Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 17 of 335
Found at i:6203455 original size:32 final size:32
Alignment explanation
Indices: 6203419--6203486 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
6203409 TACAGAATGG
6203419 AAGAAAGATAAAAATGATCTTTATGCTGTTTA
1 AAGAAAGATAAAAATGATCTTTATGCTGTTTA
6203451 AAGAAAGATAAAAATGATCTTTATGCTGTTTA
1 AAGAAAGATAAAAATGATCTTTATGCTGTTTA
6203483 AAGA
1 AAGA
6203487 GCGAGGAGCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (32 bp):
AAGAAAGATAAAAATGATCTTTATGCTGTTTA
Found at i:6213513 original size:24 final size:24
Alignment explanation
Indices: 6213481--6213528 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6213471 TCTTTAAGGT
*
6213481 GGCATTAGGTCCATCATGGATGGA
1 GGCATTAGGTCCACCATGGATGGA
6213505 GGCATTAGGTCCACCATGGATGGA
1 GGCATTAGGTCCACCATGGATGGA
6213529 CATTCCTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (24 bp):
GGCATTAGGTCCACCATGGATGGA
Found at i:6218574 original size:29 final size:28
Alignment explanation
Indices: 6218542--6218596 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6218532 CATTTACTAT
6218542 TTATAAAAAAAATTATTATTTTAATTTAA
1 TTATAAAAAAAA-TATTATTTTAATTTAA
* * *
6218571 TTATAAAATATATATTTTTTTAATTT
1 TTATAAAAAAAATATTATTTTAATTT
6218597 TTTAAGCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATAAAAAAAATATTATTTTAATTTAA
Found at i:6219689 original size:22 final size:22
Alignment explanation
Indices: 6219664--6219705 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6219654 TTTTAGTTGT
*
6219664 CCAAAACTTTTAAGGCGCTTGC
1 CCAAAACTTTTAAAGCGCTTGC
6219686 CCAAAACTTTTAAAGCGCTT
1 CCAAAACTTTTAAAGCGCTT
6219706 TCATTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (22 bp):
CCAAAACTTTTAAAGCGCTTGC
Found at i:6233261 original size:17 final size:17
Alignment explanation
Indices: 6233239--6233274 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6233229 GGTTGATACT
6233239 CATATAATAAATTTATG
1 CATATAATAAATTTATG
6233256 CATATAATAAATTTATG
1 CATATAATAAATTTATG
6233273 CA
1 CA
6233275 CCAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (17 bp):
CATATAATAAATTTATG
Found at i:6242644 original size:35 final size:35
Alignment explanation
Indices: 6242589--6242663 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
6242579 GTGTGAGTGC
** *
6242589 GGTCCATAACAAGTGTTGTCCTAAGTCCTTAAAGT
1 GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
* * *
6242624 GGTCCATAACGAGTAATGTCCTAATTCGTAAAAGT
1 GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
6242659 GGTCC
1 GGTCC
6242664 GTAATTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (35 bp):
GGTCCATAACAAGTAATGTCCTAAGTCCTAAAAGT
Found at i:6245377 original size:9 final size:10
Alignment explanation
Indices: 6245359--6245385 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6245349 ATTATAAGAT
6245359 ATTAAAAAAA
1 ATTAAAAAAA
6245369 ATTAAAAAAA
1 ATTAAAAAAA
6245379 ATTAAAA
1 ATTAAAA
6245386 TAACATGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
ATTAAAAAAA
Found at i:6245547 original size:31 final size:28
Alignment explanation
Indices: 6245490--6245550 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 28
6245480 TCAATTTTTT
*
6245490 TTAAAAAAAAAATAAAATAAATATTAAA
1 TTAAAAAAAAAATAAAATAAAGATTAAA
*
6245518 TTAACAAAAAATATAAACATTAAAGATTAAA
1 TTAA-AAAAAAAATAAA-A-TAAAGATTAAA
6245549 TT
1 TT
6245551 TACCATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 11 0.39
30 1 0.04
31 12 0.43
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (28 bp):
TTAAAAAAAAAATAAAATAAAGATTAAA
Found at i:6246341 original size:3 final size:3
Alignment explanation
Indices: 6246333--6246369 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6246323 GCTAGGGTTT
6246333 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
6246370 AGGATGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:6249831 original size:16 final size:15
Alignment explanation
Indices: 6249810--6249842 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
6249800 GTAGCTTTTC
6249810 ATGAATTATAATAATT
1 ATGAATTATAA-AATT
6249826 ATGAATTATAAAATT
1 ATGAATTATAAAATT
6249841 AT
1 AT
6249843 TTCAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATGAATTATAAAATT
Found at i:6254552 original size:18 final size:18
Alignment explanation
Indices: 6254508--6254556 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6254498 CTATTAAATT
* *
6254508 TATA-TTATATATTTTTA
1 TATATTTATGTATTTATA
*
6254525 AATATTTATGTATTTATA
1 TATATTTATGTATTTATA
6254543 TATATTTATG-ATTT
1 TATATTTATGTATTT
6254557 TTTTTTTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TATATTTATGTATTTATA
Found at i:6254774 original size:24 final size:24
Alignment explanation
Indices: 6254735--6254822 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 24
6254725 GATGATAAAT
*
6254735 TAAAAAAA--TTAAAATTGAGTGA
1 TAAAAAAATTTTATAATTGAGTGA
*
6254757 TAAAAAAATTTTATAATTGAATGA
1 TAAAAAAATTTTATAATTGAGTGA
* *
6254781 TGAATTTAAAATATATATATAATTAAGTGA
1 T-AA---AAAA-AT-TTTATAATTGAGTGA
6254811 TAAAAAGAATTT
1 TAAAAA-AATTT
6254823 CCATGGGTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
22 8 0.16
24 13 0.25
25 3 0.06
26 5 0.10
27 1 0.02
28 4 0.08
29 4 0.08
30 13 0.25
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (24 bp):
TAAAAAAATTTTATAATTGAGTGA
Found at i:6276060 original size:31 final size:29
Alignment explanation
Indices: 6276025--6276083 Score: 100
Period size: 31 Copynumber: 2.0 Consensus size: 29
6276015 TCTACAATTG
6276025 AAGTAAAATTATGACCAAAAATTTGTGTTTT
1 AAGTAAAATTATGA-CAAAAA-TTGTGTTTT
6276056 AAGTAAAATTATGACAAAAATTGTGTTT
1 AAGTAAAATTATGACAAAAATTGTGTTT
6276084 GTCAGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.29
30 6 0.21
31 14 0.50
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (29 bp):
AAGTAAAATTATGACAAAAATTGTGTTTT
Found at i:6277238 original size:20 final size:19
Alignment explanation
Indices: 6277215--6277263 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
6277205 CTAATTTGTA
*
6277215 TATATATTTT-AAATTTATTT
1 TATATATTTTGAAA-ATA-TT
*
6277235 TATATTTTTTGAAAATATT
1 TATATATTTTGAAAATATT
6277254 TATATATTTT
1 TATATATTTT
6277264 TTATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 11 0.44
20 11 0.44
21 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATATATTTTGAAAATATT
Found at i:6277258 original size:41 final size:41
Alignment explanation
Indices: 6277213--6277291 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
6277203 TTCTAATTTG
*
6277213 TATATATATTTTA-A-ATTTATTTTATATTTTTTGAAAATATT
1 TATATATATTTTATATATTTATTTGA-ATTTTTT-AAAATATT
* *
6277254 TATATATTTTTTATATATTTCTTTGAATTTTTTAAAAT
1 TATATATATTTTATATATTTATTTGAATTTTTTAAAAT
6277292 TAAGGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 17 0.52
42 8 0.24
43 8 0.24
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (41 bp):
TATATATATTTTATATATTTATTTGAATTTTTTAAAATATT
Found at i:6280536 original size:28 final size:28
Alignment explanation
Indices: 6280491--6280555 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
6280481 ATACTTTTCT
6280491 AATAATTTTAA-TAGTTTTAATATTTTTA
1 AATAATTTTAATTAGTTTTAAT-TTTTTA
* **
6280519 AATAATTTTCATTTTTTTTAATTTTTT-
1 AATAATTTTAATTAGTTTTAATTTTTTA
6280546 AA-AATTTTAA
1 AATAATTTTAA
6280556 AAAATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.22
27 2 0.06
28 15 0.47
29 8 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
AATAATTTTAATTAGTTTTAATTTTTTA
Found at i:6285332 original size:16 final size:17
Alignment explanation
Indices: 6285300--6285337 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6285290 TTTTCTTTTC
*
6285300 TTTTATTTTTTTCTAAA
1 TTTTATTTTATTCTAAA
6285317 TTTTATTTTATT-TAAA
1 TTTTATTTTATTCTAAA
*
6285333 ATTTA
1 TTTTA
6285338 AAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTTTATTCTAAA
Found at i:6285916 original size:3 final size:3
Alignment explanation
Indices: 6285908--6285940 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6285898 AAACCCACTT
6285908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6285941 CATGTCATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6289047 original size:81 final size:80
Alignment explanation
