1 TTTTTTTTG-TTTTTTGTTTTTTTGTT
313823 TTTTTTTTGTTTTTTGTTTTTTTTGTT
1 TTTTTTTTGTTTTTTG-TTTTTTTGTT
313850 TTTTTTGTT-TTTTTTGTTTTTTT-TT
1 TTTTTT-TTGTTTTTTGTTTTTTTGTT
313875 ATTTTTTTTGT
1 -TTTTTTTTGT
313886 AAAGGATGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.16
26 23 0.42
27 21 0.38
28 2 0.04
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (26 bp):
TTTTTTTTGTTTTTTGTTTTTTTGTT
Found at i:327890 original size:20 final size:19
Alignment explanation
Indices: 327861--327935 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
327851 AAAAAGACAT
327861 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
327880 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
327901 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
327921 AATGTATCGATACAT
1 AATGTATCGATACAT
327936 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:327918 original size:40 final size:39
Alignment explanation
Indices: 327858--327935 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
327848 GGTAAAAAGA
*
327858 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
327897 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
327936 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:331116 original size:15 final size:16
Alignment explanation
Indices: 331096--331128 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
331086 ATTTCATATT
*
331096 TTTTCTTT-TTTTTTC
1 TTTTCTTTCTTTCTTC
331111 TTTTCTTTCTTTCTTC
1 TTTTCTTTCTTTCTTC
331127 TT
1 TT
331129 CATCTTCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTCTTC
Found at i:331547 original size:16 final size:16
Alignment explanation
Indices: 331526--331567 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
331516 CACTTTGGTT
331526 TTTTTTTTTTGAAAGC
1 TTTTTTTTTTGAAAGC
*
331542 TTTTTTTTCTGAAAGC
1 TTTTTTTTTTGAAAGC
331558 TTTTTTTTTT
1 TTTTTTTTTT
331568 CAACCCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (16 bp):
TTTTTTTTTTGAAAGC
Found at i:332287 original size:48 final size:48
Alignment explanation
Indices: 332225--332404 Score: 279
Period size: 48 Copynumber: 3.8 Consensus size: 48
332215 AGAGGGGTGC
** * *
332225 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
332273 CAATGTGCTGATTCAAGGCTAGCGAAATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
332321 TAATGTGCTGATTCAAGGCCAGTGACATTGAGTTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
332369 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
332405 TAAAGGTGCC
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:332567 original size:32 final size:31
Alignment explanation
Indices: 332474--333286 Score: 632
Period size: 32 Copynumber: 26.7 Consensus size: 31
332464 GGTGATTTAA
* * *
332474 AAAAGGTTGCCATCGACTTGCGTGGGCTTTTAAA
1 AAAAGGTTGCCACCGACTTGTGTGGGC-TTT--G
* ** *
332508 AAAAGG-TGTCACTAACTTATGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332538 AAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 AAAAG-GTTGCCACCGACTTGTGTGGGCTTTG
* *
332570 AAAAGAG-TACCACTGAC-T-TGTGGGCTTTG
1 AAAAG-GTTGCCACCGACTTGTGTGGGCTTTG
* * *
332599 -AAAGGGTACCACTGAC-T-TGTGGGCTTT-
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* * **
332626 CAAAGGGTGCCACTAAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332655 -AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332683 -AAAGGGTGCCACCAACTTGTGTGGGCTTT-
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
332712 TAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332741 AAATGGGTTGCCACCGACTTGTGTGGGCTTTC
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
* * * *
332773 AAATGAGTTACCACCAACTTGTGTGGGCTTTC
1 AAAAG-GTTGCCACCGACTTGTGTGGGCTTTG
* * *
332805 AAATGGGTTGCTACCAACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
332837 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332869 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
332901 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
332933 AAATGGGTTGCCACCAACTTGTGTGGACTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
*
332965 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
* *
332997 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
* *
333029 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA-AGGTTGCCACCGACTTGTGTGGGCTTTG
*
333061 AAATGAGTTGCCACCGACTTGTGTGGGCGCTTT-
1 AAAAG-GTTGCCACCGACTTGTGT-GG-GCTTTG
* * *
333094 CAAATGTTGCCACTGAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
333123 AAATGG-TGCCACTGAC-T-TATGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* **
333151 -AAAGGATGCCATTGAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
333179 -AAAGGATGCCACCAACTTGTGTGGACTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
333209 AAAA-GATGTCACTGAC-T-TGTGGGCTTTG
1 AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
**
333237 AAAA--TATGCCACTAAC-T-TGTGGGCTTTG
1 AAAAGGT-TGCCACCGACTTGTGTGGGCTTTG
* **
333265 AAAAGGGTGCCACTAACTTGTG
1 AAAAGGTTGCCACCGACTTGTG
333287 GGCTTTAGAA
Statistics
Matches: 680, Mismatches: 72, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.01
28 198 0.29
29 32 0.05
30 63 0.09
31 17 0.03
32 335 0.49
33 19 0.03
34 11 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (31 bp):
AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:332607 original size:28 final size:28
