Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 138 of 230
Found at i:40553231 original size:25 final size:25
Alignment explanation
Indices: 40553211--40553274 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
40553201 TTGTATCCTT
40553211 ACACGAGCTGTGAATCGGTATGCTC
1 ACACGAGCTGTGAATCGGTATGCTC
* * * *
40553236 CCACCAGTTGTAAATCGGTATGCTC
1 ACACGAGCTGTGAATCGGTATGCTC
40553261 ACACGAGCTGTGAA
1 ACACGAGCTGTGAA
40553275 AATGGGCCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (25 bp):
ACACGAGCTGTGAATCGGTATGCTC
Found at i:40554621 original size:24 final size:24
Alignment explanation
Indices: 40554585--40554630 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
40554575 GGGTGAGCCA
*
40554585 ACGTGAAATTTGATACACATCGAC
1 ACGTGAAAATTGATACACATCGAC
40554609 ACGTGAAAATTGATACACATCG
1 ACGTGAAAATTGATACACATCG
40554631 GTACCATCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ACGTGAAAATTGATACACATCGAC
Found at i:40560177 original size:25 final size:25
Alignment explanation
Indices: 40560144--40560198 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
40560134 ACCAAAATAT
*
40560144 GCCAAAAC-ACAAGCCAAATCAAATG
1 GCCAAAACAACAA-CCAAAACAAATG
* *
40560169 GCCATAACAACAACCAAAACATATG
1 GCCAAAACAACAACCAAAACAAATG
40560194 GCCAA
1 GCCAA
40560199 CATTAGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.51, C:0.29, G:0.11, T:0.09
Consensus pattern (25 bp):
GCCAAAACAACAACCAAAACAAATG
Found at i:40568831 original size:19 final size:22
Alignment explanation
Indices: 40568807--40568850 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
40568797 TCATAAAAAT
40568807 AAAAAAT-A-TTAAAAATAATA
1 AAAAAATCATTTAAAAATAATA
*
40568827 GAAAAATCATTTAAAAATAA-A
1 AAAAAATCATTTAAAAATAATA
40568848 AAA
1 AAA
40568851 TAGAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATCATTTAAAAATAATA
Found at i:40569713 original size:22 final size:22
Alignment explanation
Indices: 40569685--40569734 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
40569675 AATTGATTGT
40569685 TTAAATTCAATT-AGAGACTCAA
1 TTAAATTCAATTGA-AGACTCAA
*
40569707 TTAAATTCGATTGAAGACTCAA
1 TTAAATTCAATTGAAGACTCAA
40569729 TTAAAT
1 TTAAAT
40569735 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (22 bp):
TTAAATTCAATTGAAGACTCAA
Found at i:40574969 original size:91 final size:91
Alignment explanation
Indices: 40574831--40575038 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
40574821 TTGATTTTAG
* *
40574831 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
40574896 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
40574923 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
40574988 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
40575014 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
40575039 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:40575007 original size:26 final size:28
Alignment explanation
Indices: 40574953--40575013 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
40574943 TATTATCAAG
* *
40574953 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
40574981 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
40575007 AATTATA
1 AATTATA
40575014 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:40575013 original size:44 final size:43
Alignment explanation
Indices: 40574871--40575013 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
40574861 GAATTTTATG
* *
40574871 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
40574915 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
40574962 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
40575006 AAATTATA
1 AAATTATA
40575014 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:40575131 original size:59 final size:57
Alignment explanation
Indices: 40575065--40575253 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
40575055 ATTTTATTAA
40575065 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
40575124 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
40575185 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
40575244 ATCATATATT
1 ATCATATATT
40575254 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:40575162 original size:66 final size:64
Alignment explanation
Indices: 40575092--40575290 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
40575082 AAATATATTT
40575092 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
40575157 G
64 G
* * * * * **
40575158 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
40575212 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
40575277 G
64 G
*
40575278 AATATTGATTATT
1 AATATTAATTATT
40575291 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:40575178 original size:120 final size:120
Alignment explanation
Indices: 40575054--40575351 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
40575044 AATTATTTTA
* * *
40575054 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
40575118 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
40575174 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
40575239 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
40575294 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
40575352 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:40575194 original size:61 final size:61
Alignment explanation
Indices: 40575127--40575314 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
40575117 TTATAGTATC
40575127 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
40575188 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
40575246 C
61 T
*
40575247 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
40575308 ATATATT
1 ATATATT
40575315 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:40575214 original size:15 final size:15
Alignment explanation
Indices: 40575179--40575230 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
40575169 TTAAGAATTT
*
40575179 TATTAAATTAT-ATA
1 TATTTAATTATAATA
40575193 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
40575207 TATTTAATAATAAT-
1 TATTTAATTATAATA
40575221 TATGTTAATT
1 TAT-TTAATT
40575231 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:40575323 original size:18 final size:17
Alignment explanation
Indices: 40575295--40575329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
40575285 ATTATTAAGA
*
40575295 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
40575312 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
40575330 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:40575559 original size:44 final size:45
Alignment explanation
Indices: 40575494--40575584 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
40575484 ACCTCTATTC
* * *
40575494 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
40575538 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
40575583 CA
1 CA
40575585 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:40575586 original size:16 final size:16
Alignment explanation
Indices: 40575565--40575633 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
40575555 GATTAGCTAT
40575565 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
40575581 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
40575598 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
40575614 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
40575630 TACA
1 TACA
40575634 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:40575607 original size:33 final size:32
Alignment explanation
Indices: 40575565--40575633 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
40575555 GATTAGCTAT
40575565 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
40575598 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
40575630 TACA
1 TACA
40575634 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:40577169 original size:16 final size:16
Alignment explanation
Indices: 40577133--40577163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40577123 ATATTTTTAT
*
40577133 TTTTTATATAAAAATG
1 TTTTTATAAAAAAATG
40577149 TTTTTATAAAAAAAT
1 TTTTTATAAAAAAAT
40577164 TATTTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTTATAAAAAAATG
Found at i:40578498 original size:13 final size:14
Alignment explanation
Indices: 40578452--40578498 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 14
40578442 ATATTTTAAA
*
40578452 TATTTTAATATAATT
1 TATTTTAAAATAA-T
*
40578467 TAATATTAAAATAAT
1 T-ATTTTAAAATAAT
40578482 TATTTTAAAAT-AT
1 TATTTTAAAATAAT
40578495 TATT
1 TATT
40578499 AAATCATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 6 0.21
14 9 0.32
15 3 0.11
16 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTTAAAATAAT
Found at i:40578522 original size:32 final size:31
Alignment explanation
Indices: 40578486--40578586 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 31
40578476 AATAATTATT
40578486 TTAAAATATTATTAAATCATATATTATTTTTA
1 TTAAAATATTATTAAAT-ATATATTATTTTTA
* *
40578518 TTAAATTA-TATTTAATA-ATATTA---TTA
1 TTAAAATATTATTAAATATATATTATTTTTA
*
40578544 TTAAAAT-TTGATTAAATTATTTATTATTTATTA
1 TTAAAATATT-ATTAAA-TATATATTATTT-TTA
*
40578577 TTAAATTATT
1 TTAAAATATT
40578587 TTTTAATAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
26 10 0.19
27 5 0.09
28 2 0.04
29 11 0.20
30 1 0.02
31 7 0.13
32 7 0.13
33 9 0.17
34 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TTAAAATATTATTAAATATATATTATTTTTA
Found at i:40582658 original size:16 final size:16
Alignment explanation
Indices: 40582637--40582685 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
40582627 TGAATTATTG
*
40582637 ATTACAACTCTATTCC
1 ATTACAACTCTATTAC
*
40582653 ATTACAGCTCTATTAC
1 ATTACAACTCTATTAC
* *
40582669 TTTACAACTCTAGTAC
1 ATTACAACTCTATTAC
40582685 A
1 A
40582686 GCTATATTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTAC
Found at i:40586854 original size:38 final size:38
Alignment explanation
Indices: 40586800--40586876 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
40586790 CTCGGTAACC