Indices: 6288809--6289105 Score: 424
Period size: 77 Copynumber: 3.7 Consensus size: 80
6288799 GGGAAGGATA
* * * * *
6288809 AAAAATTGTTATTAAGATTATCATTTATTACACTTATCTA--TTTTTTAACTTCAATTGGGGAGG
1 AAAAA-TGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTGGGAAGG
6288872 AAATGACTTTTTATAG
65 AAATGACTTTTTATAG
* *
6288888 AAAAATGGTATTAGGATTACCATTTATTACAC-T-TTT-TTTTTTTTAACTTTAATTAGGAAGGA
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTGGGAAGGA
6288950 AATGACTTTTTATAG
66 AATGACTTTTTATAG
*
6288965 AAAAATATTATTAGGATTACCATTTATTACACTTATTTATTTATTTTTAACTTTAATTGGGAAGG
1 AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTT-TTTTTAACTTTAATTGGGAAGG
*
6289030 AAATTACTTTTTATAG
65 AAATGACTTTTTATAG
*
6289046 AAAAATGTTATTAGGATTACCATTTATTACACCTTTTTTATTTATTTTCTAACTTTAATT
1 AAAAATGTTATTAGGATTACCATTTATTACA-CTTATTTATTT-TTTT-TAACTTTAATT
6289106 TACTTTTTTT
Statistics
Matches: 197, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
76 2 0.01
77 67 0.34
78 25 0.13
79 8 0.04
80 3 0.02
81 66 0.34
82 15 0.08
83 11 0.06
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (80 bp):
AAAAATGTTATTAGGATTACCATTTATTACACTTATTTATTTTTTTTAACTTTAATTGGGAAGGA
AATGACTTTTTATAG
Found at i:6292260 original size:52 final size:52
Alignment explanation
Indices: 6292182--6292296 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
6292172 ATGCTTACGT
* *
6292182 CTATCAAAGCTCTATTGCGTTACAATGAATCAAACATA-CTGTTATTATTTCA
1 CTATCAAAGCTCTATTACATTACAATGAATCAAACA-AGCTGTTATTATTTCA
6292234 CTATC-AAGACTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
1 CTATCAAAG-CTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
*
6292286 CTGTCAAAGCT
1 CTATCAAAGCT
6292297 TAATGTATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
51 4 0.07
52 50 0.88
53 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.35
Consensus pattern (52 bp):
CTATCAAAGCTCTATTACATTACAATGAATCAAACAAGCTGTTATTATTTCA
Found at i:6292875 original size:2 final size:2
Alignment explanation
Indices: 6292868--6292903 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6292858 AATGTTAGAA
6292868 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
6292904 TAGCTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6295444 original size:6 final size:6
Alignment explanation
Indices: 6295433--6295472 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
6295423 AGAAAAGAGT
6295433 GTAGTC GTAGTC GTAGTC GTAGTC GTAGTC GTAGTC GTAG
1 GTAGTC GTAGTC GTAGTC GTAGTC GTAGTC GTAGTC GTAG
6295473 GCCTCACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (6 bp):
GTAGTC
Found at i:6295855 original size:11 final size:11
Alignment explanation
Indices: 6295834--6295866 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6295824 TTCAATCCTT
6295834 TCAAA-TTCTC
1 TCAAATTTCTC
6295844 TCAAATTTCTC
1 TCAAATTTCTC
*
6295855 TCAAATTCCTC
1 TCAAATTTCTC
6295866 T
1 T
6295867 TAAAGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAAATTTCTC
Found at i:6295875 original size:22 final size:21
Alignment explanation
Indices: 6295834--6295875 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6295824 TTCAATCCTT
*
6295834 TCAAATTCTCTCAAATTTCTC
1 TCAAATTCTCTCAAAGTTCTC
*
6295855 TCAAATTCCTCTTAAAGTTCT
1 TCAAATT-CTCTCAAAGTTCT
6295876 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (21 bp):
TCAAATTCTCTCAAAGTTCTC
Found at i:6304643 original size:2 final size:2
Alignment explanation
Indices: 6304594--6304627 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6304584 TTTTTGATAA
6304594 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
6304628 CTTTTCATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6305336 original size:78 final size:78
Alignment explanation
Indices: 6305203--6305361 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
6305193 CCATAGGGAA
*
6305203 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTTTCTATACAATCATA
1 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
6305268 CTTTCACCACTGT
66 CTTTCACCACTGT
6305281 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
1 GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
*
6305346 CTTTCACCATTGT
66 CTTTCACCACTGT
6305359 GTA
1 GTA
6305362 GACAAATGGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.33
Consensus pattern (78 bp):
GTAAGACTCTTTTGATCCAAAACTTACCAAACCTCTTTAACCGTAAGACTCTCTATACAATCATA
CTTTCACCACTGT
Found at i:6309975 original size:2 final size:2
Alignment explanation
Indices: 6309932--6309960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6309922 AATAGAAAGA
6309932 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6309961 CTAATTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6311192 original size:15 final size:15
Alignment explanation
Indices: 6311174--6311204 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6311164 ATGAATATTC
*
6311174 TTTTTAAGATTTTTT
1 TTTTTAAAATTTTTT
6311189 TTTTTAAAATTTTTT
1 TTTTTAAAATTTTTT
6311204 T
1 T
6311205 GTTCTACTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTAAAATTTTTT
Found at i:6336945 original size:16 final size:15
Alignment explanation
Indices: 6336903--6336945 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
6336893 CACATTTTTT
*
6336903 GTTTTTGTTTTTACA
1 GTTTTTCTTTTTACA
*
6336918 CTTTTTCATTTTTACAA
1 GTTTTTC-TTTTTAC-A
6336935 GTTTTTCTTTT
1 GTTTTTCTTTT
6336946 CATTTTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (15 bp):
GTTTTTCTTTTTACA
Found at i:6338897 original size:16 final size:16
Alignment explanation
Indices: 6338876--6338911 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6338866 TTACGTGTGA
*
6338876 ATTTTTATATACCAAT
1 ATTTTTATATAACAAT
*
6338892 ATTTTTATTTAACAAT
1 ATTTTTATATAACAAT
6338908 ATTT
1 ATTT
6338912 AACTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTATATAACAAT
Found at i:6347417 original size:32 final size:32
Alignment explanation
Indices: 6347376--6347439 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6347366 CTTAATCTAC
6347376 ATATTCTAAAAAGAGTTATAAGATAGCATAAT
1 ATATTCTAAAAAGAGTTATAAGATAGCATAAT
6347408 ATATTCTAAAAAGAGTTATAAGATAGCATAAT
1 ATATTCTAAAAAGAGTTATAAGATAGCATAAT
6347440 TCTTTCTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (32 bp):
ATATTCTAAAAAGAGTTATAAGATAGCATAAT
Found at i:6348346 original size:30 final size:31
Alignment explanation
Indices: 6348265--6348347 Score: 75
Period size: 33 Copynumber: 2.7 Consensus size: 31
6348255 TTTAATTTAT
*
6348265 TTATAATATAT-TAT-TA-ATTAAATAATCA
1 TTATAATATATATATATATAATAAATAATCA
* * *
6348293 TAATAATTTAATATAAAACTATAAT-AATAATCA
1 TTATAATAT-ATAT-ATA-TATAATAAATAATCA
6348326 TTATAATATATATATATATAAT
1 TTATAATATATATATATATAAT
6348348 TTAATATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
28 7 0.17
29 2 0.05
30 7 0.17
31 3 0.07
32 4 0.10
33 17 0.40
34 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TTATAATATATATATATATAATAAATAATCA
Found at i:6353069 original size:21 final size:21
Alignment explanation
Indices: 6353039--6353083 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6353029 TAAATAATTT
* *
6353039 AAATAATTTTCAATTTTTTAA
1 AAATAATTTTAAATGTTTTAA
*
6353060 AAATACTTTTAAATGTTTTAA
1 AAATAATTTTAAATGTTTTAA
6353081 AAA
1 AAA
6353084 ATATTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATAATTTTAAATGTTTTAA
Found at i:6365962 original size:17 final size:18
Alignment explanation
Indices: 6365932--6365968 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6365922 TACAGTTATA
*
6365932 AATTATAAATTTTTAAAT
1 AATTATAAAATTTTAAAT
6365950 AATT-TAAAATTTTAAAT
1 AATTATAAAATTTTAAAT
6365967 AA
1 AA
6365969 AAATTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTATAAAATTTTAAAT
Found at i:6367102 original size:20 final size:20
Alignment explanation
Indices: 6367074--6367111 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6367064 GACAATTTGT
* *
6367074 TAGATATATTGGTAAATCCA
1 TAGAAATATTAGTAAATCCA
6367094 TAGAAATATTAGTAAATC
1 TAGAAATATTAGTAAATC
6367112 GTCAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (20 bp):
TAGAAATATTAGTAAATCCA
Found at i:6367128 original size:20 final size:20
Alignment explanation
Indices: 6367082--6367150 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