Alignment explanation
Indices: 332527--333684 Score: 696
Period size: 28 Copynumber: 39.5 Consensus size: 28
332517 CACTAACTTA
* *
332527 TGTGGGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACCGACT
* * *
332557 CGTGTGGGCTTTGAAAAGAGTACCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACCGACT
* *
332588 TGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* **
332616 TGTGGGCTTTCAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
*
332644 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
*
332672 TGTGGGCTTTGAAAGGGTGCCACCAACTT
1 TGTGGGCTTTGAAAGGGTGCCACCGAC-T
* *
332701 GTGTGGGCTTTTAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACCGACT
332730 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA-GGG-TGCCACCGAC-T
* * * *
332761 GTGTGGGCTTTCAAATGAGTTACCACCAACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACCGAC-T
* * *
332793 GTGTGGGCTTTCAAATGGGTTGCTACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGAC-T
*
332825 GTGTGGGCTTTGAAATAGGTTGCCACCGACTT
1 -TGTGGGCTTTG-AA-AGGGTGCCACCGAC-T
*
332857 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGAC-T
*
332889 GTGTGGGCTTTGAAATAGGTTGCCACCGACTT
1 -TGTGGGCTTTG-AA-AGGGTGCCACCGAC-T
*
332921 GTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGACT
332952 TGTGTGGACTTTGAAATGGGTTGCCACCGACTT
1 TGTG-GG-CTTTGAAA-GGG-TGCCACCGAC-T
*
332985 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGAC-T
*
333017 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGAC-T
*
333049 GTGTGGGCTTTGAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACCGAC-T
* * * *
333081 GTGTGGGCGCTTTCAAATGTTGCCACTGACT
1 -TGT-GG-GCTTTGAAAGGGTGCCACCGACT
* *
333112 TGTGGGCTTTGAAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * **
333140 TATGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* *
333168 TGTGGGCTTTGAAAGGATGCCACCAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333196 TGTGTGGACTTTGAAAAGATGTCACTGACT
1 TGTG-GG-CTTTGAAAGGGTGCCACCGACT
*** **
333226 TGTGGGCTTTGAAAATATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
**
333254 TGTGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACCGACT
*
333283 TGTGGGCTTT-AGAAGGGAATGCCACCGCCT
1 TGTGGGCTTTGA-AAGGG--TGCCACCGACT
* * ** * *
333313 TGAGGACTTAAAAAAGGTGCCA-CGAAGT
1 TGTGGGCTTTGAAAGGGTGCCACCG-ACT
** * * *
333341 TGTGAAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * * *
333368 TGTGGACTTTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333396 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* ** * *
333424 TGTGGACTTAAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333452 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333480 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * *
333507 TGTGGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333534 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * * *
333561 TGTGGACTTTAAAAGGGTACCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * *
333589 TGTGGACTTT-AAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * ** * *
333616 TGTGGAC-TTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * * *
333643 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
*
333671 TGTGGACTTT-AAAG
1 TGTGGGCTTTGAAAG
333685 AGGTCACAGT
Statistics
Matches: 997, Mismatches: 91, Indels: 81
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.00
27 146 0.15
28 389 0.39
29 46 0.05
30 83 0.08
31 23 0.02
32 277 0.28
33 15 0.02
34 14 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACCGACT
Found at i:332815 original size:64 final size:64
Alignment explanation
Indices: 332521--333239 Score: 719
Period size: 64 Copynumber: 11.8 Consensus size: 64
332511 AGGTGTCACT
* * * * * * * *
332521 AACTTATGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAG-TACCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * * *
332584 GAC-T-TGTGGGCTTTGAAA-G-GGTACCACTGAC-T-TGTGGGCTTTCAAA-GGG-TGCCACT
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* *
332640 AAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * *
332696 AACTTGTGTGGGCTTTTAAA-G-GGTGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * * *
332756 GACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTGTGTGGGCTTTCAAATGGGTTGCTACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
332820 AACTTGTGTGGGCTTTGAAAT-AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGA-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
332884 AACTTGTGTGGGCTTTGAAAT-AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGA-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* *
332948 AACTTGTGTGGACTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * *
333012 AACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * *
333076 GACTTGTGTGGGCGCTTTCAAAT--GTTGCCACTGAC-T-TGTGGGCTTTGAAAT-GG-TGCCAC
1 AACTTGTGT-GG-GCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCAC
*
333135 T
64 C
* * * ** *
333136 GAC-T-TATGGGCTTTGAAA-G-GATGCCATTGAC-T-TGTGGGCTTTGAAA--GGATGCCACC
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * *
333192 AACTTGTGTGGACTTTGAAA--AGATGTCACTGAC-T-TGTGGGCTTTGAAA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
333240 ATATGCCACT