40586800 ATCATGGCATTATTGGATATTCATCATTCAATTAAATA
1 ATCATGGCATTATTGGATATTCATCATTCAATTAAATA
* *
40586838 ATCATGGCATTGTTGGATATTCATCATTCAATTATATA
1 ATCATGGCATTATTGGATATTCATCATTCAATTAAATA
40586876 A
1 A
40586877 CAACTAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (38 bp):
ATCATGGCATTATTGGATATTCATCATTCAATTAAATA
Found at i:40604687 original size:50 final size:51
Alignment explanation
Indices: 40604494--40604727 Score: 192
Period size: 50 Copynumber: 4.6 Consensus size: 51
40604484 CGATCTCGTA
* * * *
40604494 TAAGACCATGTTTGGAACATGGCATCGACATC-GATATGTGA-G--CCAGTG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCTGATATGAGAGGTCCCA-TG
* *
40604542 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATA
1 TAAGACCATGTTTGGGACATGGCATTGGCATC--T--GA-TATGAGAGGTCCCATG
* * * * **
40604598 TAAGACCATGTTTGGGATATGGCGTTGGCACCTG-GATGAGAGGTCCCCCG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCTGATATGAGAGGTCCCATG
* ** *
40604648 TAAGACCATGTTTGGGACATGGCATGGGCATC-GATATGAGAACTGCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCTGATATGAGAGGTCCCATG
* * * *
40604698 TAAGACCATATCTAGGATATGGCATTGGCA
1 TAAGACCATGTTTGGGACATGGCATTGGCA
40604728 GTACAGGAAA
Statistics
Matches: 147, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
48 28 0.19
49 1 0.01
50 75 0.51
52 1 0.01
53 2 0.01
54 7 0.05
55 1 0.01
56 29 0.20
57 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (51 bp):
TAAGACCATGTTTGGGACATGGCATTGGCATCTGATATGAGAGGTCCCATG
Found at i:40604720 original size:100 final size:102
Alignment explanation
Indices: 40604541--40604727 Score: 234
Period size: 100 Copynumber: 1.8 Consensus size: 102
40604531 GTGAGCCAGT
* **
40604541 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATATAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATC----AGATTATGAGAACTCCCATATAAGACCA
* * * *
40604606 TGTTTGGGATATGGCGTTGGCACCTGGATGAGAGGTCCCCC
62 TATCTAGGATATGGCATTGGCACCTGGATGAGAGGTCCCCC
* * *
40604647 GTAAGACCATGTTTGGGACATGGCATGGGCATC-GA-TATGAGAACTGCCATGTAAGACCATATC
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCAGATTATGAGAACTCCCATATAAGACCATATC
40604710 TAGGATATGGCATTGGCA
66 TAGGATATGGCATTGGCA
40604728 GTACAGGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 2 0.03
106 31 0.44
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (102 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCAGATTATGAGAACTCCCATATAAGACCATATC
TAGGATATGGCATTGGCACCTGGATGAGAGGTCCCCC
Found at i:40606299 original size:23 final size:23
Alignment explanation
Indices: 40606262--40606312 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
40606252 GGGAGAGAAA
* *
40606262 TGTAATATCCTGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
40606285 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
40606308 AGTAA
1 TGTAA
40606313 GAATGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:40612913 original size:27 final size:27
Alignment explanation
Indices: 40612821--40613043 Score: 124
Period size: 27 Copynumber: 8.3 Consensus size: 27
40612811 ACACGCTAGA
* *
40612821 AAATGGAGGCCTTTGTGACAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * *
40612848 AAATTGAAGCCCTTGTGGAAATCAATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
40612875 AAATGGAAGCCTTTGTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
40612902 AAGTGGAAGCCTTCGTGG-GATCTATGG
1 AAATGGAAGCCTTTGTGGCAATCTAT-G
* *
40612929 AAA-GGAA-CACGTTCGTGGCACAT-TCT-
1 AAATGGAAGC-C-TTTGTGGCA-ATCTATG
*
40612955 AAA-GGAAGGGCC-TTGTGGCAATCATCTG
1 AAATGGAA--GCCTTTGTGGCAATC-TATG
* * *
40612983 AAA-GAAATGCCTTTGTGGTAATTTATG
1 AAATGGAA-GCCTTTGTGGCAATCTATG
* * *
40613010 AAGTGGAAGCCTTCGTGG-GATCTATGG
1 AAATGGAAGCCTTTGTGGCAATCTAT-G
40613037 AAA-GGAA
1 AAATGGAA
40613044 CACGTTCGTG
Statistics
Matches: 152, Mismatches: 30, Indels: 29
0.72 0.14 0.14
Matches are distributed among these distances:
25 3 0.02
26 33 0.22
27 92 0.61
28 21 0.14
29 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:40612947 original size:54 final size:54
Alignment explanation
Indices: 40612889--40613055 Score: 166
Period size: 54 Copynumber: 3.1 Consensus size: 54
40612879 GGAAGCCTTT
40612889 GTGGCAATTTATGAAGTGGAAGCCTTCGTGGGATCTATGGAAAGGAACACGTTC
1 GTGGCAATTTATGAAGTGGAAGCCTTCGTGGGATCTATGGAAAGGAACACGTTC
* * * ** * *
40612943 GTGGCACATTCTA--AA--GGAAGGGCCTT-GTGGCAATC-ATCTGAAAGAAATGCCTTT
1 GTGGCA-ATT-TATGAAGTGGAA--GCCTTCGTGG-GATCTAT-GGAAAGGAACACGTTC
*
40612997 GTGGTAATTTATGAAGTGGAAGCCTTCGTGGGATCTATGGAAAGGAACACGTTC
1 GTGGCAATTTATGAAGTGGAAGCCTTCGTGGGATCTATGGAAAGGAACACGTTC
40613051 GTGGC
1 GTGGC
40613056 GTATTCTAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
52 6 0.07
53 9 0.11
54 55 0.65
55 9 0.11
56 6 0.07
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (54 bp):
GTGGCAATTTATGAAGTGGAAGCCTTCGTGGGATCTATGGAAAGGAACACGTTC
Found at i:40613062 original size:108 final size:108
Alignment explanation
Indices: 40612858--40613107 Score: 405
Period size: 108 Copynumber: 2.3 Consensus size: 108
40612848 AAATTGAAGC
* * *
40612858 CCTTGTGGAAATCA-ATGAAATGGAA-GCCTTTGTGGCAATTTATGAAGTGGAAGCCTTCGTGGG
1 CCTTGTGGCAATCATCTGAAA-GAAATGCCTTTGTGGCAATTTATGAAGTGGAAGCCTTCGTGGG
40612921 ATCTATGGAAAGGAACACGTTCGTGGCACATTCTAAAGGAAGGG
65 ATCTATGGAAAGGAACACGTTCGTGGCACATTCTAAAGGAAGGG
*
40612965 CCTTGTGGCAATCATCTGAAAGAAATGCCTTTGTGGTAATTTATGAAGTGGAAGCCTTCGTGGGA
1 CCTTGTGGCAATCATCTGAAAGAAATGCCTTTGTGGCAATTTATGAAGTGGAAGCCTTCGTGGGA
**
40613030 TCTATGGAAAGGAACACGTTCGTGGCGTATTCTAAAGGAAGGG
66 TCTATGGAAAGGAACACGTTCGTGGCACATTCTAAAGGAAGGG
* *
40613073 CCTTGTGGCAATCATCTGAAGGAAATACCTTTGTG
1 CCTTGTGGCAATCATCTGAAAGAAATGCCTTTGTG
40613108 ACAGACCCTG
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
107 16 0.12
108 117 0.88
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (108 bp):
CCTTGTGGCAATCATCTGAAAGAAATGCCTTTGTGGCAATTTATGAAGTGGAAGCCTTCGTGGGA
TCTATGGAAAGGAACACGTTCGTGGCACATTCTAAAGGAAGGG
Found at i:40613237 original size:53 final size:53
Alignment explanation
Indices: 40613142--40613325 Score: 215
Period size: 53 Copynumber: 3.5 Consensus size: 53
40613132 TAAATACAGA
* * * * *
40613142 AAACACTAAAAGAAGGATATGTATGGCTAATTCTAAAGAATGGCAAGTATAGT
1 AAACTCTAAGAGAATGATATGTATGGCTAACTCTAAAGAATGGTAAGTATAGT
* * * *
40613195 GAACTCTGAGAGAATGATATGCATGGCTAACTCTAAAGAATGGTAAGTACAGT
1 AAACTCTAAGAGAATGATATGTATGGCTAACTCTAAAGAATGGTAAGTATAGT
* * * * * *
40613248 AAACTCTAAAAGAATTATATGTGTGGCTAACTCTAAAAGACTGGTAAGTATGGC
1 AAACTCTAAGAGAATGATATGTATGGCTAACTCT-AAAGAATGGTAAGTATAGT
*
40613302 AAACTCTAAGAGAATGATGTGTAT
1 AAACTCTAAGAGAATGATATGTAT
40613326 AGTGAAATTT
Statistics
Matches: 107, Mismatches: 23, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
53 72 0.67
54 35 0.33
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (53 bp):
AAACTCTAAGAGAATGATATGTATGGCTAACTCTAAAGAATGGTAAGTATAGT
Found at i:40613301 original size:27 final size:27
Alignment explanation
Indices: 40613147--40613317 Score: 118
Period size: 27 Copynumber: 6.4 Consensus size: 27
40613137 ACAGAAAACA
* *
40613147 CTAAAAGAA-GGATATGTATGGCTAATT
1 CTAAAAGAATGG-TAAGTATGGCTAACT
* *
40613174 CT-AAAGAATGGCAAGTATAG-TGAACT
1 CTAAAAGAATGGTAAGTATGGCT-AACT
* * * * *
40613200 CTGAGAGAATGATATGCATGGCTAACT
1 CTAAAAGAATGGTAAGTATGGCTAACT
**
40613227 CT-AAAGAATGGTAAGTACAG-TAAACT
1 CTAAAAGAATGGTAAGTATGGCT-AACT
** * *
40613253 CTAAAAGAATTATATGTGTGGCTAACT
1 CTAAAAGAATGGTAAGTATGGCTAACT
* *
40613280 CTAAAAGACTGGTAAGTATGGCAAACT
1 CTAAAAGAATGGTAAGTATGGCTAACT
*
40613307 CTAAGAGAATG
1 CTAAAAGAATG
40613318 ATGTGTATAG
Statistics
Matches: 107, Mismatches: 30, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
25 2 0.02
26 35 0.33
27 68 0.64
28 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (27 bp):
CTAAAAGAATGGTAAGTATGGCTAACT
Found at i:40623907 original size:40 final size:40
Alignment explanation
Indices: 40623863--40623989 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 40
40623853 ATAATTATTG
40623863 CCTGAATGCACATACGTGCCTCTGTTTGTACTTCGGTACC
1 CCTGAATGCACATACGTGCCTCTGTTTGTACTTCGGTACC
* *
40623903 CCTGAATGCACATACGTGCCCCTGTTTGTACTCCGGTACC
1 CCTGAATGCACATACGTGCCTCTGTTTGTACTTCGGTACC
* * * * *
40623943 CCTAAATGCACATATGTGCCTCTGTTTATACTTTGGTAAC
1 CCTGAATGCACATACGTGCCTCTGTTTGTACTTCGGTACC
40623983 CCTGAAT
1 CCTGAAT
40623990 CAAATAGTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.32
Consensus pattern (40 bp):
CCTGAATGCACATACGTGCCTCTGTTTGTACTTCGGTACC
Found at i:40623926 original size:20 final size:20
Alignment explanation
Indices: 40623863--40623926 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
40623853 ATAATTATTG
40623863 CCTGAATGCACATACGTGCC
1 CCTGAATGCACATACGTGCC
* ** * * *
40623883 TCTGTTTGTAC-TTCGGTACC
1 CCTGAATGCACATAC-GTGCC
40623903 CCTGAATGCACATACGTGCC
1 CCTGAATGCACATACGTGCC
40623923 CCTG
1 CCTG
40623927 TTTGTACTCC
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.19, C:0.33, G:0.20, T:0.28
Consensus pattern (20 bp):
CCTGAATGCACATACGTGCC
Found at i:40623944 original size:20 final size:20
Alignment explanation
Indices: 40623884--40623945 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
40623874 ATACGTGCCT
*
40623884 CTGTTTGTACTTCGGTACCC
1 CTGTTTGTACTACGGTACCC
** * *
40623904 CTGAATGCACATAC-GTGCCC
1 CTGTTTGTAC-TACGGTACCC
*
40623924 CTGTTTGTACTCCGGTACCC
1 CTGTTTGTACTACGGTACCC
40623944 CT
1 CT
40623946 AAATGCACAT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.32
Consensus pattern (20 bp):
CTGTTTGTACTACGGTACCC
Found at i:40627616 original size:32 final size:32
Alignment explanation
Indices: 40627559--40627619 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
40627549 TCGTGTGAGC
*
40627559 ATACCGATTTATAGCTCGTGAGAGCATACCAT
1 ATACCGATTCATAGCTCGTGAGAGCATACCAT
*
40627591 ATACTGATTCATAGCTCGT-ATGAGCATAC
1 ATACCGATTCATAGCTCGTGA-GAGCATAC
40627620 ATGTACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (32 bp):
ATACCGATTCATAGCTCGTGAGAGCATACCAT
Found at i:40633079 original size:27 final size:27
Alignment explanation
Indices: 40633049--40633226 Score: 106