6367072 GTTAGATATA
* *
6367082 TTGGTAAATCCAT-AGAAATA
1 TTGGTAAATCC-TCAAAAATT
* * *
6367102 TTAGTAAATCGTCAAATATT
1 TTGGTAAATCCTCAAAAATT
* *
6367122 TTGGTAATTCCTTAAAAATT
1 TTGGTAAATCCTCAAAAATT
6367142 TTGGTAAAT
1 TTGGTAAAT
6367151 GGTAAATCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (20 bp):
TTGGTAAATCCTCAAAAATT
Found at i:6367153 original size:27 final size:27
Alignment explanation
Indices: 6367123--6367176 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6367113 TCAAATATTT
* *
6367123 TGGTAATTCCTTAAAAATTTTGGTAAA
1 TGGTAAATCATTAAAAATTTTGGTAAA
* *
6367150 TGGTAAATCATTAGATATTTTGGTAAA
1 TGGTAAATCATTAAAAATTTTGGTAAA
6367177 GTTAGAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (27 bp):
TGGTAAATCATTAAAAATTTTGGTAAA
Found at i:6367440 original size:20 final size:20
Alignment explanation
Indices: 6367417--6367461 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6367407 TAAACTATTG
**
6367417 GATATATAGGTAAATTGTTA
1 GATATATAGGTAAATCCTTA
* *
6367437 GATATTTTGGTAAATCCTTA
1 GATATATAGGTAAATCCTTA
6367457 GATAT
1 GATAT
6367462 TTTGATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (20 bp):
GATATATAGGTAAATCCTTA
Found at i:6367589 original size:20 final size:20
Alignment explanation
Indices: 6367566--6367631 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
6367556 AGTAGAAATT
6367566 TTGGTAGATCGTTAGATATA
1 TTGGTAGATCGTTAGATATA
* * *
6367586 TTGGTAAGTTC-TTAAAAATA
1 TTGGT-AGATCGTTAGATATA
* * *
6367606 TTGGTAAACCGTTAGATATT
1 TTGGTAGATCGTTAGATATA
6367626 TTGGTA
1 TTGGTA
6367632 AAGTTGAGGA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.83
21 4 0.11
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (20 bp):
TTGGTAGATCGTTAGATATA
Found at i:6367716 original size:20 final size:20
Alignment explanation
Indices: 6367688--6367771 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
6367678 GAAAATTTGA
6367688 AAATATTGGTAAAATCTTAG
1 AAATATTGGTAAAATCTTAG
* * *
6367708 AAATTTTGGTAAAGTCTTAT
1 AAATATTGGTAAAATCTTAG
*
6367728 AAATATTGGTAAAA-CAATAG
1 AAATATTGGTAAAATC-TTAG
*
6367748 AAATTTTGGT-AAATCCTTAG
1 AAATATTGGTAAAAT-CTTAG
6367768 AAAT
1 AAAT
6367772 CCTGATAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.08
20 47 0.90
21 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (20 bp):
AAATATTGGTAAAATCTTAG
Found at i:6367860 original size:20 final size:20
Alignment explanation
Indices: 6367699--6367862 Score: 61
Period size: 20 Copynumber: 8.2 Consensus size: 20
6367689 AATATTGGTA
*
6367699 AAATC-TTAGAAATTTTGGT
1 AAATCATTAGAAATTTAGGT
*
6367718 AAAGTC-TTATAAATATT-GGT
1 AAA-TCATTAGAAAT-TTAGGT
* * *
6367738 AAAACAATAGAAATTTTGGT
1 AAATCATTAGAAATTTAGGT
* * *
6367758 AAATCCTTAGAAATCCT-GAT
1 AAATCATTAGAAAT-TTAGGT
** **
6367778 AAATTGTTAGTTATATT-GGT
1 AAATCATTAGAAAT-TTAGGT
* *
6367798 GAAATGA-TAGAAATTTTGGT
1 -AAATCATTAGAAATTTAGGT
* * **
6367818 AACTCATTAGATATTTAAAT
1 AAATCATTAGAAATTTAGGT
* *
6367838 AAATCTTTAGAAATTTCGGT
1 AAATCATTAGAAATTTAGGT
6367858 AAATC
1 AAATC
6367863 GTTAAATATT
Statistics
Matches: 105, Mismatches: 32, Indels: 15
0.69 0.21 0.10
Matches are distributed among these distances:
19 12 0.11
20 86 0.82
21 7 0.07
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATCATTAGAAATTTAGGT
Found at i:6368036 original size:20 final size:20
Alignment explanation
Indices: 6368013--6368147 Score: 101
Period size: 20 Copynumber: 6.8 Consensus size: 20
6368003 GATAAAATGA
*
6368013 TAGAAATTTTAATAAATCGT
1 TAGAAATTTTGATAAATCGT
* * *
6368033 TAGATATTTTGTTAAATCCT
1 TAGAAATTTTGATAAATCGT
* * * **
6368053 TAGAAATGTTGGTAAAACAA
1 TAGAAATTTTGATAAATCGT
6368073 TAGAAATTTTGATAAATCGT
1 TAGAAATTTTGATAAATCGT
* * *
6368093 TAGATATATTGATAAATAGT
1 TAGAAATTTTGATAAATCGT
** * * *
6368113 TAGATGTATTGGTAAATCCT
1 TAGAAATTTTGATAAATCGT
6368133 TA-AATATTTTGATAA
1 TAGAA-ATTTTGATAA
6368148 GACCATTGAA
Statistics
Matches: 88, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
19 1 0.01
20 87 0.99
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
TAGAAATTTTGATAAATCGT
Found at i:6368147 original size:60 final size:60
Alignment explanation
Indices: 6367997--6368128 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
6367987 AAGTCTCCTG
* ** * * * *
6367997 AATATTGATAAAATGATAGAAATTTTAATAAATCGTTAGATATTTTGTTAAATCCTTAGA
1 AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
* *
6368057 AATGTTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATAGTTAGA
1 AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
**
6368117 TGTATTGGTAAA
1 AATATTGGTAAA
6368129 TCCTTAAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (60 bp):
AATATTGGTAAAACAATAGAAATTTTGATAAATCGTTAGATATATTGATAAATACTTAGA
Found at i:6369713 original size:14 final size:15
Alignment explanation
Indices: 6369684--6369717 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
6369674 CATTTTCATT
6369684 TTCTTCTCCTTATTC
1 TTCTTCTCCTTATTC
6369699 TTCTTCTCC-TATTC
1 TTCTTCTCCTTATTC
6369713 TTCTT
1 TTCTT
6369718 ATTATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCTTCTCCTTATTC
Found at i:6372450 original size:131 final size:132
Alignment explanation
Indices: 6372131--6372651 Score: 622
Period size: 132 Copynumber: 4.0 Consensus size: 132
6372121 TTTAGAGAGT
* *
6372131 ATGAGTGAAATTCTAAAGGAATCTTCGATCATTTTG-GACAAAC-AGGAAATCGCAACCCAGCAC
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAG-CAAACGA-GAAATCGCAACCCAGCAC
* * * * * ** * * *
6372194 GATAGGGCACAATTCC-CTGAATTGCCATACATCGAATATTACCCTCGTTTTGAAGAGTTTTTAG
64 GTTAGGGCACGATTCCGC-GAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAG
*
6372258 AAAAC
128 AAGAC
* * *
6372263 ATAAGTGAAATTCAAAAGGGACCTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
* *
6372328 TAGGGCATGATTCCGCGAATTGCTAAATATCGAACATCGCCTTCG-TTTAAAGAATTTTTA-AAG
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAA-
6372391 GAC
130 GAC
* * * * * *
6372394 ATGGGTGAAATTCTAAAGGGACCTTCAATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
* * *
6372459 TAGGGCACGATTCCGCGAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAG
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAG
6372524 AC
131 AC
* * ** * * * *
6372526 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGATAAATTGCAACCTAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
* *
6372591 TAGGGCACGATTTCGCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTCGTTTTAAAGAATTTTTA
6372652 AACGAATAAT
Statistics
Matches: 335, Mismatches: 47, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
130 2 0.01
131 112 0.33
132 217 0.65
133 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAGGGACCTTCGATCATTTTGAGCAAACGAGAAATCGCAACCCAGCACGT
TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAG
AC
Found at i:6372610 original size:263 final size:264
Alignment explanation
Indices: 6372135--6372653 Score: 663
Period size: 263 Copynumber: 2.0 Consensus size: 264
6372125 GAGAGTATGA
* * * *
6372135 GTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACAGGAAATCGCAACCCAGCACGATAGG
1 GTGAAATTCTAAAGGAACCTTCAATCACTTTGGACAAACAGGAAATCGCAACCCAACACGATAGG
* * *
6372200 GCACAATTCCCTGAATTGCCATACATCGAATATTACCCTCGTTTTGAAGAGTTTTTAGAAAACAT
66 GCACAATTCCCTGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAGTTTTTAGAAAACAT
*
6372265 AAGTGAAATTCAAAAGGGACCTTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
131 AAGTGAAATTCAAAAGGGACATTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
* * *
6372330 GGGCATGATTCCGCGAATTGCTAAATATCGAA-CATCGCCTTCG-TTTAAAGAATTTTTAAAGGA
196 GGGCACGATTCCGCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAGGA
6372393 CATGG
260 CATGG
* * * *
6372398 GTGAAATTCTAAAGGGACCTTCAATTACTTT-GAGCAAAC-GAGAAATTGCAACCCAACACGTTA
1 GTGAAATTCTAAAGGAACCTTCAATCACTTTGGA-CAAACAG-GAAATCGCAACCCAACACGATA
* * * * * *
6372461 GGGCACGATTCCGC-GAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAG-GATTTTTAGAAG
64 GGGCACAATTCC-CTGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAG-TTTTTAGAAA
* *** * * * * * *
6372524 ACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGATAAATTGCAACCTAGCAC
127 ACATAAGTGAAATTCAAAAGGGACATTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCAC
*
6372589 GTTAGGGCACGATTTCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
192 GTTAGGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
6372654 CGAATAATTA
Statistics
Matches: 218, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
262 4 0.02
263 195 0.89
264 19 0.09
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (264 bp):
GTGAAATTCTAAAGGAACCTTCAATCACTTTGGACAAACAGGAAATCGCAACCCAACACGATAGG
GCACAATTCCCTGAATTGCCAAACATCGAATATCACCCTCGTTTTAAAGAGTTTTTAGAAAACAT
AAGTGAAATTCAAAAGGGACATTCGATCATTTTGAACAAACGAGAAATCGCAACCCAGCACGTTA
GGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAGGAC
ATGG
Found at i:6390639 original size:13 final size:13
Alignment explanation
Indices: 6390621--6390645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6390611 AATAACTGTT
6390621 TTTGGTTATATTA
1 TTTGGTTATATTA
6390634 TTTGGTTATATT
1 TTTGGTTATATT
6390646 TATGAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGGTTATATTA
Found at i:6399020 original size:15 final size:15
Alignment explanation
Indices: 6399000--6399030 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6398990 CATCTTGGCA
6399000 TAAGTTTTACTGGTT
1 TAAGTTTTACTGGTT
6399015 TAAGTTTTACTGGTT
1 TAAGTTTTACTGGTT
6399030 T
1 T
6399031 GCAAGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (15 bp):
TAAGTTTTACTGGTT
Found at i:6400054 original size:8 final size:8
Alignment explanation
Indices: 6400041--6400067 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6400031 CCCCCTCGAC
6400041 AAAAAAAT
1 AAAAAAAT
6400049 AAAAAAAT
1 AAAAAAAT
6400057 AAAAAAAT
1 AAAAAAAT
6400065 AAA
1 AAA
6400068 GCGTTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:6403687 original size:15 final size:15
Alignment explanation
Indices: 6403669--6403698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6403659 CTCCTTACTA
*
6403669 TTACAATTCACCACC
1 TTACAAGTCACCACC
6403684 TTACAAGTCACCACC
1 TTACAAGTCACCACC
6403699 GCCGCCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.40, G:0.03, T:0.23
Consensus pattern (15 bp):
TTACAAGTCACCACC
Found at i:6403815 original size:48 final size:48
Alignment explanation
Indices: 6403763--6404338 Score: 319
Period size: 48 Copynumber: 11.9 Consensus size: 48
6403753 ACCTCCTCCT
* * *
6403763 TACTATTACAAATCACCACCACCCCCTTCACCTAGTCCCCCACCATCA
1 TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTCCCCCACCATCA
* * * * * *
6403811 TACTACTACAACTCACCACCTCCACCATCTCCT--TCACCACCTCC-TCCT
1 TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTC-CC-CCACCAT-CA
* * *
6403859 TACTACTACAAATCACCACCACCACCC-TCACCTAGTCCCCCACCACCA
1 TACTACTACAAGTCACCACCTCC-CCCTTCACCTAGTCCCCCACCATCA
* * * * *
6403907 TACTACTACAAGTCACCACCTCCACCATCTCCT--TCACCACC-CCCTCCT
1 TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTC-CC-CCACCAT-CA
* * * *
6403955 TACTATTACAAGTCTCCACC-CCCACCCTCACCTAGTCCCCCACCACCA
1 TACTACTACAAGTCACCACCTCCC-CCTTCACCTAGTCCCCCACCATCA
* * * * * *
6404003 TACTACTACAAGTCACCACCTGCACCATCTCCT--TCACCACCTCC-TCCT
1 TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTC-CC-CCACCAT-CA
* * * *
6404051 TACTATTACAAGTCTCCACC-CCCGCCCTCACCTAGTCCCCCACCACCA
1 TACTACTACAAGTCACCACCTCCC-CCTTCACCTAGTCCCCCACCATCA
* * * *
6404099 TACTACTACAAGTCACCACCTCCACCGTCTC-CCTCA--CCACCTCC-TCCT
1 TACTACTACAAGTCACCACCTCC-CCCT-TCACCT-AGTCCCCCACCAT-CA
* * *
6404147 TACTACTACAAATCACCACCACCACCC-TCACCTAGTCCCCCACCACCA
1 TACTACTACAAGTCACCACCTCC-CCCTTCACCTAGTCCCCCACCATCA
* * * * * *
6404195 TACTACTACAAGTCACCACCTCCACCATCCCCCTCA--CCACCTCC-TCCT
1 TACTACTACAAGTCACCACCTCC-CCCTTCACCT-AGTCCCCCACCAT-CA
* * * * * *
6404243 TACTACTACAAATCACCATCACCACCTTCACCTAGTCCTCCACCACCA
1 TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTCCCCCACCATCA
* * * *
6404291 TACTACTACAAGTCTCCAGTACCTCCACCATCTCCTAGTCCCCCACCA
1 TACTACTACAAGTCACC---ACCTCCCCCTTCACCTAGTCCCCCACCA
6404339 CCATCTCCCT
Statistics
Matches: 397, Mismatches: 90, Indels: 79
0.70 0.16 0.14
Matches are distributed among these distances:
46 10 0.03
47 23 0.06
48 309 0.78
49 21 0.05
50 11 0.03
51 23 0.06
ACGTcount: A:0.26, C:0.51, G:0.03, T:0.21
Consensus pattern (48 bp):
TACTACTACAAGTCACCACCTCCCCCTTCACCTAGTCCCCCACCATCA
Found at i:6403879 original size:96 final size:95
Alignment explanation
Indices: 6403749--6404326 Score: 886
Period size: 96 Copynumber: 6.0 Consensus size: 95
6403739 TCTCCACCTC
* *
6403749 CACCACCTCCTCCTTACTATTACAAATCACCACCACCCCCTTCACCTAGTCCCCCACCATCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACCCCC-TCACCTAGTCCCCCACCACCATAC
*
6403814 TACTACAACTCACCACCTCCACCATCTCCTT
65 TACTACAAGTCACCACCTCCACCATCTCCTT
6403845 CACCACCTCCTCCTTACTACTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCTCACCTAGTCCCCCACCACCATAC
6403910 TACTACAAGTCACCACCTCCACCATCTCCTT
65 TACTACAAGTCACCACCTCCACCATCTCCTT
* * * * *
6403941 CACCACCCCCTCCTTACTATTACAAGTCTCCACCCCCACCCTCACCTAGTCCCCCACCACCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCTCACCTAGTCCCCCACCACCATAC
*
6404006 TACTACAAGTCACCACCTGCACCATCTCCTT
65 TACTACAAGTCACCACCTCCACCATCTCCTT
* * * *
6404037 CACCACCTCCTCCTTACTATTACAAGTCTCCACCCCCGCCCTCACCTAGTCCCCCACCACCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCTCACCTAGTCCCCCACCACCATAC
* *
6404102 TACTACAAGTCACCACCTCCACCGTCTCCCT
65 TACTACAAGTCACCACCTCCACCATCTCCTT
6404133 CACCACCTCCTCCTTACTACTACAAATCACCACCACCACCCTCACCTAGTCCCCCACCACCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCTCACCTAGTCCCCCACCACCATAC
* *
6404198 TACTACAAGTCACCACCTCCACCATCCCCCT
65 TACTACAAGTCACCACCTCCACCATCTCCTT
* * *
6404229 CACCACCTCCTCCTTACTACTACAAATCACCATCACCACCTTCACCTAGTCCTCCACCACCATAC
1 CACCACCTCCTCCTTACTACTACAAATCACCACCACC-CCCTCACCTAGTCCCCCACCACCATAC
*
6404294 TACTACAAGTCTCCAGTACCTCCACCATCTCCT
65 TACTACAAGTCACC---ACCTCCACCATCTCCT
6404327 AGTCCCCCAC
Statistics
Matches: 451, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
96 434 0.96
97 3 0.01
99 14 0.03
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (95 bp):
CACCACCTCCTCCTTACTACTACAAATCACCACCACCCCCTCACCTAGTCCCCCACCACCATACT
ACTACAAGTCACCACCTCCACCATCTCCTT
Found at i:6404442 original size:48 final size:48
Alignment explanation
Indices: 6404333--6404463 Score: 138
Period size: 48 Copynumber: 2.7 Consensus size: 48
6404323 TCCTAGTCCC
* * * * * *
6404333 CCACCACCATCTCCCTCACCACCACCTCCATACTACTACAAATCTCCT
1 CCACCTCCATCTCCATCACCCCCACCTCCTTACTACTACAAATCACCA
* * *
6404381 CC-TCTACCGTCTCCATCACCCCCTCCTCCTTACTACTACAAATCACCA
1 CCACCT-CCATCTCCATCACCCCCACCTCCTTACTACTACAAATCACCA
* * *
6404429 CCACCTCCTTCTCCATCACCCCCGCCACCTTACTA
1 CCACCTCCATCTCCATCACCCCCACCTCCTTACTA
6404464 TTATAAGTCA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.01
48 65 0.96
49 2 0.03
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.23
Consensus pattern (48 bp):
CCACCTCCATCTCCATCACCCCCACCTCCTTACTACTACAAATCACCA
Found at i:6406248 original size:30 final size:31
Alignment explanation
Indices: 6406192--6406249 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6406182 ATTATTTATT
6406192 TATTTGAAAGTTTTAATTTAAGTCATTGAAC
1 TATTTGAAAGTTTTAATTTAAGTCATTGAAC
* * *
6406223 TATTTTAACGTTTTTATTT-AGTCATTG
1 TATTTGAAAGTTTTAATTTAAGTCATTG
6406250 GGTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (31 bp):
TATTTGAAAGTTTTAATTTAAGTCATTGAAC
Found at i:6413051 original size:11 final size:11
Alignment explanation
Indices: 6413035--6413061 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6413025 TTTACCTCAC
6413035 GTTACATTTTA
1 GTTACATTTTA
6413046 GTTACATTTTA
1 GTTACATTTTA
6413057 GTTAC
1 GTTAC
6413062 TTATGTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (11 bp):
GTTACATTTTA
Found at i:6416063 original size:5 final size:5
Alignment explanation
Indices: 6416053--6416083 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6416043 ATTGAAATAC
6416053 ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
6416084 ACGTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:6420973 original size:18 final size:18
Alignment explanation
Indices: 6420950--6420987 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6420940 AAATTGAACA
*
6420950 AATGCCCGCAAACCGGTT
1 AATGCCCGCAAACCGATT
6420968 AATGCCCGCAAACCGATT
1 AATGCCCGCAAACCGATT
6420986 AA
1 AA