Statistics
Matches: 590, Mismatches: 49, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
55 2 0.00
56 104 0.18
57 17 0.03
58 80 0.14
59 12 0.02
60 35 0.06
61 16 0.03
62 24 0.04
63 5 0.01
64 284 0.48
65 2 0.00
66 9 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (64 bp):
AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
Found at i:332847 original size:96 final size:95
Alignment explanation
Indices: 332477--333286 Score: 698
Period size: 96 Copynumber: 8.9 Consensus size: 95
332467 GATTTAAAAA
* * * * * * * *
332477 AGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAGG-TGTCACTAACTTATGTGGGCTTTGAAA
1 AGGTTGCCACCGACTTGTGTGGGC-TTT--GAAATGGTTGCCACCAACTTGTGTGGGCTTTCAAA
* * *
332541 AGAGTTGCCACCAACTCGTGTGGGCTTTGAAA-
63 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * * * **
332573 AGAG-TACCACTGAC-T-TGTGGGCTTTGAAA-GGGTACCACTGAC-T-TGTGGGCTTTCAAA-G
1 AG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCAACTTGTGTGGGCTTTCAAATG
*
332631 GG-TGCCACTAAC-T-TGTGGGCTTTG-AA-
65 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * * *
332657 AGGGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGGTGCCACCAACTTGTGTGGGCTTTTAAA-GG
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCAACTTGTGTGGGCTTTCAAATGG
**
332718 G-TGCCACTGAC-T-TGTGGGCTTTGAAAT
66 GTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * *
332745 GGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTACCACCAACTTGTGTGGGCTTTCAAATG
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCAACTTGTGTGGGCTTTCAAATG
*
332810 GGTTGCTACCAACTTGTGTGGGCTTTGAAAT
65 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* *
332841 AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATA
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCAACTTGTGTGGGCTTTCAAATG
*
332906 GGTTGCCACCGACTTGTGTGGGCTTTGAAAT
65 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * * * *
332937 GGGTTGCCACCAACTTGTGTGGACTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCAACTTGTGTGGGCTTTCAAATG
333002 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
65 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * *
333033 GGGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCGCTTTCAAA
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCAACTTGTGT-GG-GCTTTCAAA
**
333098 T--GTTGCCACTGAC-T-TGTGGGCTTTGAAAT
63 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * * *** *
333127 -GG-TGCCACTGAC-T-TATGGGCTTTGAAA-GGATGCCATTGAC-T-TGTGGGCTTTGAAA--G
1 AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCAACTTGTGTGGGCTTTCAAATGG
* *
333183 GATGCCACCAACTTGTGTGGACTTTGAAA-
66 GTTGCCACCAACTTGTGTGGGCTTTGAAAT
* * * * * * *
333212 A-GATGTCACTGAC-T-TGTGGGCTTTGAAAAT--ATGCCACTAAC-T-TGTGGGCTTTGAAAAG
1 AGGTTGCCACCGACTTGTGTGGGCTTTG-AAATGGTTGCCACCAACTTGTGTGGGCTTTCAAATG
*
333270 GG-TGCCACTAACTTGTG
65 GGTTGCCACCAACTTGTG
333287 GGCTTTAGAA
Statistics
Matches: 625, Mismatches: 61, Indels: 65
0.83 0.08 0.09
Matches are distributed among these distances:
83 1 0.00
84 55 0.09
85 16 0.03
86 97 0.16
87 29 0.05
88 24 0.04
89 15 0.02
90 29 0.05
91 12 0.02
92 34 0.05
93 8 0.01
94 28 0.04
95 4 0.01
96 260 0.42
97 4 0.01
98 9 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (95 bp):
AGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCAACTTGTGTGGGCTTTCAAATGG
GTTGCCACCAACTTGTGTGGGCTTTGAAAT
Found at i:333573 original size:82 final size:83
Alignment explanation
Indices: 333316--333684 Score: 573
Period size: 82 Copynumber: 4.5 Consensus size: 83
333306 ACCGCCTTGA
* * * * *
333316 GGACTTAAAAAAGGTGCCACGAAGTTGTGAACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAA
1 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTTAAA
333381 AGAGTGCCACGGAGTTGT
66 AGAGTGCCACGGAGTTGT
* *
333399 GGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACTTTAA
1 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT-TAAAGGGTGCCACAGAGTTGTGGACTTTAA
*
333464 AAGGGTGCCACGGAGTTGT
65 AAGAGTGCCACGGAGTTGT
*
333483 GGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGAC-TTAAA
1 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTTAAA
*
333546 AGGGTGCCACGGAGTTGT
66 AGAGTGCCACGGAGTTGT
* * *
333564 GGACTTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGAC-TTAAA
1 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTTAAA
*
333628 AGAATGCCACGGAGTTGT
66 AGAGTGCCACGGAGTTGT
*
333646 GGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAG
1 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
333685 AGGTCACAGT
Statistics
Matches: 268, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
81 27 0.10
82 132 0.49
83 57 0.21
84 52 0.19
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (83 bp):
GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTTAAA
AGAGTGCCACGGAGTTGT
Found at i:333685 original size:55 final size:55
Alignment explanation
Indices: 333253--333684 Score: 564
Period size: 55 Copynumber: 7.8 Consensus size: 55
333243 TGCCACTAAC
* ** * * * **
333253 TTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTAGAAGGGAATGCCACCGCC
1 TTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTTA-AAGGG--TGCCACGGAG
* * * * * * *
333312 TTGAGGACTTAAAAAAGGTGCCACGAAGTTGTGAACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