Period size: 27 Copynumber: 6.6 Consensus size: 27
40633039 ATATTGAGCC
* * *
40633049 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
40633076 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
40633103 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** **
40633131 CGCACACTTAGTGCCGCATGGTCATTT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
40633158 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
40633185 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
40633212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40633227 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:40633188 original size:82 final size:81
Alignment explanation
Indices: 40633075--40633225 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
40633065 TACAATCAAC
* * *
40633075 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCACACTT
40633140 AGTGCCGCATGGTCATT
65 AGTGCCGCATGGTCATT
* ** *
40633157 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTT
40633221 AGTGC
65 AGTGC
40633226 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 20 0.33
82 41 0.67
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTTA
GTGCCGCATGGTCATT
Found at i:40653705 original size:25 final size:25
Alignment explanation
Indices: 40653673--40653758 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
40653663 AGTTGTAAAC
* *
40653673 GGTAAGCTCTTCCGAGCTGAATAAT
1 GGTAAGCTCATCTGAGCTGAATAAT
* *
40653698 GGTAAGCTCCTCTGAGATGAATAAT
1 GGTAAGCTCATCTGAGCTGAATAAT
* * *
40653723 GGTAAGCTCATATGAGCTGAGTATT
1 GGTAAGCTCATCTGAGCTGAATAAT
40653748 GGTAAGCTCAT
1 GGTAAGCTCAT
40653759 AAGAGCTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (25 bp):
GGTAAGCTCATCTGAGCTGAATAAT
Found at i:40660007 original size:38 final size:37
Alignment explanation
Indices: 40659938--40660010 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
40659928 TTTTCATAAT
* *
40659938 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
40659975 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
40660011 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:40660166 original size:23 final size:23
Alignment explanation
Indices: 40660140--40660284 Score: 236
Period size: 23 Copynumber: 6.3 Consensus size: 23
40660130 ATAAGTGCCA
*
40660140 CACTGATATGTAGCCGAAGCTAG
1 CACTGATATGTAGCCGAAGCTAC
* *
40660163 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
40660186 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
40660209 CACTCAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40660232 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40660255 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40660278 CACTGAT
1 CACTGAT
40660285 CAATAACACT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 111 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:40663153 original size:47 final size:49
Alignment explanation
Indices: 40663037--40663162 Score: 177
Period size: 49 Copynumber: 2.6 Consensus size: 49
40663027 GTTTTCACAT
* *
40663037 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATATCGA
1 TGCCATAGTCCAGA-TATGGTCTTACACGGAATCACATATCACATATCGA
* *
40663086 TGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACA-AT-GA
1 TGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATATCGA
*
40663133 TGCCATATTCCAGATATGGTCTTACACGGA
1 TGCCATAGTCCAGATATGGTCTTACACGGA
40663163 GATTTCATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 29 0.42
48 2 0.03
49 38 0.55
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (49 bp):
TGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATATCGA
Found at i:40665196 original size:38 final size:37
Alignment explanation
Indices: 40665127--40665199 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
40665117 TTTTCATAAT
* *
40665127 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
40665164 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
40665200 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:40665362 original size:23 final size:23
Alignment explanation
Indices: 40665329--40665447 Score: 202
Period size: 23 Copynumber: 5.2 Consensus size: 23
40665319 ATAAGTGCCA
*
40665329 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
40665352 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
40665375 CACTGAAAAGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40665398 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40665421 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
40665444 CACT
1 CACT
40665448 AATCAATAAC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:40668026 original size:18 final size:18
Alignment explanation
Indices: 40668000--40668040 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
40667990 TGACAAAGAT
40668000 TTGTCATTGACATAAGGA
1 TTGTCATTGACATAAGGA
*
40668018 TTGTTATTGACATAAGGA
1 TTGTCATTGACATAAGGA
40668036 -TGTCA
1 TTGTCA
40668041 AAATCAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (18 bp):
TTGTCATTGACATAAGGA
Found at i:40668986 original size:71 final size:70
Alignment explanation
Indices: 40668909--40669125 Score: 157
Period size: 71 Copynumber: 3.1 Consensus size: 70
40668899 TAATTTCGAT
40668909 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAGTTAATACATTAATTTGA
1 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAGTTAATA-ATTAATTTGA
40668974 TTCATA
65 TTCATA
** ** * * * * *
40668980 CAAAATATTAATTG-CAT-ATATTTTACCAAATT-TATT--AATATAA-ACAGGTATATTAATTA
1 CAAAATA-TAAAAGACATGA-AAATTA--ATATTCTTTTGGAA-AGAATATA-GT-TAATAATTA
**
40669039 A-TT--TTGGT-
59 ATTTGATTCATA
* * *
40669047 CAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAGTTAATA-ATTAATTTGA
40669112 TTCATA
65 TTCATA
40669118 CAAAATAT
1 CAAAATAT
40669126 TAATTTTATA
Statistics
Matches: 103, Mismatches: 25, Indels: 36
0.63 0.15 0.22
Matches are distributed among these distances:
65 4 0.04
66 11 0.11
67 22 0.21
68 9 0.09
70 10 0.10
71 32 0.31
72 11 0.11
73 4 0.04
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (70 bp):
CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAGTTAATAATTAATTTGAT
TCATA
Found at i:40669061 original size:138 final size:138
Alignment explanation
Indices: 40668813--40669234 Score: 684
Period size: 138 Copynumber: 3.1 Consensus size: 138
40668803 GAGAACATAG
40668813 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* * * *
40668878 AATATACACAGTTATTTTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
40668943 TGGAAAGA
131 TGGAAAGA
* * * * **
40668951 ATATAGTTAATACATTAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* *
40669016 AATATAAACAGGTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
40669081 TGGAAAGA
131 TGGAAAGA
*
40669089 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* * *
40669154 AATATAAATAGTTATATTAATTAATTCCGGTAAAAATATAAAAGACATGGAAATTAATAATT-TT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAAT-ATTCTT
40669218 TTGGAAAGA
130 TTGGAAAGA
40669227 ATATAATT
1 ATATAATT
40669235 TTTTTTCTAA
Statistics
Matches: 259, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
138 256 0.99
139 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TGGAAAGA
Found at i:40671384 original size:3 final size:3
Alignment explanation
Indices: 40671376--40671414 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
40671366 TATTCTAATT
40671376 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
40671415 TACCACCTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:40676100 original size:28 final size:29
Alignment explanation
Indices: 40676059--40676119 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
40676049 AAAAAAAAGT
40676059 TATTAAAAATTATTTTAAAA-A-ATAAAAA
1 TATTAAAAATTA-TTTAAAATATATAAAAA
*
40676087 CTATT-AAAGTTATTTAAAATATATAAAAA
1 -TATTAAAAATTATTTAAAATATATAAAAA
40676116 TATT
1 TATT
40676120 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.24
28 11 0.38
29 11 0.38
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TATTAAAAATTATTTAAAATATATAAAAA
Found at i:40679857 original size:17 final size:18
Alignment explanation
Indices: 40679810--40679860 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
40679800 ATGGATTTTT
*
40679810 GGATTATGCGTTGAGTTG
1 GGATTATGCGTTGAGTTC
*
40679828 GCGATTCA-ACGTTGA-TTC
1 G-GATT-ATGCGTTGAGTTC
40679846 GGATTATGCGTTGAG
1 GGATTATGCGTTGAG
40679861 CAAGTGATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 4 0.15
19 10 0.38
20 1 0.04
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (18 bp):
GGATTATGCGTTGAGTTC
Found at i:40680744 original size:29 final size:29
Alignment explanation
Indices: 40680711--40680770 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
40680701 TATGCTACTA
40680711 ATTTTGTTTGTAAAACATTTCCTTACAAC
1 ATTTTGTTTGTAAAACATTTCCTTACAAC
40680740 ATTTTGTTTGTAAAACATTTCCTTACAAC
1 ATTTTGTTTGTAAAACATTTCCTTACAAC
40680769 AT
1 AT
40680771 GTTTTCTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.45
Consensus pattern (29 bp):
ATTTTGTTTGTAAAACATTTCCTTACAAC
Found at i:40680758 original size:16 final size:16
Alignment explanation
Indices: 40680711--40680759 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
40680701 TATGCTACTA
40680711 ATTTTGTTTGTAAAAC
1 ATTTTGTTTGTAAAAC
** *
40680727 A-TTT-CCT-TACAAC
1 ATTTTGTTTGTAAAAC
40680740 ATTTTGTTTGTAAAAC
1 ATTTTGTTTGTAAAAC
40680756 ATTT
1 ATTT
40680760 CCTTACAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 6 0.25
14 4 0.17
15 4 0.17
16 10 0.42
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTTTGTTTGTAAAAC
Found at i:40681657 original size:288 final size:285
Alignment explanation
Indices: 40681138--40681669 Score: 791
Period size: 288 Copynumber: 1.9 Consensus size: 285
40681128 GACATAAATG
* *
40681138 ATCGGAGCTGATTTCAAGGATCAAAATAATGTCTTTGATCCTGGAGATAGTTTCGATGCACAAGA
1 ATCGAAGCTGATTTCAAGGATCAAAATAATGTCTTTAATCCTGGAGATAGTTTCGA-GCACAAGA
* *
40681203 AAGCTTAAGTAAGTATTTTTTTTCATTTTATTGTTATTTATTCTAATCATTTTTCTTTTTGTGTA