6420988 ACCCAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (18 bp):
AATGCCCGCAAACCGATT
Found at i:6423117 original size:42 final size:42
Alignment explanation
Indices: 6423058--6423169 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 42
6423048 CGTTTCCTCG
* *
6423058 ATGCCATAGTCCAACTATGGTCTTACACATCTTCACATAATA
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
* * *
6423100 ATGCCATAGCCCAACTATGATCTTACATATATTCACATATTA
1 ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
* * *
6423142 ATGCCATAACCCAGCTATAGTCTTACAC
1 ATGCCATAGCCCAACTATGGTCTTACAC
6423170 GTAATCATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATTCACATAATA
Found at i:6423179 original size:50 final size:49
Alignment explanation
Indices: 6423132--6423315 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 49
6423122 TTACATATAT
** * * *
6423132 TCACATATTAATGCCATAACCCAGCTATAGTCTTACACGTAATCATAT-A
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATAA
* * * *
6423181 TCACGTATTGATGCCATAGCCCAGCTATCGTCTTATACGAGATCACATAA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATAA
* * * *
6423231 TCATATACCGATGCCATAGCTCAGCTATGGTCTTACATAGAATCACATAA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACA-CGAATCACATAA
6423281 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
6423316 TACACATAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 40 0.35
50 72 0.63
51 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAA
Found at i:6426911 original size:31 final size:32
Alignment explanation
Indices: 6426871--6426930 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
6426861 TTAATTTTCG
6426871 ATATCTCATTTGTAACCTTTTTACTTATTATC
1 ATATCTCATTTGTAACCTTTTTACTTATTATC
6426903 ATAT-TCATTTGTAACCTTTTTACTTATT
1 ATATCTCATTTGTAACCTTTTTACTTATT
6426931 TCACAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.55
Consensus pattern (32 bp):
ATATCTCATTTGTAACCTTTTTACTTATTATC
Found at i:6429258 original size:21 final size:21
Alignment explanation
Indices: 6429234--6429301 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6429224 ACTCATATGA
* *
6429234 GTTTTAGTTCAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
* * *
6429255 GTTTCAGTTTAGCTCTTTTGA
1 GTTTCAGTTTAACCCTTTTGG
* *
6429276 GCTTCAGTTTAACCCTTATGG
1 GTTTCAGTTTAACCCTTTTGG
6429297 GTTTC
1 GTTTC
6429302 CGTTCAGCTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:6429344 original size:21 final size:21
Alignment explanation
Indices: 6429282--6429345 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
6429272 TTGAGCTTCA
*
6429282 GTTTAACCCTTATGGGTTTCC
1 GTTTAACCCTTAAGGGTTTCC
* * * *
6429303 GTTCAGCTCC-TAAGAGCTTCC
1 GTTTAAC-CCTTAAGGGTTTCC
*
6429324 GTTTAACCCTTACGGGTTTCC
1 GTTTAACCCTTAAGGGTTTCC
6429345 G
1 G
6429346 ATTAGCACTT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (21 bp):
GTTTAACCCTTAAGGGTTTCC
Found at i:6429364 original size:42 final size:41
Alignment explanation
Indices: 6429229--6429364 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 41
6429219 AGTCAACTCA
* * * * *
6429229 TATGAGTTTTAGTTCAACCCTTTTGGGTTTCAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCG-TTAGCTCT
* *
6429271 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTT-AGCTCT
* * * *
6429313 TAAGAGCTTCCGTTTAACCCTTACGGGTTTCCGATTAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCG-TTAGCTCT
*
6429355 TATGTGCTTC
1 TATGAGCTTC
6429365 TGTGTAGCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.03
42 73 0.95
43 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (41 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTAGCTCT
Found at i:6430878 original size:30 final size:30
Alignment explanation
Indices: 6430842--6430901 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6430832 TTCCCGAGCC
6430842 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
6430872 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
6430902 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:6431374 original size:47 final size:47
Alignment explanation
Indices: 6431323--6431499 Score: 220
Period size: 47 Copynumber: 3.8 Consensus size: 47
6431313 TGGTTGAACA
*
6431323 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
6431370 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
6431417 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
6431463 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6431500 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.04
45 1 0.01
46 38 0.34
47 58 0.52
48 3 0.03
50 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:6443709 original size:29 final size:29
Alignment explanation
Indices: 6443664--6443720 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
6443654 AAATTTTAAT
6443664 TTTAAAAAATATAAAAATTATTCTAAAAG
1 TTTAAAAAATATAAAAATTATTCTAAAAG
* *
6443693 TTTAAAAATTA-ATAAAATTATTTTAAAA
1 TTTAAAAAATATA-AAAATTATTCTAAAA
6443721 AAATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TTTAAAAAATATAAAAATTATTCTAAAAG
Found at i:6448598 original size:19 final size:19
Alignment explanation
Indices: 6448553--6448607 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
6448543 TTAAACATGG
* *
6448553 TATAATTTTAAATTA-TGT
1 TATAATTTTAAAATATTTT
6448571 TAT--TTTTAAAATATTTT
1 TATAATTTTAAAATATTTT
*
6448588 TATAATTTTAAAGTATTTT
1 TATAATTTTAAAATATTTT
6448607 T
1 T
6448608 TAACGTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 3 0.10
19 14 0.45
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TATAATTTTAAAATATTTT
Found at i:6458425 original size:16 final size:16
Alignment explanation
Indices: 6458404--6458469 Score: 132
Period size: 16 Copynumber: 4.1 Consensus size: 16
6458394 TAAATTGAAT
6458404 GAAATTTTCAATTTAA
1 GAAATTTTCAATTTAA
6458420 GAAATTTTCAATTTAA
1 GAAATTTTCAATTTAA
6458436 GAAATTTTCAATTTAA
1 GAAATTTTCAATTTAA
6458452 GAAATTTTCAATTTAA
1 GAAATTTTCAATTTAA
6458468 GA
1 GA
6458470 TTGGGTGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (16 bp):
GAAATTTTCAATTTAA
Found at i:6458995 original size:46 final size:46
Alignment explanation
Indices: 6458948--6459221 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
6458938 GCTCTCTGAT
* * *
6458948 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
6458994 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
6459040 ATGAAATGATTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * * *
6459086 GGGAAATGAATAAGACCATGGTTGAAAGATATCATTGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
6459132 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
6459178 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
6459222 TCAAAGATAA
Statistics
Matches: 200, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 199 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:6459523 original size:16 final size:17
Alignment explanation
Indices: 6459502--6459534 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6459492 ATGATGGAGC
6459502 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
6459518 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
6459535 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:6462338 original size:46 final size:44
Alignment explanation
Indices: 6462234--6462341 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6462224 TGTCTTTGAC
** * * *
6462234 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6462278 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6462324 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6462342 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6469249 original size:46 final size:44
Alignment explanation
Indices: 6469145--6469252 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6469135 TGTCTTTGAC
** * * *
6469145 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6469189 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6469235 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6469253 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6470486 original size:14 final size:14
Alignment explanation
Indices: 6470467--6470494 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6470457 TGGTGAGTTC
6470467 CCTTTAATTCTTTT
1 CCTTTAATTCTTTT
6470481 CCTTTAATTCTTTT
1 CCTTTAATTCTTTT