* *
333367 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAG
* *
333423 TTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAG
333479 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
*
333533 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTACCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAG
* **
333588 TTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
*
333642 TTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
333685 AGGTCACAGT
Statistics
Matches: 337, Mismatches: 32, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
54 82 0.24
55 137 0.41
56 82 0.24
57 5 0.01
58 23 0.07
59 8 0.02
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (55 bp):
TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
Found at i:341006 original size:2 final size:2
Alignment explanation
Indices: 340999--341029 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
340989 GATTTTCAAA
*
340999 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
341030 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:341419 original size:15 final size:16
Alignment explanation
Indices: 341399--341431 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
341389 ATTTCATATT
*
341399 TTTTCTTT-TTTTTTC
1 TTTTCTTTCTTTCTTC
341414 TTTTCTTTCTTTCTTC
1 TTTTCTTTCTTTCTTC
341430 TT
1 TT
341432 CATCTTCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTCTTC
Found at i:341859 original size:15 final size:16
Alignment explanation
Indices: 341823--341863 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
341813 TCCACTTTGA
*
341823 TTTTTTATTTTGAAAGC
1 TTTTTT-TTCTGAAAGC
341840 TTTTTTTTCTGAAAGC
1 TTTTTTTTCTGAAAGC
341856 TTTTTTTT
1 TTTTTTTT
341864 TCAACCCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.66
Consensus pattern (16 bp):
TTTTTTTTCTGAAAGC
Found at i:343064 original size:21 final size:21
Alignment explanation
Indices: 343040--343081 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
343030 CCTTCCAGTT
343040 GTTGATGATGATATTCCTGTC
1 GTTGATGATGATATTCCTGTC
343061 GTTGATGATGATATTCCTGTC
1 GTTGATGATGATATTCCTGTC
343082 ACTTATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (21 bp):
GTTGATGATGATATTCCTGTC
Found at i:344776 original size:27 final size:27
Alignment explanation
Indices: 344739--344840 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
344729 AAAAGCCACC
*
344739 CTTTGTGTTTGTCAACAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
*
344766 CTTTGTATTTGTCAAAAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
* *
344793 CTTTTTGTTTGTCAAAAATTGTGG---
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
*
344817 C-TTGTTGTTTGTCAAAATTGGTGG
1 CTTTG-TGTTTGTCAAAAATGGTGG
344841 CTAATTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.03
24 18 0.27
27 46 0.70
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.46
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGGTGGTTA
Found at i:344829 original size:24 final size:24
Alignment explanation
Indices: 344773--344842 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
344763 TTACTTTGTA
* *
344773 TTTGTCAAAAATGGTGGTTACTTTTTG
1 TTTGTCAAAAATTGTGG---CTTGTTG
344800 TTTGTCAAAAATTGTGGCTTGTTG
1 TTTGTCAAAAATTGTGGCTTGTTG
344824 TTTGTC-AAAATTGGTGGCT
1 TTTGTCAAAAATT-GTGGCT
344843 AATTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.15
24 18 0.45
27 16 0.40
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATTGTGGCTTGTTG
Found at i:345753 original size:21 final size:22
Alignment explanation
Indices: 345729--345775 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
345719 AATTTTTTTT
345729 AATATTA-ATTAAAATAATAA-A
1 AATATTATATTAAAATAA-AATA
345750 AATA-TATATTAAAATAAAATA
1 AATATTATATTAAAATAAAATA
345771 AATAT
1 AATAT
345776 AAGCTAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATTATATTAAAATAAAATA
Found at i:345776 original size:21 final size:21
Alignment explanation
Indices: 345736--345776 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
345726 TTTAATATTA
345736 ATTAAAATAATAAAAATATAT
1 ATTAAAATAATAAAAATATAT
345757 ATTAAAATAA-AATAAATATA
1 ATTAAAATAATAA-AAATATA
345777 AGCTAACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAAATAATAAAAATATAT
Found at i:347609 original size:27 final size:30
Alignment explanation
Indices: 347555--347614 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 30
347545 ATTAAATATA
347555 TTAAAAATATAATAATATAATAAAAATTTAT
1 TTAAAAATATAATAATAT-ATAAAAATTTAT
*
347586 TTAAAAAT-TAATAAT-T-TAATAATTTAT
1 TTAAAAATATAATAATATATAAAAATTTAT
347613 TT
1 TT
347615 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.43
29 1 0.04
30 7 0.25
31 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTAAAAATATAATAATATATAAAAATTTAT
Found at i:347655 original size:19 final size:19
Alignment explanation
Indices: 347624--347680 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
347614 TTTTAAAAAT
347624 AAATATTAAATT-ATATAA
1 AAATATTAAATTAATATAA
*
347642 AAATGATTACATTAATAT-A
1 AAAT-ATTAAATTAATATAA
* *
347661 AAATA-AAAAATAATATAA
1 AAATATTAAATTAATATAA
347679 AA
1 AA
347681 TAAATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 8 0.25
18 8 0.25
19 12 0.38
