Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 89 of 187
Found at i:26579518 original size:22 final size:22
Alignment explanation
Indices: 26579492--26579536 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
26579482 TTATTCAAGG
26579492 TCTTCTACCATAAATATTCTTC
1 TCTTCTACCATAAATATTCTTC
26579514 TCTTCTACCATAAATATTCTTC
1 TCTTCTACCATAAATATTCTTC
26579536 T
1 T
26579537 TTTTTTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTTCTACCATAAATATTCTTC
Found at i:26581396 original size:16 final size:16
Alignment explanation
Indices: 26581377--26581409 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
26581367 AAAGAAGGGA
26581377 CGAATCAAATTATCAT
1 CGAATCAAATTATCAT
26581393 CGAATCAAATTATCAT
1 CGAATCAAATTATCAT
26581409 C
1 C
26581410 CCATTGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (16 bp):
CGAATCAAATTATCAT
Found at i:26584692 original size:22 final size:22
Alignment explanation
Indices: 26584666--26584710 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26584656 ATTATATGTA
26584666 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
26584688 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
26584710 T
1 T
26584711 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:26587708 original size:39 final size:37
Alignment explanation
Indices: 26587638--26587710 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
26587628 AATAGATTAA
26587638 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
1 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
*
26587675 TATTAATTTAATATTAAAGTGA-TTATCTTAATATTA
1 TATTAAATTAA-ATTAAA-T-ACTTATCTTAATATTA
26587711 AATTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 6 0.19
39 15 0.47
40 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (37 bp):
TATTAAATTAAATTAAATACTTATCTTAATATTATTT
Found at i:26587774 original size:61 final size:59
Alignment explanation
Indices: 26587702--26587817 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 59
26587692 AGTGATTATC
* * * *
26587702 TTAATATTAAATTAAATTTAATGGTTATCCTATGTATAAA-ATTGTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATAGTTAT-CT-TG-ATAAATATTATATTAATTTAATAAGAT
* *
26587763 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAATTTAATA
26587818 TTAAAGTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.10
59 17 0.35
60 2 0.04
61 24 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:26593283 original size:17 final size:17
Alignment explanation
Indices: 26593268--26593303 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26593258 AATTAAAAAG
26593268 AAAGATAAATAAAAAATA
1 AAAGA-AAATAAAAAATA
*
26593286 AAAGAAAATAAAAGATA
1 AAAGAAAATAAAAAATA
26593303 A
1 A
26593304 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAGAAAATAAAAAATA
Found at i:26593295 original size:10 final size:10
Alignment explanation
Indices: 26593263--26593306 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
26593253 AAAAAAATTA
26593263 AAAAGAAAGAT
1 AAAAGAAA-AT
*
26593274 AAATAAAAAAT
1 AAA-AGAAAAT
26593285 AAAAGAAAAT
1 AAAAGAAAAT
*
26593295 AAAAGATAAT
1 AAAAGAAAAT
26593305 AA
1 AA
26593307 TAATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 17 0.59
11 8 0.28
12 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (10 bp):
AAAAGAAAAT
Found at i:26593308 original size:3 final size:3
Alignment explanation
Indices: 26593300--26593348 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
26593290 AAAATAAAAG
26593300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26593348 A
1 A
26593349 ACTCAATGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26593488 original size:15 final size:15
Alignment explanation
Indices: 26593468--26593546 Score: 65
Period size: 15 Copynumber: 5.2 Consensus size: 15
26593458 GTATAAGAAT
26593468 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
*
26593483 AAAAAATTAGTAAAAT-
1 AAAAAA-TA-AAAAATA
*
26593499 -AAAAATAAATAATA
1 AAAAAATAAAAAATA
*
26593513 TAAAAAATAATAAATA
1 -AAAAAATAAAAAATA
*
26593529 AAATAAA-ATAAAATA
1 AAA-AAATAAAAAATA
26593544 AAA
1 AAA
26593547 GGGGGTGGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.08
14 2 0.04
15 23 0.45
16 17 0.33
17 5 0.10
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:26593488 original size:49 final size:45
Alignment explanation
Indices: 26593409--26593546 Score: 122
Period size: 49 Copynumber: 3.0 Consensus size: 45
26593399 AAACACTTAA
* * *
26593409 AAATAGAAATAACAAA-AAAAATTAAAAAAAATT-TAAAATATAAGTAT
1 AAATA-AAATAAAAAATAAAAAAT-AAAAAAATTATAAAATA-AA-AAT
26593456 AAGTATAAGAATAAAAAATAAAAAATAAAAAAATTAGTAAAATAAAAAT
1 AA--ATAA-AATAAAAAATAAAAAATAAAAAAATTA-TAAAATAAAAAT
* *
26593505 AAATAATATAAAAAATAATAAATAAAATAAA--ATAAAATAAAA
1 AAATAAAATAAAAAATAAAAAATAAAA-AAATTATAAAATAAAA
26593547 GGGGGTGGCC
Statistics
Matches: 79, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
44 10 0.13
45 1 0.01
46 19 0.24
47 9 0.11
48 1 0.01
49 24 0.30
50 8 0.10
51 7 0.09
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.22
Consensus pattern (45 bp):
AAATAAAATAAAAAATAAAAAATAAAAAAATTATAAAATAAAAAT
Found at i:26593524 original size:19 final size:19
Alignment explanation
Indices: 26593460--26593546 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 19
26593450 AAGTATAAGT
*
26593460 ATAAGAATAAAAA-ATAAA
1 ATAATAATAAAAATATAAA
26593478 A-AATAA-AAAAATTAGTAAA
1 ATAATAATAAAAA-TA-TAAA
*
26593497 ATAAAAATAAATAATATAAA
1 ATAATAATAAA-AATATAAA
*
26593517 A-AATAATAAATAAAATAAA
1 ATAATAATAAA-AATATAAA
26593536 ATAA-AATAAAA
1 ATAATAATAAAA
26593547 GGGGGTGGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
16 5 0.09
17 4 0.07
18 3 0.05
19 28 0.48
20 11 0.19
21 5 0.09
22 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
ATAATAATAAAAATATAAA
Found at i:26593546 original size:10 final size:10
Alignment explanation
Indices: 26593493--26593546 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
26593483 AAAAAATTAG
26593493 TAAAATAAAA
1 TAAAATAAAA
*
26593503 -ATAAATAATA
1 TA-AAATAAAA
26593513 TAAAA-AATAA
1 TAAAATAA-AA
26593523 T-AAATAAAA
1 TAAAATAAAA
26593532 TAAAATAAAA
1 TAAAATAAAA
26593542 TAAAA
1 TAAAA
26593547 GGGGGTGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 9 0.24
10 27 0.73
11 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:26593938 original size:104 final size:102
Alignment explanation
Indices: 26593797--26593992 Score: 261
Period size: 104 Copynumber: 1.9 Consensus size: 102