6470495 GGGCCCATTT
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:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
CCTTTAATTCTTTT
Found at i:6470730 original size:51 final size:51
Alignment explanation
Indices: 6470656--6470867 Score: 343
Period size: 51 Copynumber: 4.2 Consensus size: 51
6470646 CTGATCACAT
6470656 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * * * *
6470707 TTATTACTTGTCATTGATAAGATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
6470758 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
6470809 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
6470860 TTGTCACT
1 TTATCACT
6470868 GATCAGAAGT
Statistics
Matches: 147, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 147 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:6470770 original size:102 final size:102
Alignment explanation
Indices: 6470653--6470867 Score: 385
Period size: 102 Copynumber: 2.1 Consensus size: 102
6470643 ACACTGATCA
*
6470653 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATTACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
6470718 CATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
*
6470755 CATTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
*
6470820 CATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
6470857 CACTTGTCACT
1 CATTTATCACT
6470868 GATCAGAAGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 108 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
CATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:6473730 original size:43 final size:43
Alignment explanation
Indices: 6473669--6473755 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
6473659 TCTATTGTAA
6473669 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
1 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
6473712 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
1 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
6473755 A
1 A
6473756 CGTAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (43 bp):
AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
Found at i:6476544 original size:13 final size:13
Alignment explanation
Indices: 6476506--6476547 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
6476496 GGTTGGAGAG
6476506 AAATTATAAAATA
1 AAATTATAAAATA
*
6476519 AAAATA-AAAATA
1 AAATTATAAAATA
*
6476531 AAATTATGAAATA
1 AAATTATAAAATA
6476544 AAAT
1 AAAT
6476548 AGTATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAATTATAAAATA
Found at i:6478016 original size:3 final size:3
Alignment explanation
Indices: 6478008--6478062 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
6477998 TCTAATATAT
* *
6478008 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATC ATG ATC ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
6478056 ATG ATG A
1 ATG ATG A
6478063 AGAAAAGGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:6479280 original size:22 final size:22
Alignment explanation
Indices: 6479224--6479282 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
6479214 TTAAATTTTG
*
6479224 AAATCTA-AAATAAAAAAAAGTT
1 AAATCTATAAA-AAAAAAAAGAT
* *
6479246 AAAT-TACTGAAAATAAAAAGAT
1 AAATCTA-TAAAAAAAAAAAGAT
6479268 AAATCTATAAAAAAA
1 AAATCTATAAAAAAA
6479283 TATAAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (22 bp):
AAATCTATAAAAAAAAAAAGAT
Found at i:6481544 original size:2 final size:2
Alignment explanation
Indices: 6481537--6481566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6481527 ATTGCCACCA
6481537 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
6481567 TAATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6486681 original size:21 final size:21
Alignment explanation
Indices: 6486652--6486692 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6486642 ATCTGCTCAA
* *
6486652 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
*
6486673 ACTCTACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6486693 TCGCTTGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6488493 original size:46 final size:46
Alignment explanation
Indices: 6488443--6488617 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
6488433 TGGTTGAGCA
6488443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
6488489 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6488534 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6488582 CCCGAGCTCGTTGAGTTGAGTCC-AGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6488618 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 15 0.13
46 51 0.46
47 30 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6488599 original size:93 final size:92
Alignment explanation
Indices: 6488440--6488609 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
6488430 GGATGGTTGA
* *
6488440 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6488505 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCC-AGTTCATGAGATGTAACTAG
*
6488533 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6488598 TGAGTCCAGTTC
66 TGAGTCCAGTTC
6488610 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 5 0.07
93 69 0.93
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAGTTCATGAGATGTAACTAG
Found at i:6496047 original size:46 final size:46
Alignment explanation
Indices: 6495997--6496172 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
6495987 TGGTTGAGCA
6495997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6496043 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6496088 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6496136 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6496173 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6496153 original size:93 final size:93
Alignment explanation
Indices: 6495994--6496165 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6495984 GGATGGTTGA
* *
6495994 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6496059 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
6496087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6496152 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6496166 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6502424 original size:2 final size:2
Alignment explanation
Indices: 6502417--6502454 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6502407 ATATGAATAG
6502417 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
6502455 CTTTATCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6507048 original size:15 final size:17
Alignment explanation
Indices: 6507028--6507069 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
6507018 TTTCAATCGC
6507028 TTTGTTTCATTT-T-AT
1 TTTGTTTCATTTCTGAT
*
6507043 TTTGTTTTATTTCTGAT
1 TTTGTTTCATTTCTGAT
*
6507060 TTTTTTTCAT
1 TTTGTTTCAT
6507070 GTTAATTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTGTTTCATTTCTGAT
Found at i:6537089 original size:12 final size:12
Alignment explanation
Indices: 6537072--6537098 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6537062 ATAAAATGAT
6537072 ATTATATTAATA
1 ATTATATTAATA
6537084 ATTATATTAATA
1 ATTATATTAATA
6537096 ATT
1 ATT
6537099 TGTGAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATTAATA
Found at i:6540905 original size:2 final size:2
Alignment explanation
Indices: 6540898--6540929 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
6540888 ATAATATTAG
6540898 AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
6540930 AAAGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6540989 original size:12 final size:11
Alignment explanation
Indices: 6540956--6540985 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
6540946 AATGATATTT
6540956 AAATATATATA
1 AAATATATATA
6540967 ATAATATATATA
1 A-AATATATATA
6540979 AAATATA
1 AAATATA
6540986 ATATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATATATATA
Found at i:6541202 original size:13 final size:14
Alignment explanation
Indices: 6541184--6541214 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
6541174 ATGTACGAAT
6541184 ATATACATATA-TA
1 ATATACATATATTA
6541197 ATATACATATATTA
1 ATATACATATATTA
6541211 ATAT
1 ATAT
6541215 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:6543406 original size:67 final size:68