65 AAGCTTAAGTAAGTATTTTTTTTCATTTTATTGTTATTTATTCTAATCATTATTCTTTTTGTGCA
* * * * *
40681268 GCTAAATATTTGAGGAAAATCTTCGTGAGGAAGGGGGAATGATGCGAGTCTCAAGGCCCAATTTC
130 ACTAAAGATTTGAGGAAAATCTTCATGAGGAAGGGCGAATGATGCAAGTCTCAAGGCCCAATTTC
* * *
40681333 AAACTCATGGATGTGATGGGCTCACACTACCTCAAGGCCCAACAGCAATGTCCAAGGCCAAGCAA
195 AAACCCATGGATGTGATGGGCTCACACCACCTCAAGGCCCAACAACAATGTCCAAGGCCAAGCAA
40681398 ATTAAATCAGGATTCAATCAAAGATA
260 ATTAAATCAGGATTCAATCAAAGATA
* ** *
40681424 ATCGAAGCTGATTTGAAGGAT-AAAATTAATGTCTTTAATTTTGGAGATAGTGTTGGCA-CACAA
1 ATCGAAGCTGATTTCAAGGATCAAAA-TAATGTCTTTAATCCTGGAGATAGT-TTCG-AGCACAA
* *
40681487 GAAAAG-TTAGGTAAGTATTTTTTTTTCATTTTATTGTTATTTATTCTAATCCTTATTCTTTTTG
63 G-AAAGCTTAAGTAAGTA-TTTTTTTTCATTTTATTGTTATTTATTCTAATCATTATTCTTTTTG
* *
40681551 TGCAACTAAAGATTTGAGGATTAATCTTCATGAGGAAGGGCGAATGATGCAAGTCTCAAGGCCTA
126 TGCAACTAAAGATTTGAGGA-AAATCTTCATGAGGAAGGGCGAATGATGCAAGTCTCAAGGCCCA
*
40681616 ATTTCATACCCATGGATGTGATGGGCTCACACCACCTCAAGGCCCAACAACAAT
190 ATTTCAAACCCATGGATGTGATGGGCTCACACCACCTCAAGGCCCAACAACAAT
40681670 TGTAACCCTC
Statistics
Matches: 219, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
285 4 0.02
286 57 0.26
287 68 0.31
288 90 0.41
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (285 bp):
ATCGAAGCTGATTTCAAGGATCAAAATAATGTCTTTAATCCTGGAGATAGTTTCGAGCACAAGAA
AGCTTAAGTAAGTATTTTTTTTCATTTTATTGTTATTTATTCTAATCATTATTCTTTTTGTGCAA
CTAAAGATTTGAGGAAAATCTTCATGAGGAAGGGCGAATGATGCAAGTCTCAAGGCCCAATTTCA
AACCCATGGATGTGATGGGCTCACACCACCTCAAGGCCCAACAACAATGTCCAAGGCCAAGCAAA
TTAAATCAGGATTCAATCAAAGATA
Found at i:40682497 original size:51 final size:49
Alignment explanation
Indices: 40682442--40682576 Score: 146
Period size: 49 Copynumber: 2.7 Consensus size: 49
40682432 CTAATAACAC
* * *
40682442 TTTGTAGACAAGCCACTACTGATATGCATTATATACTGCCACTGATATATT
1 TTTGT-GACAAGCCACCACTAATATGCA-GATATACTGCCACTGATATATT
* * *
40682493 TTTGTGGACAAACCACCACTAATTTGCAGATATACTGGCACTGATATATT
1 TTTGT-GACAAGCCACCACTAATATGCAGATATACTGCCACTGATATATT
* * *
40682543 TTATG-GACAAGCCACCATTGATTTGCAGATATAC
1 TT-TGTGACAAGCCACCACTAATATGCAGATATAC
40682577 AACCACTTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 26 0.36
50 22 0.30
51 25 0.34
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (49 bp):
TTTGTGACAAGCCACCACTAATATGCAGATATACTGCCACTGATATATT
Found at i:40682535 original size:50 final size:49
Alignment explanation
Indices: 40682472--40682576 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
40682462 GATATGCATT
*
40682472 ATATACTGCCACTGATATATTTTTGTGGACAAACCACCACTAATTTGCAG
1 ATATACTGCCACTGATATA-TTTTATGGACAAACCACCACTAATTTGCAG
* * * *
40682522 ATATACTGGCACTGATATATTTTATGGACAAGCCACCATTGATTTGCAG
1 ATATACTGCCACTGATATATTTTATGGACAAACCACCACTAATTTGCAG
40682571 ATATAC
1 ATATAC
40682577 AACCACTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 32 0.64
50 18 0.36
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (49 bp):
ATATACTGCCACTGATATATTTTATGGACAAACCACCACTAATTTGCAG
Found at i:40683632 original size:16 final size:15
Alignment explanation
Indices: 40683594--40683623 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40683584 AAATGAGAGA
*
40683594 AAATGAAAAAAGAAT
1 AAATGAAAAAAAAAT
40683609 AAATGAAAAAAAAAT
1 AAATGAAAAAAAAAT
40683624 GAAGTGAAAG
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:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAATGAAAAAAAAAT
Found at i:40691235 original size:56 final size:56
Alignment explanation
Indices: 40691144--40691266 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
40691134 GAGATTGGCG
* * **
40691144 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATACAGCA
* *
40691201 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATACAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATACAGCA
*
40691256 CTGAGTGTGCG
1 CTAAGTGTGCG
40691267 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 22 0.37
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATACAGCA
Found at i:40691255 original size:27 final size:28
Alignment explanation
Indices: 40691144--40691266 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
40691134 GAGATTGGCG
* * *
40691144 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATACAGCA
**
40691173 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATACAGCA
*
40691201 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATACAGCA
40691229 CTAAGTGTGCGAG-TTGATTATACAGCA
1 CTAAGTGTGCGAGTTTGATTATACAGCA
*
40691256 CTGAGTGTGCG
1 CTAAGTGTGCG
40691267 GACTTAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 23 0.27
28 48 0.56
29 15 0.17
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATACAGCA
Found at i:40693624 original size:128 final size:130
Alignment explanation
Indices: 40693491--40694441 Score: 1222
Period size: 131 Copynumber: 7.3 Consensus size: 130
40693481 GGATTATCGA
* * * * * * * *
40693491 CTTCAATCTGCTCCGCTACTGCTTAAGGAGACAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
* * * * *
40693556 ACCAGGGACATAAGG-CTTGTGGCTTAAATCTGCTTCCTTAC-ACT-TGAAGATAAGATTCGCCG
66 ACCAGGGAAAT-AGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGAAGATAAGATTCGCCG
40693618 T
130 T
* * * * * * *
40693619 CTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
* * * * * * *
40693684 ACCAGGGAGATAGGAGTTGTGGCTT-AATCTGCTTCCTTAC-ACT-TGAAGATAAGATTCGCCAT
66 ACCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGAAGATAAGATTCGCCGT
* * * * *
40693746 CTTCGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAAACCTATTCCACTGCT
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCC-AACCTATTCCACTGCT
* * * * *
40693811 GACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACT-CT-TGAAGATAAGATTTGCCG
65 GACCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGAAGATAAGATTCGCCG
40693874 T
130 T
* * *
40693875 CTTCGATCTGCTCCACTATTGCTTAGAGAGAGAAGATCTATAGTTTCCAACCTATTCCACTGCT-
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
* * *
40693939 ATTCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTTCTGGGGAAGATAAGATTCTCC
66 A-CCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT-GGGAAGATAAGATTCGCC
40694004 GT
129 GT
*
40694006 CTTCGATC-GCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACTG
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
** * * *
40694070 TTCAGAGAAATAGGACTTGTGGCTTCAATCTGTTTCCCTACTCCTGGAGAAGATAAGATTCGCCA
66 ACCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG-GAAGATAAGATTCGCCG
40694135 T
130 T
* * *
40694136 CTTCGATCTGCTCCACTATTGCTTAGGGATATAAGATCTATAGTTTCCAACCTATTCCACTACTG
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
*
40694201 -CTTAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC
66 AC-CAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT-GGGAAGATAAGATTCGCC
40694265 GT
129 GT
* *
40694267 CTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAGTTTCCAACGTATTCCACTGCTG
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
** * *
40694332 TTCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCACCA
66 ACCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT-GGGAAGATAAGATTCGCCG
40694397 T
130 T
40694398 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGT
1 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGT
40694442 ATTCACTGAT
Statistics
Matches: 755, Mismatches: 54, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
127 85 0.11
128 175 0.23
129 79 0.10
130 116 0.15
131 298 0.39
132 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (130 bp):
CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTG
ACCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGAAGATAAGATTCGCCGT
Found at i:40695696 original size:6 final size:7
Alignment explanation
Indices: 40695680--40695713 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
40695670 CCATCATTAC
40695680 TTTTCAT
1 TTTTCAT
40695687 TTTTCA-
1 TTTTCAT
40695693 TTTTCAT
1 TTTTCAT
40695700 TTTTCAT
1 TTTTCAT
40695707 TTTTCAT
1 TTTTCAT
40695714 CCCTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:40695698 original size:13 final size:13
Alignment explanation
Indices: 40695680--40695709 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
40695670 CCATCATTAC
40695680 TTTTCATTTTTCA
1 TTTTCATTTTTCA
40695693 TTTTCATTTTTCA
1 TTTTCATTTTTCA
40695706 TTTT
1 TTTT
40695710 TCATCCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:40696688 original size:1 final size:1
Alignment explanation
Indices: 40696684--40696733 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
40696674 CTTTTGCTTC
* * * * *
40696684 TTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
40696734 ATTGGATCTG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:40696702 original size:29 final size:29
Alignment explanation
Indices: 40696663--40696725 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
40696653 TTGACCGTGA
40696663 TTTTGATTTTTCTTTTGCTTCTTTTTGTTTT
1 TTTTG-TTTTTCTTTTG-TTCTTTTTGTTTT
* *
40696694 TTTTGTTTTTTTTTTGTTTTTTTTGTTTT
1 TTTTGTTTTTCTTTTGTTCTTTTTGTTTT
40696723 TTT
1 TTT
40696726 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.50
30 10 0.33
31 5 0.17
ACGTcount: A:0.02, C:0.05, G:0.10, T:0.84
Consensus pattern (29 bp):
TTTTGTTTTTCTTTTGTTCTTTTTGTTTT
Found at i:40696731 original size:29 final size:30
Alignment explanation
Indices: 40696663--40696733 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
40696653 TTGACCGTGA
*
40696663 TTTTGATTTTTCTTTTGCTTCTTTTTGTTTT
1 TTTTG-TTTTTTTTTTGCTTCTTTTTGTTTT
*
40696694 TTTTGTTTTTTTTTTG-TTTTTTTTG-TTT
1 TTTTGTTTTTTTTTTGCTTCTTTTTGTTTT
*
40696722 TTTTATTTTTTT
1 TTTTGTTTTTTT
40696734 ATTGGATCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.38
29 8 0.22
30 10 0.27
31 5 0.14
ACGTcount: A:0.03, C:0.04, G:0.08, T:0.85
Consensus pattern (30 bp):
TTTTGTTTTTTTTTTGCTTCTTTTTGTTTT
Found at i:40696733 original size:9 final size:9
Alignment explanation
Indices: 40696670--40696725 Score: 67
Period size: 9 Copynumber: 5.8 Consensus size: 9
40696660 TGATTTTGAT
40696670 TTTTCTTTTG
1 TTTT-TTTTG
*
40696680 CTTCTTTTTG