26593787 ACGCTCTGAC
* * *
26593797 TTTGAAAAATTAGCTCCAGGTTTCACACGGCCTAGGACACTCC-CGCGTGTCCAGGCCGTGTGGG
1 TTTGAAAAATTAGCTCCAAGTTTCACACGGCCAAGGACACGCCTC-CGTGTCCAGGCCGTGTGGG
* *
26593861 TCACATGGCCATGTCGCCAGGCCGTGTAATCGTTGAATT
65 TCACACGACCATGT-GCCAGGCCGTGTAATCGTTGAATT
* * *
26593900 TTTGAAAATTTAAG-TCCAAGTATTCACACGGCCAAGGACACGCCTCTGTGTCCAGGCTGTGTGG
1 TTTGAAAAATT-AGCTCCAAGT-TTCACACGGCCAAGGACACGCCTCCGTGTCCAGGCCGTGTGG
*
26593964 GTCACACGACCATGTGCCAGGCTGTGTAA
64 GTCACACGACCATGTGCCAGGCCGTGTAA
26593993 CTCACTATCG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
103 29 0.36
104 51 0.63
105 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.25
Consensus pattern (102 bp):
TTTGAAAAATTAGCTCCAAGTTTCACACGGCCAAGGACACGCCTCCGTGTCCAGGCCGTGTGGGT
CACACGACCATGTGCCAGGCCGTGTAATCGTTGAATT
Found at i:26596957 original size:12 final size:12
Alignment explanation
Indices: 26596935--26596973 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26596925 AAGAAAAATT
26596935 ATAAAAC-AAAA
1 ATAAAACTAAAA
*
26596946 ATTAAACTAAAA
1 ATAAAACTAAAA
*
26596958 ATAAAAATAAAA
1 ATAAAACTAAAA
26596970 ATAA
1 ATAA
26596974 GTATAAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAACTAAAA
Found at i:26597719 original size:16 final size:16
Alignment explanation
Indices: 26597698--26597728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26597688 TTCATTATTA
*
26597698 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
26597714 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26597729 GCATGAAAAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:26599422 original size:38 final size:38
Alignment explanation
Indices: 26599360--26599452 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 38
26599350 AATAGTTTAA
* * *
26599360 TATTAAATTAA-ATTTAATACTTATTTGAAAATTATTT
1 TATTAATTTAATATTAAACACTTATTTGAAAATTATTT
*
26599397 TATTAATTTAATATTAAACACTTATTTTAAAATTATTT
1 TATTAATTTAATATTAAACACTTATTTGAAAATTATTT
26599435 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
26599453 GTGATTATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 10 0.20
38 41 0.80
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (38 bp):
TATTAATTTAATATTAAACACTTATTTGAAAATTATTT
Found at i:26599444 original size:19 final size:19
Alignment explanation
Indices: 26599382--26599450 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
26599372 TTTAATACTT
26599382 ATTTGAAAATTATTTTATTA
1 ATTT-AAAATTATTTTATTA
* ***
26599402 ATTTAATATTA-AACACTTA
1 ATTTAAAATTATTTTA-TTA
*
26599421 TTTTAAAATTATTTTATTA
1 ATTTAAAATTATTTTATTA
*
26599440 ATTTAATATTA
1 ATTTAAAATTA
26599451 AAGTGATTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.03
19 30 0.83
20 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
ATTTAAAATTATTTTATTA
Found at i:26617103 original size:9 final size:10
Alignment explanation
Indices: 26617091--26617131 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
26617081 TGATCAGTTT
26617091 AATTA-AAAA
1 AATTATAAAA
26617100 AATTATTAAAA
1 AATTA-TAAAA
26617111 AATTATAAAA
1 AATTATAAAA
26617121 ATATTA-AAAA
1 A-ATTATAAAA
26617131 A
1 A
26617132 TTGATTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.17
10 11 0.38
11 13 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATTATAAAA
Found at i:26617112 original size:11 final size:11
Alignment explanation
Indices: 26617096--26617133 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
26617086 AGTTTAATTA
26617096 AAAAAATTATT
1 AAAAAATTATT
26617107 AAAAAATTA-T
1 AAAAAATTATT
26617117 -AAAAA-TATT
1 AAAAAATTATT
26617126 AAAAAATT
1 AAAAAATT
26617134 GATTCAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 2 0.08
9 6 0.25
10 6 0.25
11 10 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATTATT
Found at i:26617125 original size:19 final size:20
Alignment explanation
Indices: 26617091--26617133 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
26617081 TGATCAGTTT
26617091 AATTAAAAAAATTATTAAAA
1 AATTAAAAAAATTATTAAAA
*
26617111 AATTATAAAAA-TATTAAAA
1 AATTAAAAAAATTATTAAAA
26617130 AATT
1 AATT
26617134 GATTCAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAAAAAAATTATTAAAA
Found at i:26621200 original size:44 final size:44
Alignment explanation
Indices: 26621149--26621237 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
26621139 TACCGATGGG
*
26621149 TGGTTTAACTAGCCTTCAAGTCTCATTCTTTTGAAACGATTTCA
1 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
* *
26621193 TGGTTTAACTAGCCTCCAAGTCTCGTTCTTTTGAAGCGATTTCA
1 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
26621237 T
1 T
26621238 CTCTTCTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (44 bp):
TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAACGATTTCA
Found at i:26622520 original size:32 final size:32
Alignment explanation
Indices: 26622479--26622542 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
26622469 TATTTGAAAA
*
26622479 GGCTTTTATTGCACAAGACTATCATACCTTTC
1 GGCTTTTATTGCACAAGACTATCATAACTTTC
26622511 GGCTTTTATTGCACAAGACTATCATAACTTTC
1 GGCTTTTATTGCACAAGACTATCATAACTTTC
26622543 TCACTCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (32 bp):
GGCTTTTATTGCACAAGACTATCATAACTTTC
Found at i:26626409 original size:25 final size:25
Alignment explanation
Indices: 26626381--26626577 Score: 126
Period size: 25 Copynumber: 7.6 Consensus size: 25
26626371 AAGTAAAACC
* **
26626381 AAGCATTTGTGGCGAGTTATCTTTA
1 AAGCCTTTGTGGCGAGTTATCTAAA
* *
26626406 AAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGCGAGTTATCTAAA
* *
26626431 AAGCCTTTGTGGTGAGTTGGAAAATTATCAGAA
1 AAGCCTTTGTGGCGAGTT-----A-TCT-A-AA
* * *
26626464 AATCCTTTTGTGGTGAGTTATCTATA
1 AAGCC-TTTGTGGCGAGTTATCTAAA
* * *
26626490 AAGCCTTTGTGACAAGTTATCTATA
1 AAGCCTTTGTGGCGAGTTATCTAAA
* * * *
26626515 AAGCCTTTGCGGTGAATTATCTGAA
1 AAGCCTTTGTGGCGAGTTATCTAAA
**
26626540 AAGCCTTTGTGGCGAGTTAT-TGTA
1 AAGCCTTTGTGGCGAGTTATCTAAA
*
26626564 AAGTCTTTGTGGCG
1 AAGCCTTTGTGGCG
26626578 TGTTGCACAA
Statistics
Matches: 135, Mismatches: 28, Indels: 19
0.74 0.15 0.10
Matches are distributed among these distances:
24 16 0.12
25 87 0.64
26 5 0.04
27 1 0.01
28 2 0.01
29 1 0.01
30 1 0.01
31 2 0.01
32 1 0.01
33 6 0.04
34 13 0.10
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAGTTATCTAAA
Found at i:26641560 original size:40 final size:39
Alignment explanation
Indices: 26641500--26641642 Score: 178
Period size: 40 Copynumber: 3.6 Consensus size: 39