Alignment explanation
Indices: 6543064--6543383 Score: 538
Period size: 68 Copynumber: 4.7 Consensus size: 68
6543054 TTAAAAACAG
6543064 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
*
6543129 ATGA
65 ACGA
6543133 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
6543198 CGA
66 CGA
6543201 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
6543266 CGA
66 CGA
* * * * *
6543269 AAATTAAAGGCTCAACTCACCTCTCACAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
6543333 CGA
66 CGA
* *
6543336 AAATTAAAGGCTCAACTCA-CTCTCGCAATATGAGTTGAT-ATTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAA
6543384 ATTAAAAAAC
Statistics
Matches: 243, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
66 27 0.11
67 44 0.18
68 167 0.69
69 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (68 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
CGA
Found at i:6543824 original size:137 final size:135
Alignment explanation
Indices: 6543571--6543862 Score: 433
Period size: 137 Copynumber: 2.1 Consensus size: 135
6543561 CTAAAGCTTG
* * ** * *
6543571 ACTCA-CTCTCGTAATATGAGCTGATTTTTTAAACAGTAGGAATTGAAAAGCAGAAATTGAAAGT
1 ACTCACCTCTCGCAATATGAGCTGATTTTTTAAAAAACAGGAATTGAAAAGCAGAAACTGAAAAT
* *
6543635 ACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGGTTGATTTTTTGAAAAACAAAAA
66 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGGTTGATTTTTTGAAAAA-AAAAA
6543700 GGTACA
130 GGTACA
* * *
6543706 ACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAA
1 ACTCACCTCTCGCAATATGAGCTGA-TTTTTTAAAAAACAGGAATTGAAAAGCAGAAACTGAAAA
6543771 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAAAAAA
65 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATG-GTTGATTTTTTGAAAAAAAAA
6543836 AGGTACA
129 AGGTACA
* *
6543843 ACTCACCTTTCGCAAGATGA
1 ACTCACCTCTCGCAATATGA
6543863 ATCAATTTTC
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
135 5 0.04
136 17 0.12
137 102 0.72
138 17 0.12
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (135 bp):
ACTCACCTCTCGCAATATGAGCTGATTTTTTAAAAAACAGGAATTGAAAAGCAGAAACTGAAAAT
ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGGTTGATTTTTTGAAAAAAAAAAG
GTACA
Found at i:6544151 original size:71 final size:71
Alignment explanation
Indices: 6544035--6544168 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
6544025 TAAAAAGCAG
* *
6544035 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
6544100 AAACAT
66 AAACAT
* * *
6544106 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACT-TCTCGCAATATGAGCTGATTTT
6544169 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:6544182 original size:160 final size:156
Alignment explanation
Indices: 6543886--6544259 Score: 651
Period size: 160 Copynumber: 2.4 Consensus size: 156
6543876 ACATAAACTA
* *
6543886 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAACATA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACATA
6543950 AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
66 AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
*
6544015 AAACATGAATTAAAAAGCAGAAATTG
131 AAACATGAACTAAAAAGCAGAAATTG
6544041 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AACAT
*
6544106 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCT
65 AAATT-AAATTACCTCAAC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
*
6544171 TGGAAAACATGAACTAAAAAGTAGAAATTG
127 TGGAAAACATGAACTAAAAAGCAGAAATTG
*
6544201 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
6544260 GAAAAAACAA
Statistics
Matches: 208, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
155 51 0.25
156 5 0.02
157 10 0.05
158 13 0.06
160 129 0.62
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (156 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACATA
AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
AAACATGAACTAAAAAGCAGAAATTG
Found at i:6556492 original size:51 final size:49
Alignment explanation
Indices: 6556437--6556537 Score: 109
Period size: 51 Copynumber: 2.0 Consensus size: 49
6556427 GAATAATATG
6556437 ATATACGAAAATAATAT-TAATATAAA-AGT-ATATATACATACGTATAATAAA
1 ATATACG-AAATAATATATAATA-AAATA-TAATATATACATA-GTAT-ATAAA
* * *
6556488 ATATATGTACTAATATATAATAAAATATAATATATACATAGTATATAAA
1 ATATACGAAATAATATATAATAAAATATAATATATACATAGTATATAAA
6556537 A
1 A
6556538 GAAAATATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
49 6 0.14
50 15 0.34
51 23 0.52
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (49 bp):
ATATACGAAATAATATATAATAAAATATAATATATACATAGTATATAAA
Found at i:6556832 original size:12 final size:11
Alignment explanation
Indices: 6556799--6556828 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
6556789 AATGATATTT
6556799 AAATATATATA
1 AAATATATATA
6556810 ATAATATATATA
1 A-AATATATATA
6556822 AAATATA
1 AAATATA
6556829 ATATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATATATATA
Found at i:6557045 original size:13 final size:14
Alignment explanation
Indices: 6557027--6557057 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
6557017 ATGTACGAAT
6557027 ATATACATATA-TA
1 ATATACATATATTA
6557040 ATATACATATATTA
1 ATATACATATATTA
6557054 ATAT
1 ATAT
6557058 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:6559508 original size:22 final size:23
Alignment explanation
Indices: 6559483--6559530 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
6559473 ACACTATCCA
*
6559483 AATAATAATAA-AAAATAGTAAT
1 AATAATAATAACAAAATAGTAAC
*
6559505 AAT-ATAATAACAAAATTGTAAC
1 AATAATAATAACAAAATAGTAAC
6559527 AATA
1 AATA
6559531 CAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAATAATAACAAAATAGTAAC
Found at i:6559541 original size:22 final size:22
Alignment explanation
Indices: 6559492--6559541 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
6559482 AAATAATAAT
* * *
6559492 AAAAAATAGTAATAATATAATA
1 AAAAAATAGTAACAATACAACA
* *
6559514 ACAAAATTGTAACAATACAACA
1 AAAAAATAGTAACAATACAACA
6559536 AAAAAA
1 AAAAAA
6559542 ATAATAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAAAATAGTAACAATACAACA
Found at i:6562127 original size:59 final size:58
Alignment explanation
Indices: 6561996--6562127 Score: 142
Period size: 59 Copynumber: 2.2 Consensus size: 58
6561986 ATAAATATAT
* * * * * **
6561996 ATTTTTTAATTTTTAGATTTAGTACTAAATTGATAGATTTTGTAAATGTTGATGGCTA
1 ATTTTTTAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGATGGCTA
*
6562054 ATTATTTAACTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGA--GCGTCA
1 ATTTTTTAA-TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGATGGC-T-A
6562113 ATTTTGTTAATTTTT
1 ATTTT-TTAATTTTT
6562128 TTAATATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
57 2 0.03
58 9 0.15
59 46 0.75
60 4 0.07
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (58 bp):
ATTTTTTAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGATGGCTA
Found at i:6565452 original size:21 final size:21
Alignment explanation
Indices: 6565427--6565466 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6565417 AAGATATACT
*
6565427 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
6565448 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
6565467 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:6565549 original size:20 final size:20
Alignment explanation
Indices: 6565521--6565558 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6565511 TAAAAATAAT
*
6565521 AATATACATAATATATACAA
1 AATACACATAATATATACAA
6565541 AATACACATAATATATAC
1 AATACACATAATATATAC
6565559 GTATATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (20 bp):
AATACACATAATATATACAA
Found at i:6565816 original size:18 final size:20
Alignment explanation
Indices: 6565793--6565831 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
6565783 ATACATATAC
*
6565793 ATATATACTAA-AAC-ATGT
1 ATATATAATAATAACAATGT
6565811 ATATATAATAATAACAATGT
1 ATATATAATAATAACAATGT
6565831 A
1 A
6565832 AAAATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATATAATAATAACAATGT
Found at i:6581787 original size:53 final size:51
Alignment explanation
Indices: 6581660--6581871 Score: 154
Period size: 52 Copynumber: 4.3 Consensus size: 51
6581650 TGCACATAGT
* * ** * *