20 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATATTAAATTAATATAA
Found at i:347661 original size:20 final size:18
Alignment explanation
Indices: 347624--347663 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
347614 TTTTAAAAAT
347624 AAATATTAAATTATATAA
1 AAATATTAAATTATATAA
*
347642 AAATGATTACATTAATATAA
1 AAAT-ATTAAATT-ATATAA
347662 AA
1 AA
347664 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATTAAATTATATAA
Found at i:347746 original size:16 final size:16
Alignment explanation
Indices: 347724--347820 Score: 124
Period size: 16 Copynumber: 6.1 Consensus size: 16
347714 CTCAAACCTG
*
347724 AATAAATTCAAATTTA
1 AATAAATTTAAATTTA
* *
347740 AAAAAATTTAAATTCA
1 AATAAATTTAAATTTA
*
347756 AGTAAATTTAAATTTA
1 AATAAATTTAAATTTA
347772 AA-AAATTTAAATTTA
1 AATAAATTTAAATTTA
*
347787 AATAAATTTAAATCTA
1 AATAAATTTAAATTTA
* *
347803 AATAAATTAAAATCTA
1 AATAAATTTAAATTTA
347819 AA
1 AA
347821 CTTACCCAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
15 15 0.21
16 56 0.79
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (16 bp):
AATAAATTTAAATTTA
Found at i:347752 original size:6 final size:6
Alignment explanation
Indices: 347726--347805 Score: 52
Period size: 6 Copynumber: 14.8 Consensus size: 6
347716 CAAACCTGAA
* * * *
347726 TAAATT CAAATT TAAA-- AAAATT TAAA-T TCAAGT -AAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
347770 TAAA-- -AAATT TAAATT TAAA-- TAAATT TAAATC TAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAAT
347806 AAATTAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 7 0.12
6 40 0.70
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:347778 original size:31 final size:31
Alignment explanation
Indices: 347724--347815 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 31
347714 CTCAAACCTG
*
347724 AATAAATTCAAATTTAAAAAAATTTAAATTCA
1 AATAAATTTAAATTT-AAAAAATTTAAATTCA
* *
347756 AGTAAATTTAAATTTAAAAAATTTAAATTTA
1 AATAAATTTAAATTTAAAAAATTTAAATTCA
* *
347787 AATAAATTTAAATCTAAATAAATTAAAAT
1 AATAAATTTAAATTTAAA-AAATTTAAAT
347816 CTAAACTTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 31 0.58
32 22 0.42
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (31 bp):
AATAAATTTAAATTTAAAAAATTTAAATTCA
Found at i:347809 original size:47 final size:47
Alignment explanation
Indices: 347727--347820 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
347717 AAACCTGAAT
* * *
347727 AAATTCAAATTTAAAAAAATTTAAATTCAAGTAAATTTAAATTTAAA
1 AAATTCAAATTTAAAAAAATTTAAATTCAAATAAATTAAAATCTAAA
* *
347774 AAATTTAAATTTAAATAAATTTAAA-TCTAAATAAATTAAAATCTAAA
1 AAATTCAAATTTAAAAAAATTTAAATTC-AAATAAATTAAAATCTAAA
347821 CTTACCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
46 2 0.05
47 39 0.95
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (47 bp):
AAATTCAAATTTAAAAAAATTTAAATTCAAATAAATTAAAATCTAAA
Found at i:349321 original size:14 final size:14
Alignment explanation
Indices: 349302--349329 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
349292 ACATTAGTGC
349302 ATATGTATATATAT
1 ATATGTATATATAT
349316 ATATGTATATATAT
1 ATATGTATATATAT
349330 TAAGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATGTATATATAT
Found at i:353173 original size:34 final size:34
Alignment explanation
Indices: 353087--353185 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
353077 GTAAAAACCA
* *
353087 CCATTTAATCAACAATGGCAA-CCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCC-ACCAAATCAC
*
353121 CCATTTAGTCAACAATGGTAAGCCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCCACCAAATCAC
**
353155 CCATTTAATCAACAATGGTAAGTTACCAAAT
1 CCATTTAATCAACAATGGTAAGCCACCAAAT
353186 TTTCATTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 56 0.97
35 2 0.03
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCCACCAAATCAC
Found at i:357665 original size:34 final size:34
Alignment explanation
Indices: 357621--357731 Score: 109
Period size: 34 Copynumber: 3.3 Consensus size: 34
357611 AAAAACCACA
*
357621 ATTTAATCAATAATGGCAA-CCTACCAAATCTCTC
1 ATTTAATCAATAATGGCAAGCC-ACCAAATCACTC
* *
357655 ATTTAGTCAATAATGGTAAGCCACCAAATCACTC
1 ATTTAATCAATAATGGCAAGCCACCAAATCACTC
* * * ** **
357689 ATTTAATTAACAATGGTAAGTTACCAAATTTCT-
1 ATTTAATCAATAATGGCAAGCCACCAAATCACTC
357722 ATTTAATCAA
1 ATTTAATCAA
357732 CAATAACGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
33 9 0.14
34 54 0.83
35 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (34 bp):
ATTTAATCAATAATGGCAAGCCACCAAATCACTC
Found at i:360979 original size:4 final size:4
Alignment explanation
Indices: 360970--360999 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
360960 TTAAAATATT
360970 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
361000 TAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:363597 original size:20 final size:20
Alignment explanation
Indices: 363568--363618 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
363558 TATAAAATGA
363568 ATTT-AATTTAGATGTTTTAT
1 ATTTAAATTTA-ATGTTTTAT
*
363588 -TTTAAATTTAATTTTTTAT
1 ATTTAAATTTAATGTTTTAT
363607 ATTTAAATTTAA
1 ATTTAAATTTAA
363619 ATTGAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTAAATTTAATGTTTTAT
Found at i:363661 original size:21 final size:20
Alignment explanation
Indices: 363636--363676 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