1 -TTTTTTTTG
40696690 TTTTTTTTG
1 TTTTTTTTG
40696699 TTTTTTTTTTG
1 --TTTTTTTTG
40696710 TTTTTTTTG
1 TTTTTTTTG
40696719 TTTTTTT
1 TTTTTTT
40696726 ATTTTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 24 0.59
10 5 0.12
11 12 0.29
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:40696733 original size:20 final size:20
Alignment explanation
Indices: 40696684--40696725 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
40696674 CTTTTGCTTC
40696684 TTTTTGTTTTTTTTGTTTTT
1 TTTTTGTTTTTTTTGTTTTT
40696704 TTTTTGTTTTTTTTGTTTTT
1 TTTTTGTTTTTTTTGTTTTT
40696724 TT
1 TT
40696726 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (20 bp):
TTTTTGTTTTTTTTGTTTTT
Found at i:40699866 original size:119 final size:120
Alignment explanation
Indices: 40699684--40699904 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 120
40699674 TCCTCGTTCA
*
40699684 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
40699749 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * **
40699804 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
40699866 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
40699905 GACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:40699890 original size:79 final size:79
Alignment explanation
Indices: 40699682--40699906 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
40699672 GCTCCTCGTT
* * ** * *
40699682 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
40699747 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
40699762 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
40699826 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
40699841 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
40699905 GA
64 GA
40699907 CATCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 59 0.48
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:40699906 original size:40 final size:40
Alignment explanation
Indices: 40699682--40699906 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
40699672 GCTCCTCGTT
* *
40699682 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40699722 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
40699762 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40699802 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
40699841 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
40699882 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40699907 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40716624 original size:39 final size:39
Alignment explanation
Indices: 40716581--40716714 Score: 207
Period size: 39 Copynumber: 3.4 Consensus size: 39
40716571 ACCATGTTTT
40716581 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
40716620 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
40716659 TGTA-TATTGTGATATATGATTAAATGTTATGTGATTATT
1 TG-AGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
40716698 TGTGTAATGTGATATAT
1 TGAGTATTGTGATATAT
40716715 ATTTAAAAGT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 87 0.99
40 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:40723586 original size:18 final size:17
Alignment explanation
Indices: 40723553--40723587 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
40723543 CCCCATGCTA
*
40723553 AAGTGAAAATTGATTTT
1 AAGTGAAAAGTGATTTT
40723570 AAGTGAAAACGTGATTTT
1 AAGTGAAAA-GTGATTTT
40723588 GTGGCCTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (17 bp):
AAGTGAAAAGTGATTTT
Found at i:40723703 original size:48 final size:47
Alignment explanation
Indices: 40723632--40723732 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 47
40723622 AGGTGGAAGA
* * * * *
40723632 ATGTGGCAGTTTATTTGCAAAAGTGGTGGCTTGTCCACAAATTTTATT
1 ATGTGGCAGTATATTTACAAAAGTGATGGCCTGTCCAC-AATTTGATT
40723680 ATGTGGCAGTATATTTACAAAAGTGATGGCCTGTCCACAATTTGATT
1 ATGTGGCAGTATATTTACAAAAGTGATGGCCTGTCCACAATTTGATT
40723727 ATGTGG
1 ATGTGG
40723733 TACATTACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 14 0.29
48 34 0.71
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (47 bp):
ATGTGGCAGTATATTTACAAAAGTGATGGCCTGTCCACAATTTGATT
Found at i:40725595 original size:40 final size:39
Alignment explanation
Indices: 40725504--40725686 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
40725494 TCCTCGTTCA
* * *
40725504 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
40725543 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
40725582 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
40725622 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
40725663 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40725687 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 37 0.30
40 77 0.63
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:40725695 original size:41 final size:41
Alignment explanation
Indices: 40725618--40725695 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
40725608 TTAGTATCTC
* * *
40725618 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
40725659 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
40725696 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:40733424 original size:40 final size:39
Alignment explanation
Indices: 40733333--40733515 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
40733323 TCCTCGTTCA
* * *
40733333 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
40733372 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
40733411 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
40733451 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
40733492 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40733516 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 37 0.30
40 77 0.63
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:40733524 original size:41 final size:41
Alignment explanation
Indices: 40733447--40733524 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
40733437 TTAGTATCTC
* * *
40733447 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
40733488 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
40733525 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:40749021 original size:26 final size:27
Alignment explanation
Indices: 40748990--40749053 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
40748980 TATAACAGTC
40748990 ATTTTACCCTAT-GAGGGTA-TTCGATT
1 ATTTTACCCT-TCGAGGGTATTTCGATT
* *
40749016 ATTTTACCCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTTCGAGGGTATTTCGATT
40749043 ATTTTACCCTT
1 ATTTTACCCTT
40749054 TAGGGCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 16 0.47
27 17 0.50
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATT
Found at i:40749047 original size:27 final size:25
Alignment explanation
Indices: 40748990--40749063 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
40748980 TATAACAGTC
40748990 ATTTTACCCTATGAGGGTATTCGATT
1 ATTTTACCCT-TGAGGGTATTCGATT
* *
40749016 ATTTTACCCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTT-GAGGGTA-TTCGATT
*
40749043 ATTTTACCCTTTAGGGCTATT
1 ATTTTACCCTTGAGGG-TATT
40749064 TAGGTCATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 21 0.51
27 19 0.46
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (25 bp):
ATTTTACCCTTGAGGGTATTCGATT
Found at i:40749064 original size:27 final size:26
Alignment explanation
Indices: 40748990--40749073 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
40748980 TATAACAGTC
* *
40748990 ATTTTACCCTATGAGGGTA-TTCGATT
1 ATTTTACCCT-TCAGGGTATTTCGGTT
*
40749016 ATTTTACCCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTTC-AGGGTATTTCGGTT
* * *
40749043 ATTTTACCCTTTAGGGCTATTTAGGTC
1 ATTTTACCCTTCAGGG-TATTTCGGTT
40749070 ATTT
1 ATTT
40749074 ATTGACCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.02
26 18 0.38
27 29 0.60
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTCAGGGTATTTCGGTT
Found at i:40755505 original size:28 final size:28
Alignment explanation
Indices: 40755473--40755564 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
40755463 CAGTAACAGT
40755473 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* **
40755501 ACAGTGTGGGCCTTAGCCTAATTTAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* *
40755529 ATAGTGTGGGCCTTAGCCCGATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
40755557 ATAGTGTG
1 ACAGTGTG
40755565 ATAATGTAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:40755921 original size:27 final size:27
Alignment explanation
Indices: 40755899--40756060 Score: 182
Period size: 27 Copynumber: 6.0 Consensus size: 27
40755889 AAGGGTATAA
*
40755899 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
* *
40755926 C-GATTATTTTACCCTTTGGGTGTATTT
1 CAG-TCATTTTACCCTTTGGGGGTATTT
*
40755953 CGGTCATTTTACCCTTTGGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
* * * *
40755980 AAGTTATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
*
40756007 CAGTCATTTTACCTTTTGGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
** * **
40756034 TGGTCATTTTATCCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
40756061 TGATCATTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 110 0.98
28 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGGGGGTATTT
Found at i:40756016 original size:81 final size:81
Alignment explanation
Indices: 40755904--40756060 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
40755894 TATAACAGTC
* * *
40755904 ATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTTTGGGTGTATTTCGGTCATTTTACCCTT
1 ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTT
**
40755969 TGGGGGTATTTAAGTT
66 CAGGGGTATTTAAGTT
* * *
40755985 ATTTTACCCT-TCGAGGGTATTTC-AGTCATTTTACCTTTTGGGGGTATTTTGGTCATTTTATCC
1 ATTTTACCCTAT-GAGGGTATTTCGA-TCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCC
40756048 TTCAGGGGTATTT
64 TTCAGGGGTATTT
40756061 TGATCATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 64 0.97
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (81 bp):
ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTT
CAGGGGTATTTAAGTT
Found at i:40760201 original size:19 final size:19
Alignment explanation
Indices: 40760179--40760216 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
40760169 TTGTATGAGA
* *
40760179 TTTGCATTTTGGTGCCTCT
1 TTTGCACTTCGGTGCCTCT
40760198 TTTGCACTTCGGTGCCTCT
1 TTTGCACTTCGGTGCCTCT
40760217 GTATACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.26, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTGCACTTCGGTGCCTCT
Found at i:40774358 original size:119 final size:120
Alignment explanation
Indices: 40774148--40774370 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
40774138 TCCTCGTTCA
*
40774148 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
40774213 TTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
40774268 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
40774330 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCATCGGGACTTAACCCGGA
40774371 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:40774370 original size:40 final size:40
Alignment explanation
Indices: 40774146--40774370 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
40774136 GCTCCTCGTT
* *
40774146 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40774186 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
40774226 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40774266 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
40774305 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
40774346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40774371 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40789614 original size:13 final size:14
Alignment explanation
Indices: 40789587--40789616 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
40789577 CAATTTGATT
40789587 AATGAAATATTTAA
1 AATGAAATATTTAA
40789601 AATGAAAT-TTTAA
1 AATGAAATATTTAA
40789614 AAT
1 AAT
40789617 ATAACATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
AATGAAATATTTAA
Found at i:40805475 original size:30 final size:30
Alignment explanation
Indices: 40805441--40805506 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
40805431 TGTCACATTG
*
40805441 CCGTGTGTCACACACAGCTGAGACACACGT
1 CCGTGTGTCACACACAGCTAAGACACACGT
*
40805471 CCGTGTGTCACACACGGCTAAGACACACGT
1 CCGTGTGTCACACACAGCTAAGACACACGT
40805501 CCGTGT
1 CCGTGT
40805507 CTTAGGCCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCTAAGACACACGT
Found at i:40806151 original size:15 final size:16
Alignment explanation
Indices: 40806122--40806151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40806112 CAAACATACT
40806122 TTAACACATTATCAAA
1 TTAACACATTATCAAA
40806138 TTAACACA-TATCAA
1 TTAACACATTATCAA
40806152 CAATGCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:40808344 original size:38 final size:38
Alignment explanation
Indices: 40808300--40808374 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
40808290 AGGAAATAGA
*
40808300 ATTATTATTTAAAAGATTTTTAGATAAATAATAATTAT
1 ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAT
40808338 ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTA
1 ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTA
40808375 AATGGAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (38 bp):
ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAT
Found at i:40808396 original size:48 final size:49
Alignment explanation
Indices: 40808338--40808455 Score: 186
Period size: 48 Copynumber: 2.4 Consensus size: 49
40808328 TAATAATTAT
* *
40808338 ATTATTATTTAAAAGAGTTTTAGATAAATA-ATAATTAAATGGAATTT-A
1 ATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAATAGAATTTAA
40808386 ATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATAGAATTTAA
1 ATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATAGAATTTAA
*
40808435 ATTATTATCTAAAAGAGTTTT
1 ATTATTATTTAAAAGAGTTTT
40808456 TAAAAATCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.66
49 21 0.32
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (49 bp):
ATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATAGAATTTAA
Found at i:40808407 original size:22 final size:22
Alignment explanation
Indices: 40808338--40808408 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
40808328 TAATAATTAT
40808338 ATTATTATTTAAAAGAGTTTTA
1 ATTATTATTTAAAAGAGTTTTA
* * * *
40808360 GATAAATAATAATTAAATG-GAATTTA
1 -AT---TATTATTTAAAAGAG-TTTTA
40808386 ATTATTATTTAAAAGAGTTTTA
1 ATTATTATTTAAAAGAGTTTTA
40808408 A
1 A
40808409 ATAAAAGATA
Statistics
Matches: 35, Mismatches: 8, Indels: 11
0.65 0.15 0.20
Matches are distributed among these distances:
22 15 0.43
23 3 0.09
25 3 0.09
26 14 0.40
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (22 bp):
ATTATTATTTAAAAGAGTTTTA
Found at i:40812431 original size:40 final size:40
Alignment explanation
Indices: 40812331--40812501 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
40812321 GCTCCTCGTT
* * *
40812331 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
40812371 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
40812410 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
40812450 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
40812490 CAAATGCCTTCG
1 CAAATGCCTTCG
40812502 AATCTTAGTC
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:40812515 original size:80 final size:79
Alignment explanation
Indices: 40812331--40812555 Score: 213
Period size: 80 Copynumber: 2.8 Consensus size: 79
40812321 GCTCCTCGTT
* * * * * * *
40812331 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
40812395 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
40812410 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
40812475 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
** * * * *
40812490 CAAATGCCTTC-GAATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
40812554 GA
63 GA
40812556 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.31
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGAACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:40829012 original size:40 final size:40
Alignment explanation
Indices: 40828912--40829136 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
40828902 GCTCCTCGTT
* * *
40828912 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
40828952 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
40828991 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
40829031 CAAAGGCCTTCGGGGA-TTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTC-GGGACTTAACCC-GGATTTAGTAACTCGCA
** * * * *
40829071 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
40829112 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
40829137 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 3 0.02
39 40 0.25
40 96 0.60
41 20 0.13
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:40829145 original size:41 final size:41
Alignment explanation
Indices: 40829068--40829145 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
40829058 TTTGTATCTC
* * *
40829068 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
40829109 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
40829146 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:40835620 original size:42 final size:43
Alignment explanation
Indices: 40835549--40835692 Score: 195
Period size: 42 Copynumber: 3.4 Consensus size: 43
40835539 GCCTAGCAGA
* * *
40835549 CTTATTGCCAGTGAAACAATATCTG-ACTTTACGTCTAGTAGG
1 CTTAATGCCGGTGAAACAATATCAGAACTTTACGTCTAGTAGG
* *
40835591 CTTAATGCCGGTGAAATAATTTCA-AACTTTACGTCTAGTAGG
1 CTTAATGCCGGTGAAACAATATCAGAACTTTACGTCTAGTAGG
* **
40835633 CTTAATGCCGATGAAACAATATCAGAA-TTTACGTCTAACAGG
1 CTTAATGCCGGTGAAACAATATCAGAACTTTACGTCTAGTAGG
40835675 CTTAATGCCGGTGAAACA
1 CTTAATGCCGGTGAAACA
40835693 TTCAGACTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 87 0.98
43 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTAATGCCGGTGAAACAATATCAGAACTTTACGTCTAGTAGG
Found at i:40837070 original size:16 final size:15
Alignment explanation
Indices: 40837049--40837078 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40837039 ACTGCTTTCA
40837049 ATCTAAATCGTGTTCC
1 ATCTAAATCG-GTTCC
40837065 ATCTAAATCGGTTC
1 ATCTAAATCGGTTC
40837079 AAAAGACGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (15 bp):
ATCTAAATCGGTTCC
Found at i:40838954 original size:37 final size:37
Alignment explanation
Indices: 40838913--40839019 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 37
40838903 GTGTGAGAAT
*
40838913 TTAGATTATCAAACCCCCTAGGATGGTGTGTTTGTCA
1 TTAGAGTATCAAACCCCCTAGGATGGTGTGTTTGTCA
* *** ** ** *
40838950 TTAGAGTATC-TACCTGTTGAGTCTACTGAGTTTGTCA
1 TTAGAGTATCAAACCCCCT-AGGATGGTGTGTTTGTCA
*
40838987 TTAGAGTATCAAACGCCCTAGGATGGTGTGTTT
1 TTAGAGTATCAAACCCCCTAGGATGGTGTGTTT
40839020 TAGTTGACAA
Statistics
Matches: 48, Mismatches: 20, Indels: 4
0.67 0.28 0.06
Matches are distributed among these distances:
36 4 0.08
37 41 0.85
38 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (37 bp):
TTAGAGTATCAAACCCCCTAGGATGGTGTGTTTGTCA
Found at i:40846521 original size:50 final size:50
Alignment explanation
Indices: 40846457--40846695 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
40846447 AAAGTGATGG
* * * *
40846457 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAATGAATGA
* * * * * * **
40846507 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAAT-GAAT-GA
* * * *
40846558 TCACGTGTGTAGTATTATGTGCAAGG-TACTACGTGTATCAGATATTAATGG
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTACCAGA-ATGAATGA
* * * * * *
40846609 CCACGTGTATAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGATTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAATGAATGA
*
40846659 TCACGTGTGTAGTAGTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
40846696 TTGAATGATA
Statistics
Matches: 146, Mismatches: 37, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
49 3 0.02
50 74 0.51
51 62 0.42
52 5 0.03