26641490 TGTTTGAATA
* *
26641500 CACACACGTGCCCTTGATTGTACTTTGGTACCCCTAATTG
1 CACATACGTGCCCCTGATTGTACTTTGGTACCCCTAA-TG
* * *
26641540 CACATACGTGTCCCTGATTGTACTTCGGTACCCTTGAATG
1 CACATACGTGCCCCTGATTGTACTTTGGTACCCCT-AATG
*
26641580 CACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATG
1 CACATACGTGCCCCTGATTGTACTTTGGTACCCCT-AATG
* * *
26641620 CATATATGTGCCCCTGTTTGTAC
1 CACATACGTGCCCCTGATTGTAC
26641643 CTCAGTAACT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
40 88 0.98
41 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (39 bp):
CACATACGTGCCCCTGATTGTACTTTGGTACCCCTAATG
Found at i:26641635 original size:80 final size:80
Alignment explanation
Indices: 26641493--26641642 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
26641483 TAATTATTGT
* * *
26641493 TTGAATACACACACGTGCCCTTGATTGTACTTTGGTACCCCTAATTGCACATACGTGTCCCTGAT
1 TTGAATACACACACGTGCCCCTGATTGTACTTTGGTACCCCTAAATGCACATACGTGCCCCTGAT
26641558 TGTACTTCGGTACCC
66 TGTACTTCGGTACCC
* * * * * *
26641573 TTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCATATATGTGCCCCTGTT
1 TTGAATACACACACGTGCCCCTGATTGTACTTTGGTACCCCTAAATGCACATACGTGCCCCTGAT
26641638 TGTAC
66 TGTAC
26641643 CTCAGTAACT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (80 bp):
TTGAATACACACACGTGCCCCTGATTGTACTTTGGTACCCCTAAATGCACATACGTGCCCCTGAT
TGTACTTCGGTACCC
Found at i:26657566 original size:16 final size:15
Alignment explanation
Indices: 26657547--26657585 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
26657537 AAGTATAATA
26657547 TTATTGAAATTTTAGT
1 TTATTGAAATTTT-GT
26657563 TTATT-AAATTTTGT
1 TTATTGAAATTTTGT
*
26657577 TAATTGAAA
1 TTATTGAAA
26657586 GAATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 10 0.48
16 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
TTATTGAAATTTTGT
Found at i:26661364 original size:64 final size:64
Alignment explanation
Indices: 26661248--26661402 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
26661238 GGATCACATG
* * * *
26661248 GGCCAGAGACACGAGCGTGTGTCCAGGCCATGTGACTCACTATCTGTAATTTAGAAACCATAAA
1 GGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCACAAA
* ** * * * **
26661312 GGCCAGAGACACGGGCGTGTGTCCAGGCCGTGTAACTTGCTGTTTGTGATTTAAAAACCACACG
1 GGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCACAAA
* *
26661376 GGCCAGAGACACAGGTGTGTGT-CAGGC
1 GGCCAGAGACACGGGCGTGTGTCCAGGC
26661403 TGTGCGAGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 5 0.06
64 72 0.94
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (64 bp):
GGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACTCACTATCTGTAATTTAAAAACCACAAA
Found at i:26668200 original size:17 final size:17
Alignment explanation
Indices: 26668158--26668200 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
26668148 ATCTCAAGAA
*
26668158 AATAGAAGCTATAATTG
1 AATAGAAGTTATAATTG
*
26668175 AATAGAAGTTATAGTTG
1 AATAGAAGTTATAATTG
*
26668192 AATGGAAGT
1 AATAGAAGT
26668201 AACCGGCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.30
Consensus pattern (17 bp):
AATAGAAGTTATAATTG
Found at i:26670055 original size:19 final size:17
Alignment explanation
Indices: 26670033--26670078 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
26670023 CATTTTCCTT
26670033 TTTTTCTTTTCTTTTTAA
1 TTTTTCTTTTC-TTTTAA
26670051 GTTTTT-TCTTTCTTTTAA
1 -TTTTTCT-TTTCTTTTAA
26670069 TTTTTCTTTT
1 TTTTTCTTTT
26670079 TGATTGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 9 0.36
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTAA
Found at i:26670783 original size:63 final size:64
Alignment explanation
Indices: 26670704--26670829 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 64
26670694 GATCACATAG
* *
26670704 GCCAGAGACACAGGCGTGAGTCTAGGCCGTATGACTCACT-TTTGTAATTTAGAAACCACACGA
1 GCCAGAGACACAGGCGTGAGTCTAGGCCATATAACTCACTATTTGTAATTTAGAAACCACACGA
* * * *
26670767 GCCAGAGACACAGGCGTGTGTCTAGGTCATGTAACTCACTATTTGTGATTTAGAAACCACACG
1 GCCAGAGACACAGGCGTGAGTCTAGGCCATATAACTCACTATTTGTAATTTAGAAACCACACG
26670830 GGCGTGTGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 35 0.62
64 21 0.38
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (64 bp):
GCCAGAGACACAGGCGTGAGTCTAGGCCATATAACTCACTATTTGTAATTTAGAAACCACACGA
Found at i:26674730 original size:190 final size:189
Alignment explanation
Indices: 26674407--26674788 Score: 683
Period size: 190 Copynumber: 2.0 Consensus size: 189
26674397 TAGACTAAAG
* *
26674407 ATTTGTCTGACTGAGTGTATCACTTTGAAATGCTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAAC
1 ATTTGTCTGACCGAGTGCATCACTTTGAAATGCTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAAC
* *
26674472 TTTGAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAATATTTGATACC
66 TTTAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAAAATTTGATACC
*
26674537 TCGTATTGATGACTTGTTTGATCAGTTGTGATAAGCTACTGTGTTTTTAAAAGATTGACA
131 TCGTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTT-AAAGATTGACA
* * *
26674597 ATTTGTCTGACCGAGTGCATCACTTTGAAATGCTTTAGTGTTTTTAGTGAAAAGAAATAAAGAAC
1 ATTTGTCTGACCGAGTGCATCACTTTGAAATGCTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAAC
26674662 TTTAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAAAATTTGATACC
66 TTTAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAAAATTTGATACC
26674727 TCGTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACA
131 TCGTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACA
26674786 ATT
1 ATT
26674789 CGATTAGATT
Statistics
Matches: 184, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
189 14 0.08
190 170 0.92
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (189 bp):
ATTTGTCTGACCGAGTGCATCACTTTGAAATGCTCTAGTGTTGTTAGTGAAAAGAAAGAAAGAAC
TTTAAGATTGTGTATTGACTACAGAAAGTTGATAATAGTCACCATGAAGAATAAAATTTGATACC
TCGTATTGATGACTTGTTTGATCAGTTGTGAGAAGCTACTGTGTTTTTAAAGATTGACA
Found at i:26682711 original size:45 final size:44
Alignment explanation
Indices: 26682628--26682718 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
26682618 ACCTCTATTC
*
26682628 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
26682672 CATTCAACCAAACAGTTGATTTGCTATTACACGTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
26682717 CA
1 CA
26682719 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:26682718 original size:16 final size:16
Alignment explanation
Indices: 26682697--26682734 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