363626 TTTTTAATTT
363636 TATTAAAATAATAAAAATAAA
1 TATTAAAATAA-AAAAATAAA
363657 TATTAAAATAAAAAAATAAA
1 TATTAAAATAAAAAAATAAA
363677 AAAATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TATTAAAATAAAAAAATAAA
Found at i:363684 original size:8 final size:8
Alignment explanation
Indices: 363661--363685 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
363651 AATAAATATT
363661 AAAATAAA
1 AAAATAAA
363669 AAAATAAA
1 AAAATAAA
363677 AAAATAAA
1 AAAATAAA
363685 A
1 A
363686 CTCAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:363684 original size:21 final size:21
Alignment explanation
Indices: 363639--363685 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
363629 TTAATTTTAT
* *
363639 TAAAATAATAAAAATAAATAT
1 TAAAATAATAAAAATAAAAAA
363660 TAAAATAA-AAAAATAAAAAAA
1 TAAAATAATAAAAAT-AAAAAA
363681 TAAAA
1 TAAAA
363686 CTCAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAATAATAAAAATAAAAAA
Found at i:364831 original size:18 final size:19
Alignment explanation
Indices: 364804--364839 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
364794 GTGTTAGTTT
*
364804 TTTTATAAATTAA-TAAAA
1 TTTTAAAAATTAAGTAAAA
364822 TTTTAAAAATTAAGTAAA
1 TTTTAAAAATTAAGTAAA
364840 TAATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTTAAAAATTAAGTAAAA
Found at i:365115 original size:109 final size:111
Alignment explanation
Indices: 364848--365144 Score: 335
Period size: 109 Copynumber: 2.6 Consensus size: 111
364838 AATAATAATA
*
364848 TATTATTATTATTTT-AT-AATAAAAAATAATATTTAATT-AATTTTAAAAAATTTTACATTAAT
1 TATTATTATT-TTTTAATAAATAAAAAATAATATTTAATTAAATTTT-AAAAA-TTTACATTAAC
*
364910 AAATTAAAATATTAATTATTTTTTAAAATAAAAAATTAAATTAAAAAGGGTTTAT
63 AAATTAAAATATTAATTATTTTTT--AAT---AAA-TAAATTAAAAAGGATTTAT
*
364965 TATTATTA-TTTTTAATAAAATTAAAAATAATATTTAATTAAATTTTAAAAA-TTACATTAACAA
1 TATTATTATTTTTTAAT-AAATAAAAAATAATATTTAATTAAATTTTAAAAATTTACATTAACAA
* *
365028 ATTAAAATATTAATTATATATTTT-AT-AA-AAA-TAAAAAGTATTTTT
65 ATTAAAATATTAATTAT-T-TTTTAATAAATAAATTAAAAAGGATTTAT
* *
365073 TATTATTATTTTTTAATAAGATAAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAAC-
1 TATTATTATTTTTTAATAA-ATAAAAAATAATATTTAATTAAATTT-TAAAAATTTACATTAACA
365137 AATTAAAA
64 AATTAAAA
365145 AATAACATTT
Statistics
Matches: 162, Mismatches: 8, Indels: 27
0.82 0.04 0.14
Matches are distributed among these distances:
108 21 0.13
109 35 0.22
110 13 0.08
111 12 0.07
115 6 0.04
116 31 0.19
117 9 0.06
118 29 0.18
119 6 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (111 bp):
TATTATTATTTTTTAATAAATAAAAAATAATATTTAATTAAATTTTAAAAATTTACATTAACAAA
TTAAAATATTAATTATTTTTTAATAAATAAATTAAAAAGGATTTAT
Found at i:365142 original size:22 final size:21
Alignment explanation
Indices: 365105--365179 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
365095 AAAAAATGAT
*
365105 ATTTA-ATTAAATTTAAAAAA
1 ATTTACATTAAAATTAAAAAA
365125 ATTTACATTAACAATT-AAAAA
1 ATTTACATTAA-AATTAAAAAA
*
365146 A-TAACATTTAAGGAATTAAAAAA
1 ATTTACA-TTAA--AATTAAAAAA
365169 ATTTATCATTA
1 ATTTA-CATTA
365180 TTCAAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 9 0.20
21 15 0.34
22 7 0.16
23 6 0.14
24 5 0.11
25 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (21 bp):
ATTTACATTAAAATTAAAAAA
Found at i:365596 original size:122 final size:122
Alignment explanation
Indices: 365440--365798 Score: 448
Period size: 123 Copynumber: 2.9 Consensus size: 122
365430 AAAAAATATT
* *
365440 ATTATAATAAAAAACTTTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTT
1 ATTATAATAAAAAAC-CTTTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTT
*
365505 TAATTTGTTAATGTAAATTTTTAAACTAAATTAAATATTATTTTTTATTTTATTAAAA
65 TAATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAA
*
365563 ATTATAATAAAAATCCTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATT
1 ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTA-TTTT-TAAAAACATAATAATTAATATT
* *
365627 TTAATTTGTTAATGT-AATTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAA
64 TTAATTTGTTAATGTAAATTTTT-AAACTTAATTAAATATTATTTTTTATTTTATTAAAA
* * *
365686 A-AATAAT--AAACCCTTTTTATTTTTATTTAAATTTTTTTATTATT--AAA-A-AATAATTAAT
1 ATTATAATAAAAAACCTTTTTA-TTTTA---AAA-TTTTTTATTTTTAAAAACATAATAATTAAT
* * *
365744 ATTTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAAATACTATTTTTTATT
61 ATTTTAATTTGTTAATGTAAA-TT-TTTAAACTTAATTAAATATTATTTTTTATT
365799 AAAAATAATA
Statistics
Matches: 211, Mismatches: 13, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
119 9 0.04
120 29 0.14
121 10 0.05
122 58 0.27
123 74 0.35
124 24 0.11
125 7 0.03
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (122 bp):
ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTT
AATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAA
Found at i:370097 original size:69 final size:69
Alignment explanation
Indices: 369951--370181 Score: 335
Period size: 69 Copynumber: 3.4 Consensus size: 69
369941 ATGTACGACG
* * *
369951 CATGCATTAGTCTAATCTTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATA
1 CATGCATTAGTCTAATCCTTGCAGTCTTTCTTTCTTCATAT-AAAAAGAATCTGATTCTCAGATA
370016 TAATT
65 TAATT
* * * *
370021 CATGCATTAGTCTAATCTTTGCAGTCTTTCTTTCTTCTTATGAAAAGAATCTGGTTCTCAGATAT