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAATGAATGA
Found at i:40846696 original size:101 final size:101
Alignment explanation
Indices: 40846457--40846696 Score: 295
Period size: 101 Copynumber: 2.4 Consensus size: 101
40846447 AAAGTGATGG
* * * * * *
40846457 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGCCACATGTATAGTAC
* * * * *
40846522 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTACGCGAACCAGAAAGATTCGA
* * * *
40846558 TCACGTGTGTAGTATTATGTGCAAGG-TACTACGTGTATCAGATATTAATGGCCACGTGTATAGT
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCAGA-ATGAAAGGCCACATGTATAGT
*
40846622 ACTATGTGCAGGCTACTACGTGAACCAGAAAGATT-GA
64 ACTATGTGCAGGCTACTACGCGAACCAGAAAGATTCGA
*
40846659 TCACGTGTGTAGTAGTATGTGAAGGCTACTACGTGTAT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
40846697 TGAATGATAA
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
100 4 0.03
101 68 0.57
102 47 0.39
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGCCACATGTATAGTAC
TATGTGCAGGCTACTACGCGAACCAGAAAGATTCGA
Found at i:40856211 original size:50 final size:50
Alignment explanation
Indices: 40856119--40856239 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
40856109 TGAGGTTATA
* * *
40856119 AGAGGTCTCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATG
* * * *
40856169 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATG
** * *
40856219 AGAACTCTCATGTAAGACCAT
1 AGAGGTCCCACGTAAGACCAT
40856240 ATCTAGGATA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATG
Found at i:40856537 original size:20 final size:20
Alignment explanation
Indices: 40856512--40856550 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
40856502 TAAGTTATTT
40856512 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
40856532 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
40856551 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:40865553 original size:49 final size:50
Alignment explanation
Indices: 40865481--40865616 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
40865471 TGAGGTTCTA
* * *
40865481 AGAGGTCTCACGTAAGACCATGTCTGGGACATGGCGT-GGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
* *
40865530 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
** * * * * *
40865580 AGAACTCTCATGTAAAACCATATCTAGGATATGGCAT
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCAT
40865617 TTGCAGTACA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 33 0.45
50 40 0.55
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
Found at i:40865898 original size:20 final size:20
Alignment explanation
Indices: 40865873--40865911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
40865863 TGAGTTATTT
40865873 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
40865893 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
40865912 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:40872280 original size:12 final size:13
Alignment explanation
Indices: 40872255--40872284 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
40872245 TGGGGTATAA
40872255 TTATTGCATTTAT
1 TTATTGCATTTAT
40872268 TTATTGC-TTTAT
1 TTATTGCATTTAT
40872280 TTATT
1 TTATT
40872285 CATGTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (13 bp):
TTATTGCATTTAT
Found at i:40874144 original size:40 final size:40
Alignment explanation
Indices: 40874016--40874151 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 40
40874006 TTTGGATAAA
* * * * * * *
40874016 AAAATGCCGCTAAAAATTGAGTATTACCGGCGCTTTACA-T
1 AAAACGCCGCTAAAAATCGAGCATCAGCGGCGC-TTCCAGG
* *
40874056 AAAACGTCGCTAAAGATCGAGCATCAGCGGCGCTTCCAGG
1 AAAACGCCGCTAAAAATCGAGCATCAGCGGCGCTTCCAGG
* * * * **
40874096 AAAGCGCCGCTAAAAAT-GAGCATTAGTGGCGTTTCTTGG
1 AAAACGCCGCTAAAAATCGAGCATCAGCGGCGCTTCCAGG
*
40874135 AAAAACGCCGCAAAAAA
1 -AAAACGCCGCTAAAAA
40874152 CCTAAGCCCA
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 21 0.28
40 54 0.72
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATCAGCGGCGCTTCCAGG
Found at i:40874254 original size:41 final size:41
Alignment explanation
Indices: 40874191--40874296 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
40874181 TTTCGGGGCA
40874191 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* * * *
40874232 TTAGAGGCGTTTTT-AAAGAAGCGTCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCAGGCTT
40874273 TTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGGCGTTTTTGAAAAAGCGC
40874297 TGCAAAAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 3 0.05
41 51 0.89
42 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
Found at i:40874584 original size:14 final size:15
Alignment explanation
Indices: 40874554--40874586 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
40874544 AAGGTTTATA
40874554 GATTATGGAATTAGG
1 GATTATGGAATTAGG
40874569 GATTATGGAA-TAGG
1 GATTATGGAATTAGG
40874583 GATT
1 GATT
40874587 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:40874688 original size:14 final size:14
Alignment explanation
Indices: 40874669--40874728 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
40874659 TAAATAAGGT
*
40874669 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
40874683 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
40874697 TTATGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
40874711 TTAGAGGTTAAGAG
1 TTAGGGGTTAGGAG
40874725 TTAG
1 TTAG
40874729 TGATTTAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:40874692 original size:7 final size:7
Alignment explanation
Indices: 40874669--40874720 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
40874659 TAAATAAGGT
40874669 TTAGGGG
1 TTAGGGG
**
40874676 TTAGTAG
1 TTAGGGG
40874683 TTAGGGG
1 TTAGGGG
40874690 TTAGGGG
1 TTAGGGG
*
40874697 TTATGGG
1 TTAGGGG
40874704 TTAGGGG
1 TTAGGGG
*
40874711 TTAGAGG
1 TTAGGGG
40874718 TTA
1 TTA
40874721 AGAGTTAGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:40874693 original size:21 final size:21
Alignment explanation
Indices: 40874669--40874728 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
40874659 TAAATAAGGT
40874669 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
40874690 TTAGGGGTTA-TGGGTTAGGGG
1 TTAGGGGTTAGT-AGTTAGGGG
*
40874711 TTAGAGGTTAAG-AGTTAG
1 TTAGGGGTT-AGTAGTTAG
40874729 TGATTTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:40876247 original size:38 final size:38
Alignment explanation
Indices: 40876167--40876248 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
40876157 GGTTACAAAC
* * * *
40876167 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGTTTTTTACATGTTCATCTCACAAAGTTTCG
*
40876205 TTTATCTGTTTTTTACATGTTCATCTCACAAAGTTTGG
1 TTTATCTGTTTTTTACATGTTCATCTCACAAAGTTTCG
40876243 TTTATC
1 TTTATC
40876249 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATCTGTTTTTTACATGTTCATCTCACAAAGTTTCG
Found at i:40879587 original size:43 final size:42
Alignment explanation
Indices: 40879517--40879673 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 42
40879507 CAAGAAGTGT
* * * * *
40879517 CGCTAAAGGT-TTGTTCTTTAACAGCGTTTATGATAAAAGCG
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCG
*
40879558 TCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCG
1 -CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCG
*
40879601 CTGCTAAAGGTCATGTTCTTTAGCGGTG-TTGTGACAAAAGCG
1 C-GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCG
40879643 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
1 -CGCTAAAGGTCATGTTCTTTAGCGGCGTTT
40879674 TTTCACATAA
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
42 49 0.48
43 53 0.52
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCG
Found at i:40880096 original size:69 final size:69
Alignment explanation
Indices: 40880020--40880272 Score: 185
Period size: 69 Copynumber: 3.6 Consensus size: 69
40880010 ATTAAATTTG
* * * *
40880020 AAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-GATTCT-AGAAT-AATCATACATGA
1 AAATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TGA-AATAAAT-ATACAGGA
40880081 TAAATCTA
62 TAAATCTA
* *
40880089 AAATAATATTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATATACAGGATAAA
1 AAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATATACAGGATAAA
*
40880154 TTTA
66 TCTA
** ** * * * ** * *
40880158 AAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATAAATTACAAAT-AATAAAACATGAT
1 AAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTGAAATAAAT-ATACAGGAT
40880221 AAATCTA
63 AAATCTA
* * * * *
40880228 AAATAATAATATACAATAAACTTAGATAATATTAATGATTAATTT
1 AAATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTT
40880273 AATGATAATA
Statistics
Matches: 147, Mismatches: 28, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
68 8 0.05
69 65 0.44
70 65 0.44
71 9 0.06
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (69 bp):
AAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATATACAGGATAAA
TCTA
Found at i:40880107 original size:24 final size:24
Alignment explanation
Indices: 40880077--40880266 Score: 119
Period size: 23 Copynumber: 8.2 Consensus size: 24
40880067 ATAATCATAC
40880077 ATGATAAATCTAAAATAATATTAT
1 ATGATAAATCTAAAATAATATTAT
* *
40880101 ATAATAAAT-TTAAA-AATATTA-
1 ATGATAAATCTAAAATAATATTAT
* * *
40880122 ATGATAAATTTGAAATAA-ATATAC
1 ATGATAAATCTAAAATAATAT-TAT
* * *
40880146 AGGATAAATTTAAAATAATGTTA-
1 ATGATAAATCTAAAATAATATTAT
* * * *
40880169 ACGATGAATTTAAAATAATAATAT
1 ATGATAAATCTAAAATAATATTAT
** *
40880193 -TGATAAAT-TACAAATAATAAAAC
1 ATGATAAATCTA-AAATAATATTAT
*
40880216 ATGATAAATCTAAAATAATAATAT
1 ATGATAAATCTAAAATAATATTAT
** * *
40880240 ACAATAAA-CTTAGATAATATTA-
1 ATGATAAATCTAAAATAATATTAT
40880262 ATGAT
1 ATGAT
40880267 TAATTTAATG
Statistics
Matches: 133, Mismatches: 24, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
21 8 0.06
22 18 0.14
23 54 0.41
24 50 0.38
25 3 0.02
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
ATGATAAATCTAAAATAATATTAT
Found at i:40880201 original size:23 final size:23
Alignment explanation