26682687 TTGATTTGCT
*
26682697 ATTACACGTCTATTCC
1 ATTACACCTCTATTCC
26682713 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
26682729 ATTACA
1 ATTACA
26682735 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:26683426 original size:10 final size:9
Alignment explanation
Indices: 26683422--26683455 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
26683412 GTTTATTTAA
26683422 TTTTAATTT
1 TTTTAATTT
26683431 TATTTAATTT
1 T-TTTAATTT
*
26683441 TTTCAATTT
1 TTTTAATTT
26683450 TTTTAA
1 TTTTAA
26683456 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTAATTT
Found at i:26683432 original size:16 final size:17
Alignment explanation
Indices: 26683403--26683441 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
26683393 TTTTTTTTTG
*
26683403 AATTTTTATGTTTATTT
1 AATTTTAATGTTTATTT
26683420 AATTTTAAT-TTTATTT
1 AATTTTAATGTTTATTT
26683436 AATTTT
1 AATTTT
26683442 TTCAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
AATTTTAATGTTTATTT
Found at i:26684036 original size:18 final size:19
Alignment explanation
Indices: 26684007--26684046 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
26683997 CATTGAAGGG
26684007 ATTTTCTTTTTCATTTTTC
1 ATTTTCTTTTTCATTTTTC
*
26684026 ATTTT-TTTTTCCTTTTTC
1 ATTTTCTTTTTCATTTTTC
26684044 ATT
1 ATT
26684047 ACTCAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTCTTTTTCATTTTTC
Found at i:26700317 original size:30 final size:31
Alignment explanation
Indices: 26700278--26700337 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26700268 AGAGGTGAGA
*
26700278 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
26700309 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
26700338 TAAAAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:26700565 original size:9 final size:9
Alignment explanation
Indices: 26700551--26700587 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26700541 TATAGTTTGA
26700551 TATTCGAAT
1 TATTCGAAT
26700560 TATTCGAAT
1 TATTCGAAT
*
26700569 TATTCGAGT
1 TATTCGAAT
26700578 TATTCGAAT
1 TATTCGAAT
26700587 T
1 T
26700588 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26702324 original size:18 final size:18
Alignment explanation
Indices: 26702291--26702344 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
26702281 CCAAAATTTT
26702291 ATAAAAATATATTTAAAAAA
1 ATAAAAA-A-ATTTAAAAAA
*
26702311 ATAAAAAAATTTAAAAAT
1 ATAAAAAAATTTAAAAAA
*
26702329 ATATAAAAATTCTAAA
1 ATAAAAAAATT-TAAA
26702345 TTATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 19 0.61
19 5 0.16
20 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAAAATTTAAAAAA
Found at i:26706221 original size:28 final size:27
Alignment explanation
Indices: 26706169--26706277 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
26706159 CGAGACTGAT
* * * *
26706169 TTTCTCACACAAGCTGTAATTTTTGAA
1 TTTCTCACACTAGTTGTGATATTTGAA
*
26706196 TTTGCTTACACTAGTTGTGATATTTGAA
1 TTT-CTCACACTAGTTGTGATATTTGAA
*
26706224 TTTTCTCACA-TGAGCTGTGATATTTGAA
1 -TTTCTCACACT-AGTTGTGATATTTGAA
*
26706252 CTTTCTCACACAAGTTGTGATATTTG
1 -TTTCTCACACTAGTTGTGATATTTG
26706278 GGCTGCTCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.06
28 61 0.90
29 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (27 bp):
TTTCTCACACTAGTTGTGATATTTGAA
Found at i:26706268 original size:56 final size:56
Alignment explanation
Indices: 26706167--26706277 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
26706157 CACGAGACTG
* * *
26706167 ATTTTCTCACACAAGCTGTAATTTTTGAATTTGCTTACACTAGTTGTGATATTTGA
1 ATTTTCTCACACAAGCTGTAATATTTGAATTTGCTCACACAAGTTGTGATATTTGA
** *
26706223 ATTTTCTCACATGAGCTGTGATATTTGAACTTT-CTCACACAAGTTGTGATATTTG
1 ATTTTCTCACACAAGCTGTAATATTTGAA-TTTGCTCACACAAGTTGTGATATTTG
26706278 GGCTGCTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 45 0.94
57 3 0.06
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (56 bp):
ATTTTCTCACACAAGCTGTAATATTTGAATTTGCTCACACAAGTTGTGATATTTGA
Found at i:26710222 original size:27 final size:27
Alignment explanation
Indices: 26710175--26710239 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
26710165 TCATAATCCA
* *
26710175 CCACAAAGGGCTTTTCTTCCAGAGTTTG
1 CCACAAA-GGCATTTCTTCCAGAGTTAG
26710203 CCACAAAGGCATTTCTTCCAGAGTTAG
1 CCACAAAGGCATTTCTTCCAGAGTTAG
*
26710230 CCATAAAGGC
1 CCACAAAGGC
26710240 TTCCTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
CCACAAAGGCATTTCTTCCAGAGTTAG
Found at i:26710435 original size:19 final size:19
Alignment explanation
Indices: 26710411--26710449 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26710401 ATGGCCATGG
26710411 ACTTTTCCTTTTAGGATTT
1 ACTTTTCCTTTTAGGATTT
26710430 ACTTTTCCTTTTAGGATTT
1 ACTTTTCCTTTTAGGATTT
26710449 A
1 A
26710450 TGTTTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (19 bp):
ACTTTTCCTTTTAGGATTT
Found at i:26718575 original size:27 final size:27
Alignment explanation
Indices: 26718537--26718725 Score: 173
Period size: 27 Copynumber: 7.0 Consensus size: 27
26718527 CACTTTACCA
**
26718537 TCGGGGGTATTTCAATAATTTTACCCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
* * * *
26718564 TCGGGGGCATTTGGGTAGTTTTAACCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
*
26718591 TCGAGGGTATTTCGGTAATTTTACCCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
** * *
26718618 TCAAGGGTATTTTGATAATTTTACCCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
* * * *
26718645 TCGGGAGTATTTCAGTCATTTTACTCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
* * *
26718672 TCGGGGGTATTTCAGTCATTCTA-CCT
1 TCGGGGGTATTTCGGTAATTTTACCCT
* * *
26718698 TATGGGGGTATTTCGATCATTTTACCCT
1 T-CGGGGGTATTTCGGTAATTTTACCCT
26718726 ATAAAATTAT
Statistics
Matches: 131, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.02
27 125 0.95
28 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TCGGGGGTATTTCGGTAATTTTACCCT
Found at i:26718707 original size:81 final size:82
Alignment explanation
Indices: 26718539--26718725 Score: 204
Period size: 81 Copynumber: 2.3 Consensus size: 82
26718529 CTTTACCATC
* * **
26718539 GGGGGTATTTCAATAATTTTACCCTTCGGGGGCATTTGGGTAGTTTTAACCTTCGAGGGTATTTC
1 GGGGGTATTTCGATAATTTTACCCTTCGGGAGCATTTCAGTAGTTTTAACCTTCGAGGGTATTTC
* *
26718604 GGTAATTTTACCCTTCA
66 AGTAATTCTACCCTTCA
* * * *
26718621 -AGGGTATTTTGATAATTTTACCCTTCGGGAGTATTTCAGTCA-TTTT-ACTCTTCGGGGGTATT
1 GGGGGTATTTCGATAATTTTACCCTTCGGGAGCATTTCAGT-AGTTTTAAC-CTTCGAGGGTATT
*
26718683 TCAGTCATTCTA-CCTT-A