6581660 CACATATCACA-CAC-C-GAAGCCATAGCCCCGCCATGGTCTTACACGGAT
1 CACATATCACATCACACAGAAACCATAGCCCAGATATGGTCTTATACGGAA
* * *
6581708 CACATAT--CAT-AC-C-G-AGCCATATCCCAGATATGGTCCTATACGGAA
1 CACATATCACATCACACAGAAACCATAGCCCAGATATGGTCTTATACGGAA
* *
6581753 TCACATTATCACATCACACCGAAACCATAGCCCAGTTATGGTCTTATACGAGAA
1 -CACA-TATCACATCACACAGAAACCATAGCCCAGATATGGTCTTATACG-GAA
* * ** ** * *
6581807 CACGTATCACGTTGCACAGATGCCATAGCCCAGCTATGGTCTTATACGGGAG
1 CACATATCACATCACACAGAAACCATAGCCCAGATATGGTCTTATAC-GGAA
6581859 CACATATCACATC
1 CACATATCACATC
6581872 TTTTACGTCA
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
45 24 0.18
46 10 0.08
47 3 0.02
48 7 0.05
49 3 0.02
50 2 0.02
51 1 0.01
52 49 0.38
53 28 0.22
54 3 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (51 bp):
CACATATCACATCACACAGAAACCATAGCCCAGATATGGTCTTATACGGAA
Found at i:6598082 original size:24 final size:23
Alignment explanation
Indices: 6598054--6598104 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
6598044 AATGGAGTCC
*
6598054 ATCG-ACAAAACTTATTAGTCACTT
1 ATCGAACAAAACTT-TCAG-CACTT
*
6598078 ATCGAATAAAACTTTCAGCACTT
1 ATCGAACAAAACTTTCAGCACTT
6598101 ATCG
1 ATCG
6598105 GTTAGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 7 0.29
25 8 0.33
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (23 bp):
ATCGAACAAAACTTTCAGCACTT
Found at i:6601223 original size:30 final size:30
Alignment explanation
Indices: 6601187--6601245 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
6601177 TGGTAAGAGT
6601187 AAAACTTTGCAATTCACATAAAATATGAAC
1 AAAACTTTGCAATTCACATAAAATATGAAC
6601217 AAAACTTTGCAATTCACATAAAATATGAA
1 AAAACTTTGCAATTCACATAAAATATGAA
6601246 AATAGGGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (30 bp):
AAAACTTTGCAATTCACATAAAATATGAAC
Found at i:6618480 original size:53 final size:53
Alignment explanation
Indices: 6618413--6618563 Score: 207
Period size: 53 Copynumber: 2.8 Consensus size: 53
6618403 ACAAGTGTGC
*
6618413 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGA-AATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGT-ATAATGTGATAATGTGACT
* *
6618466 CCGTATAAGACCATAGCTGGGCTATGGCATTGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6618519 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6618564 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 2 0.02
53 79 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:6625471 original size:53 final size:53
Alignment explanation
Indices: 6625330--6625480 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
6625320 ACAAGTGTGC
* **
6625330 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
6625383 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6625436 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6625481 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:6636407 original size:2 final size:2
Alignment explanation
Indices: 6636400--6636434 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6636390 ACATGCTTAC
6636400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6636435 AAGAAAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6636746 original size:18 final size:18
Alignment explanation
Indices: 6636719--6636753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6636709 AAATAGATAT
*
6636719 ATATAGTTACATGTATAG
1 ATATAGTTACATATATAG
*
6636737 ATATATTTACATATATA
1 ATATAGTTACATATATA
6636754 AATGAAAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
ATATAGTTACATATATAG
Found at i:6638865 original size:18 final size:19
Alignment explanation
Indices: 6638816--6638865 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
6638806 TATAATATAA
6638816 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
6638836 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
6638856 TTATTTAATA
1 TTATTTAATA
6638866 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:6641125 original size:25 final size:25
Alignment explanation
Indices: 6641097--6641337 Score: 136
Period size: 25 Copynumber: 9.8 Consensus size: 25
6641087 CGACACTTGC
* *
6641097 CTCTCATGAGCTTCCCGTTATTTAG
1 CTCTCATGAGCTTCCCGATATTTGG
* * * *
6641122 CTCTTATGAGCATCCTGATATATGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6641147 CTCTAATGAGCTTTCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-TTGG
*
6641172 CTCT-ACGGAGCTTCCCGATA-TTGG
1 CTCTCA-TGAGCTTCCCGATATTTGG
* * *
6641196 CTCGCATGAGCTTTCC-AAATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6641220 CTCTCTTGAGCTTCCCCAT-TATGG
1 CTCTCATGAGCTTCCCGATATTTGG
*
6641244 CTCGT-ATGAGCTTCCCGATAATTGG
1 CTC-TCATGAGCTTCCCGATATTTGG
* ** * **
6641269 CTCACAAAAGCTTCCCGTTACATGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6641294 CT-TACATGAGCTTCCCGTTATATAG
1 CTCT-CATGAGCTTCCCGATATTTGG
** *
6641319 CTCGAAAGAGCTTCCCGAT
1 CTCTCATGAGCTTCCCGAT
6641338 TACATGCTCG
Statistics
Matches: 164, Mismatches: 41, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
23 2 0.01
24 52 0.32
25 110 0.67
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTGG
Found at i:6641281 original size:73 final size:73
Alignment explanation
Indices: 6641144--6641281 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 73
6641134 TCCTGATATA
* * * **
6641144 TGGCTCTAATGAGCTTTCCGATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCGCATGAGCTT
1 TGGCTCTAATGAGCTTCCCCATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCACAAAAGCTT
6641209 TCCAAATT
66 TCCAAATT
** *
6641217 TGGCTCTCTTGAGCTTCCCCATT-ATGGCTCGTA-TGAGCTTCCCGATAATTGGCTCACAAAAGC
1 TGGCTCTAATGAGCTTCCCCATTAATGGCTC-TACGGAGCTTCCCGAT-ATTGGCTCACAAAAGC
6641280 TT
64 TT
6641282 CCCGTTACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 19 0.35
73 36 0.65
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (73 bp):
TGGCTCTAATGAGCTTCCCCATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCACAAAAGCTT
TCCAAATT
Found at i:6643494 original size:21 final size:21
Alignment explanation
Indices: 6643470--6643512 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6643460 AATTGCTTTT
6643470 ATTTATTTT-TAAAATTTTAAA
1 ATTT-TTTTATAAAATTTTAAA
* *
6643491 ATTTTTTTATCACATTTTAAA
1 ATTTTTTTATAAAATTTTAAA
6643512 A
1 A
6643513 ATAATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTTATAAAATTTTAAA
Found at i:6651442 original size:16 final size:17
Alignment explanation
Indices: 6651421--6651455 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6651411 AATTTATCTT
6651421 AAAATAAAA-ATAATTA
1 AAAATAAAAGATAATTA
*
6651437 AAAATAAAAGATATTTA
1 AAAATAAAAGATAATTA
6651454 AA
1 AA
6651456 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATAAAAGATAATTA
Found at i:6660136 original size:22 final size:24
Alignment explanation
Indices: 6660097--6660145 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
6660087 CAAATAAATT
6660097 TTACTTCTTTTTTATTAC-AG-TA
1 TTACTTCTTTTTTATTACTAGTTA
*
6660119 TTAC-TCTTTCTTTTTTACTAGTTA
1 TTACTTCTTT-TTTATTACTAGTTA
6660143 TTA
1 TTA
6660146 TTTATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 2 0.09
24 5 0.22
ACGTcount: A:0.20, C:0.14, G:0.04, T:0.61
Consensus pattern (24 bp):
TTACTTCTTTTTTATTACTAGTTA
Found at i:6671620 original size:20 final size:21
Alignment explanation
Indices: 6671582--6671623 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
6671572 TAACAATTAC
6671582 AAATAATATTTAATTATATTT
1 AAATAATATTTAATTATATTT
6671603 AAATAA-ATTT-ATTAATATTT
1 AAATAATATTTAATT-ATATTT
6671623 A
1 A
6671624 TTTTTAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATATTTAATTATATTT
Found at i:6683873 original size:2 final size:2
Alignment explanation
Indices: 6683866--6683892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6683856 CATGGTAATA
6683866 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6683893 CAGTTATATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6686661 original size:7 final size:7
Alignment explanation
Indices: 6686644--6686676 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6686634 GTAGCAGGAT
6686644 AAAAATAA
1 AAAAAT-A
6686652 AAAAATA
1 AAAAATA
6686659 AAAAAT-
1 AAAAATA
6686665 AAAAATA
1 AAAAATA
6686672 AAAAA
1 AAAAA
6686677 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Done.