1 CATGCATTAGTCTAATCCTTGCAGTCTTTCTTTCTTCATATAAAAAGAATCTGATTCTCAGATAT
370086 AATT
66 AATT
* * *
370090 TATGCATTAATCTAATCCTTGCAGTCTTT-TTTC-T-ATA-AAAAAGAATCCGATTCTCAGATAT
1 CATGCATTAGTCTAATCCTTGCAGTCTTTCTTTCTTCATATAAAAAGAATCTGATTCTCAGATAT
370151 AATT
66 AATT
370155 CATGCATTAGTCTAATCCTTGCAGTCT
1 CATGCATTAGTCTAATCCTTGCAGTCT
370182 GACATTTACA
Statistics
Matches: 148, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
65 50 0.34
66 2 0.01
67 1 0.01
68 4 0.03
69 52 0.35
70 39 0.26
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (69 bp):
CATGCATTAGTCTAATCCTTGCAGTCTTTCTTTCTTCATATAAAAAGAATCTGATTCTCAGATAT
AATT
Found at i:370277 original size:94 final size:92
Alignment explanation
Indices: 370116--370604 Score: 635
Period size: 87 Copynumber: 5.4 Consensus size: 92
370106 CCTTGCAGTC
*
370116 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
*
370181 TGACATTTACAATCAATCAGTTTTTCTTT
66 TGACATTTACAATCAATCA-ATTTTC-TT
*
370210 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTC
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
*
370275 TGACATTTACAATCAATC-A----GTT
66 TGACATTTACAATCAATCAATTTTCTT
370297 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
* *
370362 TGAAATTTACAATCAATTAA----CTT
66 TGACATTTACAATCAATCAATTTTCTT
* * * * * *
370385 TTTTTTTTATAAAAAAAAATCTGATTCTCAGCTATAATTCATGTA-TAGTTTAATCCTTGCAGCC
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
* * *
370449 TAACATTTACAAACAGTCAACTTTTC-T
66 TGACATTTACAATCAATCAA-TTTTCTT
* * * * *
370476 TTTTTTCTATAAAAAAGAAT-TGATTATCAAATATAATTCATGTATTAGTTTAATCCTTGCAGTT
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
370540 TGACATTTACAATCAATCAACTTTTC-T
66 TGACATTTACAATCAATCAA-TTTTCTT
* * * *
370567 TTTTTTCCATAAAAAAGAATCCGATTTTAAGATATAAT
1 TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAAT
370605 CACATTTATT
Statistics
Matches: 353, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
87 114 0.32
88 44 0.12
90 21 0.06
91 79 0.22
92 14 0.04
94 81 0.23
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (92 bp):
TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
TGACATTTACAATCAATCAATTTTCTT
Found at i:371212 original size:58 final size:57
Alignment explanation
Indices: 371150--371325 Score: 146
Period size: 58 Copynumber: 3.1 Consensus size: 57
371140 ATTATTATTT
*
371150 TTAATAAAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATA
1 TTAATAAAAAATAATATTTAATTAAATTTAAA-AAATTTATATTAACAAATTAAAATA
* * ** ** * **
371208 TTAATTATAAAA-AAT-TTTAAATAAAAATAAAAAAGGTTTATTATT-ATTATTTTTAATA
1 TTAA-TAAAAAATAATATTTAATTAAATTTAAAAAA--TTTA-TATTAACAAATTAAAATA
* * * *
371266 -AAATTAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAAT-
1 TTAATAAAAAATAATATTTAATTAAATTTAAAAAATTTATATTAACAAATTAAAATA
371321 TTAAT
1 TTAAT
371326 TATTATGTTT
Statistics
Matches: 86, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
55 3 0.03
56 21 0.24
57 17 0.20
58 35 0.41
59 10 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (57 bp):
TTAATAAAAAATAATATTTAATTAAATTTAAAAAATTTATATTAACAAATTAAAATA
Found at i:371498 original size:123 final size:125
Alignment explanation
Indices: 371231--371504 Score: 439
Period size: 124 Copynumber: 2.2 Consensus size: 125
371221 ATTTTAAATA
* * *
371231 AAAATAAAAAAGGTTTATTATTATTATTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAA
1 AAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAA
371296 AAAAATTACATTAACAAATTAAAATTTAATTATTATGTTTTTATAAAAATAAAAAATTTT
66 AAAAATTACATTAACAAATTAAAATTTAATTATTATGTTTTTATAAAAATAAAAAATTTT
*
371356 AAAAT-AAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTT-A
1 AAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAA
* *
371419 AAAATTTACATTAACAAATTAAAATATTCATTATTATG-TTTT-TAAAAATAAAAAATTTT
66 AAAAATTACATTAACAAATTAAAAT-TTAATTATTATGTTTTTATAAAAATAAAAAATTTT
* *
371478 AAATTAAAAAAAGTTTTTTATTATAAT
1 AAAATAAAAAAGGTTTTTTATTATAAT
371505 AATATTTTTT
Statistics
Matches: 139, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
122 21 0.15
123 49 0.35
124 64 0.46
125 5 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (125 bp):
AAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAA
AAAAATTACATTAACAAATTAAAATTTAATTATTATGTTTTTATAAAAATAAAAAATTTT
Found at i:371781 original size:23 final size:23
Alignment explanation
Indices: 371731--371809 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
371721 GAATAGAAGG
* *
371731 TTTTTTT-ATTTGAATAATGATAAT
1 TTTTTTTAATTTG-TTAATG-TAAA
*
371755 TTTTTTTAATTCT-TTAAATGT-TA
1 TTTTTTTAATT-TGTT-AATGTAAA
371778 TTTTTTTAATTTGTTAATGTAAA
1 TTTTTTTAATTTGTTAATGTAAA
371801 TTTTTTTAA
1 TTTTTTTAA
371810 ATTTAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.13
23 23 0.50
24 9 0.20
25 7 0.15
26 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (23 bp):
TTTTTTTAATTTGTTAATGTAAA
Found at i:371870 original size:33 final size:31
Alignment explanation
Indices: 371827--371898 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
371817 TAAATATCAT
371827 TTTTTA-TTTTATTAAAAA-ATAATAATAAATA
1 TTTTTATTTTTA-TAAAAACAT-ATAATAAATA
*
371858 CTTTTTATTTTTATAAAAACATATAATTAATA
1 -TTTTTATTTTTATAAAAACATATAATAAATA
371890 TTTTTATTT
1 TTTTTATTT
371899 GTTAATGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.24
32 21 0.57