64 TCAGTAATTCTACCCTTCA
*
26718700 TGGGGGTATTTCGATCATTTTACCCT
1 -GGGGGTATTTCGATAATTTTACCCT
26718726 ATAAAATTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 6 0.07
81 79 0.91
82 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (82 bp):
GGGGGTATTTCGATAATTTTACCCTTCGGGAGCATTTCAGTAGTTTTAACCTTCGAGGGTATTTC
AGTAATTCTACCCTTCA
Found at i:26721696 original size:18 final size:18
Alignment explanation
Indices: 26721673--26721721 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
26721663 TAAGTGCACT
26721673 TTAATTATTTTTTAAAAA
1 TTAATTATTTTTTAAAAA
*
26721691 TTAATTATTTTGTAAAAA
1 TTAATTATTTTTTAAAAA
*
26721709 TTTATTATTTTTT
1 TTAATTATTTTTT
26721722 CGACAAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTAATTATTTTTTAAAAA
Found at i:26722312 original size:17 final size:17
Alignment explanation
Indices: 26722292--26722345 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
26722282 GGTTAATGTA
26722292 TATGTATGAGGTTATAC
1 TATGTATGAGGTTATAC
* *
26722309 TATGTTTGA--TATGTA-
1 TATGTATGAGGT-TATAC
26722324 TATGTATGAGGTTATAC
1 TATGTATGAGGTTATAC
26722341 TATGT
1 TATGT
26722346 CAGAGTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 9 0.31
16 6 0.21
17 14 0.48
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (17 bp):
TATGTATGAGGTTATAC
Found at i:26738331 original size:27 final size:27
Alignment explanation
Indices: 26738270--26738331 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
26738260 AATGTTCTAG
* *
26738270 CGGACTATCCCGTGTTTATTATCTCAT
1 CGGACTATCCCGTGCTTATTATCCCAT
* *
26738297 C-AAGCTATCCCGTGCTTATTGTCCCAT
1 CGGA-CTATCCCGTGCTTATTATCCCAT
26738324 CGGACTAT
1 CGGACTAT
26738332 TTATGATGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 1 0.04
27 26 0.93
28 1 0.04
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (27 bp):
CGGACTATCCCGTGCTTATTATCCCAT
Found at i:26741577 original size:3 final size:3
Alignment explanation
Indices: 26741569--26741648 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
26741559 CTCTATGGGA
26741569 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
26741617 TTT TTT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
26741649 GGGATCCTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:26742597 original size:25 final size:24
Alignment explanation
Indices: 26742543--26742601 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
26742533 TTAATTAGTA
* *
26742543 TAAAATATT-AATAATTCAATAAAT
1 TAAAAT-TTAAATAATTAAATAAAC
26742567 TGAAAATTTAAATAATTAAATAAAAC
1 T-AAAATTTAAATAATTAAAT-AAAC
26742593 TAAAATTTA
1 TAAAATTTA
26742602 GTAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.10
25 23 0.77
26 4 0.13
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATTTAAATAATTAAATAAAC
Found at i:26750992 original size:10 final size:10
Alignment explanation
Indices: 26750973--26751019 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
26750963 AAATCTGTCG
26750973 AAAA-TAATC
1 AAAATTAATC
26750982 AAAATTAATC
1 AAAATTAATC
*
26750992 AAAATTTAATAT
1 AAAA-TTAAT-C
*
26751004 AAAATTAATT
1 AAAATTAATC
26751014 AAAATT
1 AAAATT
26751020 GAACATGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 16 0.47
11 10 0.29
12 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:26752149 original size:25 final size:25
Alignment explanation
Indices: 26752116--26752253 Score: 115
Period size: 25 Copynumber: 5.5 Consensus size: 25
26752106 AATTCTTTAG
*
26752116 AAAGTCTTTGTGGCTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
26752141 AAAGCCTTTATAGCGTATTATC-TG-G-
1 AAAGCCTTTGTGGC-TA--ATCTTGTGA
* *
26752166 AAAGCTTTTGTGACTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
26752191 AAAGCCTTTGTGGCCT-AT-TATCTAA
1 AAAGCCTTTGTGG-CTAATCT-TGTGA
* *
26752216 AAAGCCTTTGTGTCTAATCTTGTAA
1 AAAGCCTTTGTGGCTAATCTTGTGA
26752241 AAAGCCTTTGTGG
1 AAAGCCTTTGTGG
26752254 AGTATTATCT
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 6 0.07
25 67 0.75
26 6 0.07
27 2 0.02
28 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGCTAATCTTGTGA
Found at i:26752190 original size:50 final size:50
Alignment explanation
Indices: 26752115--26752268 Score: 209
Period size: 50 Copynumber: 3.1 Consensus size: 50
26752105 GAATTCTTTA
* * * *
26752115 GAAAGTCTTTGTGGCTAATCTTGTGAAAAGCCTTTATAGCGTATTATCTG
1 GAAAGCCTTTGTGACTAATCTTGTGAAAAGCCTTTGTGGCGTATTATCTG
* * *
26752165 GAAAGCTTTTGTGACTAATCTTGTGAAAAGCCTTTGTGGCCTATTATCTA
1 GAAAGCCTTTGTGACTAATCTTGTGAAAAGCCTTTGTGGCGTATTATCTG
* * * *
26752215 AAAAGCCTTTGTGTCTAATCTTGTAAAAAGCCTTTGTGGAGTATTATCTG
1 GAAAGCCTTTGTGACTAATCTTGTGAAAAGCCTTTGTGGCGTATTATCTG
26752265 GAAA
1 GAAA
26752269 AACTGTGTGA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (50 bp):
GAAAGCCTTTGTGACTAATCTTGTGAAAAGCCTTTGTGGCGTATTATCTG
Found at i:26754130 original size:17 final size:17
Alignment explanation
Indices: 26754080--26754134 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
26754070 ATAACTAATT
*
26754080 TTTATGTATTTTTAT-A
1 TTTATGTATTTTTTTAA
*
26754096 TTT-TATATTTTTTATAA
1 TTTATGTATTTTTT-TAA
26754113 TTTATGTATTTTTTTAA
1 TTTATGTATTTTTTTAA
26754130 TTTAT
1 TTTAT
26754135 TATCTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 12 0.36
18 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTATGTATTTTTTTAA
Found at i:26757552 original size:5 final size:5
Alignment explanation
Indices: 26757537--26757567 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
26757527 TGCAATTTAA
26757537 ATTTCC ATTTC ATTTC ATTTC ATTTC ATTTC
1 ATTT-C ATTTC ATTTC ATTTC ATTTC ATTTC
26757568 CACAACCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:26758961 original size:5 final size:5
Alignment explanation
Indices: 26758951--26758976 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26758941 TATGCATCTC
26758951 CAAAA CAAAA CAAAA CAAAA CAAAA C
1 CAAAA CAAAA CAAAA CAAAA CAAAA C
26758977 CCCAGATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:26761101 original size:19 final size:19
Alignment explanation
Indices: 26761077--26761125 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
26761067 AAACTGTCAA
26761077 TTCTTCTCAAATATTTTTT
1 TTCTTCTCAAATATTTTTT
26761096 TTCTTCTCAAATATTTTTT
1 TTCTTCTCAAATATTTTTT
26761115 TTCTTCTCAAA
1 TTCTTCTCAAA
26761126 CAAATCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.59
Consensus pattern (19 bp):
TTCTTCTCAAATATTTTTT
Found at i:26763666 original size:30 final size:30
Alignment explanation