Indices: 40880066--40880283 Score: 140
Period size: 24 Copynumber: 9.3 Consensus size: 23
40880056 ATGATTCTAG
* *
40880066 AATAATCATACATGATAAATCTAA
1 AATAATAATA-ATGATAAATTTAA
* *
40880090 AATAATATTATATAATAAATTT-A
1 AATAATAATA-ATGATAAATTTAA
* *
40880113 AA-AATATTAATGATAAATTTGA
1 AATAATAATAATGATAAATTTAA
*
40880135 AATAA-ATATACAGGATAAATTTAA
1 AATAATA-ATA-ATGATAAATTTAA
** * *
40880159 AATAATGTTAACGATGAATTTAA
1 AATAATAATAATGATAAATTTAA
*
40880182 AATAATAATATTGATAAA-TTACA
1 AATAATAATAATGATAAATTTA-A
* *
40880205 AATAATAAAACATGATAAATCTAA
1 AATAATAATA-ATGATAAATTTAA
** *
40880229 AATAATAATATACAATAAACTT-A
1 AATAATAATA-ATGATAAATTTAA
* * *
40880252 GATAATATTAATGATTAATTTAA
1 AATAATAATAATGATAAATTTAA
*
40880275 TGATAATAA
1 -AATAATAA
40880284 GTATAAACAT
Statistics
Matches: 150, Mismatches: 34, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
21 10 0.07
22 21 0.14
23 51 0.34
24 66 0.44
25 2 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (23 bp):
AATAATAATAATGATAAATTTAA
Found at i:40880222 original size:70 final size:69
Alignment explanation
Indices: 40880066--40880271 Score: 209
Period size: 70 Copynumber: 3.0 Consensus size: 69
40880056 ATGATTCTAG
* * *
40880066 AATAATCATACATGATAAATCTAAAATAATATTATATAATAAATTTAAAAATATTAATGATAAAT
1 AATAATAATACATGATAAATCTAAAATAATATTATACAATAAATTTAAAAATAATAATGATAAAT
**
40880131 TTGA
66 TACA
* * * * * *
40880135 AATAA-ATATACAGGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATA
1 AATAATA-ATACATGATAAATCTAAAATAATATTATACAATAAATTT-AAA-AATAATAATGATA
40880198 AATTACA
63 AATTACA
* * * * * *
40880205 AATAATAAAACATGATAAATCTAAAATAATAATATACAATAAACTTAGATAATATTAATGATTAA
1 AATAATAATACATGATAAATCTAAAATAATATTATACAATAAATTTA-AAAATAATAATGATAAA
40880270 TT
65 TT
40880272 TAATGATAAT
Statistics
Matches: 108, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
68 8 0.07
69 32 0.30
70 58 0.54
71 10 0.09
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (69 bp):
AATAATAATACATGATAAATCTAAAATAATATTATACAATAAATTTAAAAATAATAATGATAAAT
TACA
Found at i:40881079 original size:20 final size:20
Alignment explanation
Indices: 40881052--40881105 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
40881042 CTTTTTCCCT
*
40881052 CCCTTTACACTGATTTTTTT
1 CCCTTTACACTGATTTTTTC
* *
40881072 CTCTTTACACTGA--CTTTC
1 CCCTTTACACTGATTTTTTC
40881090 CCCTTTACACTGATTT
1 CCCTTTACACTGATTT
40881106 CCACCCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.17, C:0.30, G:0.06, T:0.48
Consensus pattern (20 bp):
CCCTTTACACTGATTTTTTC
Found at i:40881628 original size:44 final size:44
Alignment explanation
Indices: 40881565--40882284 Score: 240
Period size: 44 Copynumber: 16.7 Consensus size: 44
40881555 GACTTGTAGC
* * *
40881565 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* * *** **
40881609 GATCTGATTCACTGCAACTTCAGAGAGAT-AGATTTTTGGTTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* * * *** * *
40881652 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTTTATTTC
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TCCATCATTTT
* **
40881697 G-TCTGCTCCACTGCAACTTCAG-GAAGATAAGA-CC-TGA-TGC
1 GATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCCATCATTTT
* * * *
40881737 GATCTGCTCTACTACAACTTTAGAGAGATAAGATCCATCACTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* * * * *
40881781 AATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TAT-TTTATT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATT-TT
* * ***
40881824 CAATCTGCTCCACTGTAACTTCA-AGGAGATAAGATTGGT--TTATT
1 -GATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCCATCATT-TT
* * * * * **
40881868 CAGTCTGCTCTACTGTAACTTCAGGGAGATAAGA--C-TGGA-TGC
1 GA-TCTGCTCCACTGCAACTTCAGAGAGATAAGATCCAT-CATTTT
* * * *
40881910 GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTAGCATTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* * * * * ** *
40881954 AATCTGCTCCACTACAACTTCAGGGAGATAGGAT-TATTGGTTTC
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCA-TCATTTT
* ** * * * *
40881998 AATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTCGTCATCTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCAT-TTT
* * * **
40882043 -AGTCTGCCCCACTGCAACTTCAAAGAGATAAGAT---TGGA-TGC
1 GA-TCTGCTCCACTGCAACTTCAGAGAGATAAGATCCAT-CATTTT
* * ** *
40882084 GATCTGCT-CTCTACAACTTCAGAGAGATAAGATCTGT-GTTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* * * ***
40882126 AATCCGCTCCACTGCAACTTCA-AGGAGATAGGATTGGT--TTCTT
1 GATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCCATCATT-TT
* * * * * * * *
40882169 CAATCTGCTCTATTGCAACTTCA-AGGAAATGAGA-CTA-GA-TGT
1 -GATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCCATCATTTT
* ** **
40882211 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
* ** *
40882255 AATCCACTCCACTGCAACTTCAGGGAGATA
1 GATCTGCTCCACTGCAACTTCAGAGAGATA
40882285 GGGTTGGTTT
Statistics
Matches: 511, Mismatches: 124, Indels: 82
0.71 0.17 0.11
Matches are distributed among these distances:
40 25 0.05
41 90 0.18
42 21 0.04
43 74 0.14
44 266 0.52
45 35 0.07
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
GATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTT
Found at i:40881900 original size:173 final size:172
Alignment explanation
Indices: 40881525--40882195 Score: 800
Period size: 173 Copynumber: 3.9 Consensus size: 172
40881515 GCTATCTTCC
* * * * **
40881525 GTCTGCTCCACTACAACTTCAGTGAGATAAGACTTG-TAGCGATCTTCTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGAT-GCGATCTGCTCTACTACAACTTCAGA
* * * * *
40881589 GAGATAAGATCCATCATTTTGATCTGATTCACTGCAACTTCAGAGAGATA-GATT-TTTGGTTTT
65 GAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTT--TTTC
* *
40881652 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTTTATTTC-
128 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTA-TTCA
* *
40881697 GTCTGCTCCACTGCAACTTCAGGAAGATAAGACCT-GATGCGATCTGCTCTACTACAACTTTAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTACAACTTCAGA
*
40881761 GAGATAAGATCCATCACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTTTATTCA
65 GAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTTT-TTCA
*
40881826 ATCTGCTCCACTGTAACTTCAAGGAGATAAGATTGGTTTATTCA
129 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
* *
40881870 GTCTGCTCTACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTACAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTACAACTTCAGAG
* * * * * *
40881935 AGATAAGATCTAGCATTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGTTTCAA
66 AGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATT-TTTTCAA
** * * * * * *
40882000 TCTGCTCTGCTGCAACTTTAGGGAGATAAGATTCGTCATCTTTA
130 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGT-TTATTCA
* ** *
40882044 GTCTGCCCCACTGCAACTTCAAAGAGATAAGATTGGATGCGATCTGCTCT-CTACAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTACAACTTCAGAG
** * * *
40882108 AGATAAGATCTGT-GTTTTAATCCGCTCCACTGCAACTTCA-AGGAGATAGGATTGGTTTCTTCA
66 AGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGA-GAGATAGGATT-ATTTTTTCA
* *
40882171 ATCTGCTCTATTGCAACTTCAAGGA
129 ATCTGCTCCACTGCAACTTCAAGGA
40882196 AATGAGACTA
Statistics
Matches: 433, Mismatches: 55, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
172 163 0.38
173 218 0.50
174 52 0.12
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (172 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTACAACTTCAGAG
AGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTTTTTCAAT
CTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
Found at i:40881928 original size:129 final size:128
Alignment explanation
Indices: 40881786--40882030 Score: 298
Period size: 129 Copynumber: 1.9 Consensus size: 128
40881776 ACTTTAATCC
* * ** **
40881786 GCTCCACTGCAACTTCAGAGAGATAGGAT-TA-TTTTATTCAATCTGCTCCACTGTAACTTCAAG
1 GCTCCACTACAACTTCAGAGAGATAAGATCTAGCATT-TT-AATCTGCTCCACTACAACTTCAAG
* * *
40881849 GAGATAAGATTGGTT-TATTCAGTCTGCTCTACTGTAACTTCAGGGAGATAAGACTGGATGCGAT
64 GAGATAAGATT-ATTGT-TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGGATGCGAT
40881913 CT
127 CT
* *
40881915 GCTCTACTACAACTTCAGAGAGATAAGATCTAGCATTTTAATCTGCTCCACTACAACTTCAGGGA
1 GCTCCACTACAACTTCAGAGAGATAAGATCTAGCATTTTAATCTGCTCCACTACAACTTCAAGGA
* * *
40881980 GATAGGATTATTGGTTTCAATCTGCTCTGCTGCAACTTTAGGGAGATAAGA
66 GATAAGATTATT-GTTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGA
40882031 TTCGTCATCT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
128 2 0.02
129 89 0.91
130 5 0.05
131 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (128 bp):
GCTCCACTACAACTTCAGAGAGATAAGATCTAGCATTTTAATCTGCTCCACTACAACTTCAAGGA
GATAAGATTATTGTTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
Found at i:40882285 original size:129 final size:129
Alignment explanation
Indices: 40881955--40882304 Score: 409
Period size: 129 Copynumber: 2.7 Consensus size: 129
40881945 TAGCATTTTA
* * * * * * ** *
40881955 ATCTGCTCCACTACAACTTCAGGGAGATAGGAT-TATTGGTTTCAATCTGCTCTGCTGCAACTTT
1 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCGCTCCACTGCAACTTC
* * * * * * * *
40882019 AGGGAGATAAGATTCGTCATCTTTAGTCTGCCCCACTGCAACTTCAAAGAGATAAGATTGGATGC
65 AGGGAGATAGGATTGGT-TTCTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGACTAGATGC
40882084 G
129 G
40882085 ATCTGCTCT-CTACAACTTCAGAGAGATAAGATCTGT-GTTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCA
* * * * * * *
40882148 AGGAGATAGGATTGGTTTCTTCAATCTGCTCTATTGCAACTTCAAGGAAATGAGACTAGATGTG
66 GGGAGATAGGATTGGTTTCTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGACTAGATGCG
* *
40882212 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCA
1 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCA
* *
40882277 GGGAGATAGGGTTGGTTTCTTCGATCTG
66 GGGAGATAGGATTGGTTTCTTCAATCTG
40882305 TTCTCTAGGG
Statistics
Matches: 188, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
127 45 0.24
128 61 0.32
129 73 0.39
130 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAGGATTGGTTTCTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGACTAGATGCG
Done.