33 7 0.19
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTTATTTTTATAAAAACATATAATAAATA
Found at i:371925 original size:108 final size:114
Alignment explanation
Indices: 371780--372057 Score: 349
Period size: 108 Copynumber: 2.4 Consensus size: 114
371770 AAATGTTATT
* * *
371780 TTTTTAATTTGTTAATGTAAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATT-AAAA
1 TTTTT-ATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAA
371844 -AATAATAATAAA-TACTT-TTT-A-TTTTTA-TAAAAACATATAATTAATA
65 TAATAATAATAAACTACTTCTTTAATTTTTTATTAAAAA-A-ATAATTAATA
371890 TTTTTATTTGTTAATGT-AATTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAT
1 TTTTTATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAT
** *
371954 AATAATAATAAACCCTTTTTGCTTTAATTTTTTATTTTAAAAAATAATTAATA
66 AATAATAATAAA--CTACTT-CTTTAATTTTTTA-TTAAAAAAATAATTAATA
* *
372007 TTTTAATTTATTAATGTAAAATTTTTTAAAA-TTAATTAAATATTATTTTTA
1 TTTTTATTTGTTAATGT-AAATTTTTTAAAATTTAATTAAATATTATTTTTA
372058 TTATAAAATA
Statistics
Matches: 147, Mismatches: 8, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
108 38 0.26
109 16 0.11
110 17 0.12
113 3 0.02
115 3 0.02
116 1 0.01
117 31 0.21
118 21 0.14
119 17 0.12
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (114 bp):
TTTTTATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAT
AATAATAATAAACTACTTCTTTAATTTTTTATTAAAAAAATAATTAATA
Found at i:372833 original size:15 final size:17
Alignment explanation
Indices: 372813--372846 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
372803 AAAATTTTTA
372813 AAATATA-T-AAATATT
1 AAATATATTAAAATATT
372828 AAATATATTAAAATATT
1 AAATATATTAAAATATT
372845 AA
1 AA
372847 CACTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATTAAAATATT
Found at i:372912 original size:18 final size:19
Alignment explanation
Indices: 372891--372926 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
372881 AAATTAATCA
372891 TAAAATAATA-TTTAAAAT
1 TAAAATAATATTTTAAAAT
*
372909 TAAAATTATATTTTAAAA
1 TAAAATAATATTTTAAAA
372927 ATATTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAATAATATTTTAAAAT
Found at i:375789 original size:20 final size:20
Alignment explanation
Indices: 375755--375800 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
375745 AAGAATTGAA
*
375755 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
375775 GAGGGATACTTGAGATGGAG
1 GAGGGATACAAGAGAAGGAG
375795 GAGGGA
1 GAGGGA
375801 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:380360 original size:20 final size:20
Alignment explanation
Indices: 380326--380371 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
380316 AAGAATTGAA
*
380326 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
380346 GAGGGATACTTGAGATGGAG
1 GAGGGATACAAGAGAAGGAG
380366 GAGGGA
1 GAGGGA
380372 ACCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:380510 original size:27 final size:28
Alignment explanation
Indices: 380449--380518 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
380439 AAACAAGCCT
*
380449 CCATATTTGACAAATCCAAAGAAAACCA
1 CCATTTTTGACAAATCCAAAGAAAACCA
*
380477 CCATTTTTGACAAA-CACAAA-ATAACCA
1 CCATTTTTGACAAATC-CAAAGAAAACCA
380504 CCATTTTTGACAAAT
1 CCATTTTTGACAAAT
380519 AAATGAGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (28 bp):
CCATTTTTGACAAATCCAAAGAAAACCA
Found at i:386431 original size:21 final size:22
Alignment explanation
Indices: 386402--386447 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
386392 TGTTCAGACA
**
386402 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAGCAGGTGG
*
386424 AGTA-TACTCCAAATCAGGTGG
1 AGTAGTACTCCAAAGCAGGTGG
386445 AGT
1 AGT
386448 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAGCAGGTGG
Found at i:388364 original size:27 final size:27
Alignment explanation
Indices: 388333--388405 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
388323 AGCCACCATT
*
388333 TGTTTGTCAAAAATGGTGGTTACTTTA
1 TGTTTGTAAAAAATGGTGGTTACTTTA
* * *
388360 TGTTTTTAAAAAATGGTGGTTTCTTTT
1 TGTTTGTAAAAAATGGTGGTTACTTTA
* * *
388387 TATTTGTTAAAAATAGTGG
1 TGTTTGTAAAAAATGGTGG
388406 CATATTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.48
Consensus pattern (27 bp):
TGTTTGTAAAAAATGGTGGTTACTTTA
Found at i:388504 original size:13 final size:13
Alignment explanation
Indices: 388486--388512 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
388476 GCTTCCTCTC
388486 CCCTCTCAAGTAT
1 CCCTCTCAAGTAT
388499 CCCTCTCAAGTAT
1 CCCTCTCAAGTAT
388512 C
1 C
388513 TTTTTCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (13 bp):
CCCTCTCAAGTAT
Found at i:389282 original size:19 final size:21
Alignment explanation
Indices: 389237--389280 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
389227 TTATATTTTT
*
389237 AAAATATTTATTAAAATAATA
1 AAAATATATATTAAAATAATA
389258 AAAATATATATTAAAATAA-A
1 AAAATATATATTAAAATAATA
389278 AAA
1 AAA
389281 TAATAGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATATATATTAAAATAATA
Found at i:392361 original size:2 final size:2
Alignment explanation
Indices: 392356--392397 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
392346 TAGTGCACAC
392356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
392398 CAAGCAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.