Indices: 26763624--26763721 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 30
26763614 AGGAACTTGA
* *
26763624 GAAGACCTGATATCTCGTTTAAGAGCTTAG
1 GAAGACCTGATATCTCATTCAAGAGCTTAG
*
26763654 GAAGA-CTCGATATCTCATTCAAGATCTTAGGTTTG
1 GAAGACCT-GATATCTCATTCAAGAGCTTA-----G
*
26763689 AGAAGACCTGATATCTCATTCAGGAGCTT-G
1 -GAAGACCTGATATCTCATTCAAGAGCTTAG
26763719 GAA
1 GAA
26763722 AAATCCAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
29 5 0.09
30 24 0.44
35 1 0.02
36 23 0.42
37 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAGACCTGATATCTCATTCAAGAGCTTAG
Found at i:26764795 original size:14 final size:16
Alignment explanation
Indices: 26764767--26764800 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
26764757 TATATTATAT
26764767 AATAATAAAACAAAGA
1 AATAATAAAACAAAGA
26764783 AATAA-AAAA-AAAGA
1 AATAATAAAACAAAGA
26764797 AATA
1 AATA
26764801 GAGAAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
AATAATAAAACAAAGA
Found at i:26769023 original size:28 final size:29
Alignment explanation
Indices: 26768991--26769046 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
26768981 TGAAAATATT
26768991 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
26769019 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAATTTTAAAATTATCTTAAAAAAAT
26769047 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:26769118 original size:22 final size:22
Alignment explanation
Indices: 26769088--26769129 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26769078 ATTTGGAGAT
*
26769088 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
26769110 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
26769130 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:26769150 original size:52 final size:51
Alignment explanation
Indices: 26769079--26769181 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
26769069 TTAATATGGA
* * *
26769079 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
26769130 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
26769182 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:26769156 original size:22 final size:23
Alignment explanation
Indices: 26769131--26769222 Score: 111
Period size: 22 Copynumber: 4.2 Consensus size: 23
26769121 ATTTGAGAGT
26769131 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
26769153 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
26769175 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
26769197 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
26769219 TTGA
1 TTGA
26769223 TATTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.15
22 41 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:26769180 original size:44 final size:44
Alignment explanation
Indices: 26769131--26769222 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
26769121 ATTTGAGAGT
* * * *
26769131 TTGAGAG-AATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAA
*
26769175 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
26769219 TTGA
1 TTGA
26769223 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:26771151 original size:21 final size:22
Alignment explanation
Indices: 26771125--26771170 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
26771115 GGAGAACATT
* *
26771125 CAACCA-TCAATGTTGCGATAA
1 CAACCACTCAATGTCGCGACAA
26771146 CAACCACTCAATGTCGCGACAA
1 CAACCACTCAATGTCGCGACAA
26771168 CAA
1 CAA
26771171 ATTTTGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.39, C:0.30, G:0.13, T:0.17
Consensus pattern (22 bp):
CAACCACTCAATGTCGCGACAA
Found at i:26771196 original size:71 final size:71
Alignment explanation
Indices: 26771107--26771253 Score: 197
Period size: 71 Copynumber: 2.1 Consensus size: 71
26771097 TGAACTTCAG
* * * * *
26771107 ACCTAAAGGGAGAACATTCAACCATCAATGTTGCGATAACAACCACTCAATGTCGCGACAACAAA
1 ACCTAAAGGGAGAACATTCAACCATCAATGTCGCAACAACAACCACTCAATGTCACAACAACAAA
*
26771172 TTTTGA
66 ATTTGA
* * *
26771178 ACCTAGAAGGG-GAGCATTCAGCCTTCAATGTCGCAACAACAACCACTCAATGTCACAACAACAA
1 ACCTA-AAGGGAGAACATTCAACCATCAATGTCGCAACAACAACCACTCAATGTCACAACAACAA
26771242 AATTTGA
65 AATTTGA
26771249 ACCTA
1 ACCTA
26771254 TAAAAGGAGC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 61 0.92
72 5 0.08
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (71 bp):
ACCTAAAGGGAGAACATTCAACCATCAATGTCGCAACAACAACCACTCAATGTCACAACAACAAA
ATTTGA
Found at i:26775090 original size:39 final size:38
Alignment explanation
Indices: 26775036--26775211 Score: 176
Period size: 39 Copynumber: 4.6 Consensus size: 38
26775026 ATAATTATAT
* *
26775036 CCCTGATCGTACTTACGTGCCACTATCGTACTTTGGAAC
1 CCCTGATCGCACTTACGTGCC-CTATCGTACTTTGGTAC
*
26775075 CCCTGATTGCACTTACGTGCCCCTATCGTACTTTGGTA-
1 CCCTGATCGCACTTACGTG-CCCTATCGTACTTTGGTAC
* * *
26775113 CCCTGATCGCACTTACGTGCCTCTGTCATACTTCGGTAC
1 CCCTGATCGCACTTACGTGCC-CTATCGTACTTTGGTAC
* * *
26775152 CTCTGATTGCACTTATGTGCCCT-TGCTGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCCTAT-C-GTACTTTGGTAC
* * * *
26775191 TCTTGATAGCACTTTCGTGCC
1 CCCTGATCGCACTTACGTGCC
26775212 GTGGTAATGT
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
37 3 0.03
38 34 0.30
39 75 0.66
40 2 0.02
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.35
Consensus pattern (38 bp):
CCCTGATCGCACTTACGTGCCCTATCGTACTTTGGTAC
Found at i:26775097 original size:20 final size:20
Alignment explanation
Indices: 26775036--26775133 Score: 67
Period size: 19 Copynumber: 5.0 Consensus size: 20
26775026 ATAATTATAT
*
26775036 CCCTGATCGTACTTACGTGC
1 CCCTGATCGCACTTACGTGC
* * ** **
26775056 CACT-ATCGTACTTTGGAAC
1 CCCTGATCGCACTTACGTGC
*
26775075 CCCTGATTGCACTTACGTGC
1 CCCTGATCGCACTTACGTGC
* ** *
26775095 CCCT-ATCGTACTTTGGT-A
1 CCCTGATCGCACTTACGTGC
26775113 CCCTGATCGCACTTACGTGC
1 CCCTGATCGCACTTACGTGC
26775133 C
1 C
26775134 TCTGTCATAC
Statistics
Matches: 54, Mismatches: 21, Indels: 6
0.67 0.26 0.07
Matches are distributed among these distances:
18 4 0.07
19 33 0.61
20 17 0.31
ACGTcount: A:0.17, C:0.34, G:0.18, T:0.31
Consensus pattern (20 bp):
CCCTGATCGCACTTACGTGC
Found at i:26775163 original size:77 final size:77
Alignment explanation
Indices: 26775036--26775211 Score: 212
Period size: 77 Copynumber: 2.3 Consensus size: 77
26775026 ATAATTATAT
* * *
26775036 CCCTGATCGTACTTACGTGCCACTATCGTACTTTGGAACCCCTGATTGCACTTACGTGCCCCTAT
1 CCCTGATCGCACTTACGTGCCACTATCATACTTCGGAACCCCTGATTGCACTTACGTG-CCCT-T
26775101 -C-GTACTTTGGTA
64 GCTGTACTTTGGTA
* * * * *
26775113 CCCTGATCGCACTTACGTGCCTCTGTCATACTTCGGTACCTCTGATTGCACTTATGTGCCCTTGC
1 CCCTGATCGCACTTACGTGCCACTATCATACTTCGGAACCCCTGATTGCACTTACGTGCCCTTGC
26775178 TGTACTTTGGTA
66 TGTACTTTGGTA
* * *
26775190 CTCTTGATAGCACTTTCGTGCC
1 C-CCTGATCGCACTTACGTGCC
26775212 GTGGTAATGT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 5 0.06
77 62 0.73
78 17 0.20
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.35
Consensus pattern (77 bp):
CCCTGATCGCACTTACGTGCCACTATCATACTTCGGAACCCCTGATTGCACTTACGTGCCCTTGC
TGTACTTTGGTA
Found at i:26775335 original size:19 final size:19
Alignment explanation
Indices: 26775308--26775412 Score: 79
Period size: 19 Copynumber: 5.5 Consensus size: 19
26775298 TATATCCATG
* * *
26775308 ATCGCACTTATGTGCCACT
1 ATCGTACTTACGTGCCCCT
*
26775327 ATCGTACTT-CGGTACCCCT
1 ATCGTACTTAC-GTGCCCCT
26775346 GATCGTACTTACGTGCCCCT
1 -ATCGTACTTACGTGCCCCT
* ** *
26775366 GTCGTACTTTGGT-ACCCT
1 ATCGTACTTACGTGCCCCT
*
26775384 GATCGCACTTACGTGCCCCT
1 -ATCGTACTTACGTGCCCCT
*
26775404 GTCGTACTT
1 ATCGTACTT
26775413 CGGTACCTCT
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
18 4 0.06
19 40 0.62
20 20 0.31
21 1 0.02
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTACTTACGTGCCCCT
Found at i:26775352 original size:20 final size:20
Alignment explanation
Indices: 26775327--26775419 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 20
26775317 ATGTGCCACT
26775327 ATCGTACTTCGGTACCCCTG
1 ATCGTACTTCGGTACCCCTG
*
26775347 ATCGTACTTAC-GTGCCCCTG
1 ATCGTACTT-CGGTACCCCTG
*
26775367 -TCGTACTTTGGTA-CCCTG
1 ATCGTACTTCGGTACCCCTG
* *
26775385 ATCGCACTTAC-GTGCCCCTG
1 ATCGTACTT-CGGTACCCCTG
26775405 -TCGTACTTCGGTACC
1 ATCGTACTTCGGTACC
26775420 TCTAATTGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.10
19 30 0.51
20 22 0.37
21 1 0.02
ACGTcount: A:0.14, C:0.34, G:0.20, T:0.31
Consensus pattern (20 bp):
ATCGTACTTCGGTACCCCTG
Found at i:26775362 original size:39 final size:39
Alignment explanation
Indices: 26775306--26775478 Score: 204
Period size: 39 Copynumber: 4.5 Consensus size: 39
26775296 ATTATATCCA
* *
26775306 TGATCGCACTTATGTGCCACTATCGTACTTCGGTACCCC
1 TGATCGCACTTACGTGCCCCTATCGTACTTCGGTACCCC
* * *
26775345 TGATCGTACTTACGTGCCCCTGTCGTACTTTGGTA-CCC
1 TGATCGCACTTACGTGCCCCTATCGTACTTCGGTACCCC
* *
26775383 TGATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCTC
1 TGATCGCACTTACGTGCCCCTATCGTACTTCGGTACCCC
* * * * * *
26775422 TAATTGCACTTACGTGCCCTTATTGTACTTCGGTACTCT
1 TGATCGCACTTACGTGCCCCTATCGTACTTCGGTACCCC
* *
26775461 TGATAGCACTTTCGTGCC
1 TGATCGCACTTACGTGCC
26775479 GTGGTTATGT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
38 36 0.32
39 78 0.68
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (39 bp):
TGATCGCACTTACGTGCCCCTATCGTACTTCGGTACCCC
Found at i:26775433 original size:77 final size:78
Alignment explanation
Indices: 26775306--26775478 Score: 213
Period size: 77 Copynumber: 2.2 Consensus size: 78
26775296 ATTATATCCA
* * * *
26775306 TGATCGCACTTATGTGCCACTATCGTACTTCGGTACCCCTGATCGTACTTACGTGCCCCTGTCGT
1 TGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTATCGT
*
26775371 ACTTTGGTAC-CC
66 ACTTCGGTACTCC
* * * * * *
26775383 TGATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCTCTAATTGCACTTACGTGCCCTTATTGT
1 TGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTATCGT
*
26775448 ACTTCGGTACTCT
66 ACTTCGGTACTCC
* *
26775461 TGATAGCACTTTCGTGCC
1 TGATCGCACTTACGTGCC
26775479 GTGGTTATGT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
77 64 0.79
78 17 0.21
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (78 bp):
TGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTAATCGCACTTACGTGCCCCTATCGT
ACTTCGGTACTCC
Found at i:26775459 original size:267 final size:267
Alignment explanation
Indices: 26774975--26775506 Score: 902
Period size: 267 Copynumber: 2.0 Consensus size: 267
26774965 AAATTATATC
*
26774975 ATTTGATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCCT
1 ATTTGATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
* * *
26775040 GATCGTACTTACGTGCCACTATCGTACTTTGGAACCCCTGATTGCACTTACGTGCCCCTATCGTA
66 GATCGCACTTACGTGCCACTATCGTACTTCGGAACCCCTGATCGCACTTACGTGCCCCTATCGTA
* * *
26775105 CTTTGGTACCCTGATCGCACTTACGTGCCTCTGTCATACTTCGGTACCTCTGATTGCACTTATGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGTACCTCTAATTGCACTTACGT
* * *
26775170 GCCCTTGCTGTACTTTGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
196 GCCCTTACTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCAGTAACATTT
26775235 ATTAATT
261 ATTAATT
*
26775242 ATTTTATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
1 ATTTGATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
* * * *
26775307 GATCGCACTTATGTGCCACTATCGTACTTCGGTACCCCTGATCGTACTTACGTGCCCCTGTCGTA
66 GATCGCACTTACGTGCCACTATCGTACTTCGGAACCCCTGATCGCACTTACGTGCCCCTATCGTA
*
26775372 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCTCTAATTGCACTTACGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGTACCTCTAATTGCACTTACGT
* *
26775437 GCCCTTATTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTTATGTTTCAGTAACATTT
196 GCCCTTACTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCAGTAACATTT
26775502 ATTAA
261 ATTAA
26775507 GAAAAATAAT
Statistics
Matches: 247, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
267 247 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (267 bp):
ATTTGATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
GATCGCACTTACGTGCCACTATCGTACTTCGGAACCCCTGATCGCACTTACGTGCCCCTATCGTA
CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGTACCTCTAATTGCACTTACGT
GCCCTTACTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCAGTAACATTT
ATTAATT
Found at i:26788973 original size:22 final size:22
Alignment explanation
Indices: 26788947--26788989 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26788937 GGATGATAGG
* * *
26788947 TGGACGATTTTGGGCTTCCATC
1 TGGACAATTCTGGGCCTCCATC
26788969 TGGACAATTCTGGGCCTCCAT
1 TGGACAATTCTGGGCCTCCAT
26788990 GTAATTGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.33
Consensus pattern (22 bp):
TGGACAATTCTGGGCCTCCATC
Found at i:26798552 original size:38 final size:38
Alignment explanation
Indices: 26798507--26798580 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
26798497 TTAAAATTGT
*
26798507 GAAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAG
1 GAAAATCACTTGAACTAACTAGAGCCTTATCTTTAAAG
* *
26798545 GAAAATCACTTGAACTGACTAGATCCTTATCTTTAA
1 GAAAATCACTTGAACTAACTAGAGCCTTATCTTTAA
26798581 GACGGTAGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (38 bp):
GAAAATCACTTGAACTAACTAGAGCCTTATCTTTAAAG
Found at i:26800909 original size:81 final size:81
Alignment explanation
Indices: 26800796--26801103 Score: 384
Period size: 81 Copynumber: 3.8 Consensus size: 81
26800786 TGGTATAACA
* *
26800796 GTCATTTTACCCTATAGGGGTATTTC-GATCATTTTACCTTATGGGGGTATTTCAGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCTTATGAGGGTATTTCAGTCATTTTAC
26800860 CCTATGGGGGTATTTTG
65 CCTATGGGGGTATTTTG
* * * * * **
26800877 GTCATTTTACCTTATGGGGGTATTTTAGTCATTTAACCTTATTAGGGTATTTCGGTCATTTTATG
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTTATGAGGGTATTTCAGTCATTTTACC
* *
26800942 CTATGGGGCTATTTCG
66 CTATGGGGGTATTTTG
* * * * * * * **
26800958 GTCAGTTTACCATATGCGGGTATTTCGGTCACTTTACCTTATGCGGGTATTTCGGTCACGTTACC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTTATGAGGGTATTTCAGTCATTTTACC
26801023 CTATGGGGGTATTTTG
66 CTATGGGGGTATTTTG
* * * *
26801039 GTCATTTTACCCTGTGGCGGTATTTCAGTTATTTTACCTTATAAGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTTATGAGGGTATTTCAGTCATTTTACC
26801104 TTTTTTGGGG
Statistics
Matches: 187, Mismatches: 39, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
81 186 0.99
82 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTTATGAGGGTATTTCAGTCATTTTACC
CTATGGGGGTATTTTG
Found at i:26801104 original size:27 final size:27
Alignment explanation
Indices: 26800796--26801105 Score: 334
Period size: 27 Copynumber: 11.5 Consensus size: 27
26800786 TGGTATAACA
* *
26800796 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
26800823 ATCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
26800850 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCTTATGGGGGTATTTCG
**
26800877 GTCATTTTACCTTATGGGGGTATTTTA
1 GTCATTTTACCTTATGGGGGTATTTCG
* **
26800904 GTCATTTAACCTTATTAGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
26800931 GTCATTTTATGC-TATGGGGCTATTTCG
1 GTCATTTTA-CCTTATGGGGGTATTTCG
* * *
26800958 GTCAGTTTACCATATGCGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
26800985 GTCACTTTACCTTATGCGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
** * *
26801012 GTCACGTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCTTATGGGGGTATTTCG
* * * *
26801039 GTCATTTTACCCTGTGGCGGTATTTCA
1 GTCATTTTACCTTATGGGGGTATTTCG
* ** *
26801066 GTTATTTTACCTTATAAGGGTATTTCA
1 GTCATTTTACCTTATGGGGGTATTTCG
26801093 GTCATTTTACCTT
1 GTCATTTTACCTT
26801106 TTTTGGGGTC
Statistics
Matches: 238, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 236 0.99
28 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGGTATTTCG
Found at i:26804064 original size:28 final size:27
Alignment explanation
Indices: 26804006--26804066 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
26803996 ATATAATAGT
* **
26804006 CATTTTACCCTATGGGGTTATGTCAGT
1 CATTTTACCCTATGGGGGTATGTCAAC
26804033 CATTTTACCCTATGGGGGT-TGTCAAAAC
1 CATTTTACCCTATGGGGGTATGTC--AAC
26804061 CATTTT
1 CATTTT
26804067 TTTTATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATGTCAAC
Found at i:26805345 original size:2 final size:2
Alignment explanation
Indices: 26805329--26805384 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
26805319 AAATAAAAAC
*
26805329 AT AT GT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26805370 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
26805385 AACACGATGC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26805420 original size:3 final size:3
Alignment explanation
Indices: 26805407--26805444 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
26805397 GCGCATGAAT
*
26805407 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
26805445 GATACAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26805998 original size:21 final size:21
Alignment explanation
Indices: 26805972--26806055 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
26805962 NNNNNNNNGC
26805972 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26805993 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26806014 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
26806033 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
26806054 AT
1 AT
26806056 CCTTGAAGAT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
19 18 0.30
21 42 0.70
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:26806027 original size:42 final size:40
Alignment explanation
Indices: 26805972--26806055 Score: 141
Period size: 40 Copynumber: 2.0 Consensus size: 40
26805962 NNNNNNNNGC
*
26805972 ATATCATATCTAAGATTGCATATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGC--ATATCATATCTAAGATTACAT
26806014 ATATCATATCTAAGATTGCATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCATATCATATCTAAGATTACAT
26806054 AT
1 AT
26806056 CCTTGAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 22 0.54
42 19 0.46
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (40 bp):
ATATCATATCTAAGATTGCATATCATATCTAAGATTACAT
Found at i:26806276 original size:27 final size:27
Alignment explanation
Indices: 26806224--26806487 Score: 282
Period size: 27 Copynumber: 9.8 Consensus size: 27
26806214 GGGTATTACA
*
26806224 GGGGTATTTCGGTTA-TTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
** *
26806250 GGGGTATTTCGACCACTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
** * *
26806277 ACGCTATTTCGGTCACTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
26806304 AGGGTATTTCGGTCACTTTATCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
26806331 AGGGTATTTCGGTCATTTTA-CCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
26806357 AGGGTATTTCGATCATTTTATCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
26806384 GGAGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
26806411 GGGGTATTTCGGTCATTTTACCCTTTTG
1 GGGGTATTTCGGTCATTTTACCC-TATG
* *
26806439 GGGGTATTTTGGTCATTTTACTCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
26806466 GGGGTA-TTCTTGTCATTTTACC
1 GGGGTATTTC-GGTCATTTTACC
26806488 TATTTTAGGG
Statistics
Matches: 204, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
26 38 0.19
27 142 0.70
28 24 0.12
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:26806416 original size:107 final size:108
Alignment explanation
Indices: 26806225--26806491 Score: 312
Period size: 107 Copynumber: 2.5 Consensus size: 108
26806215 GGTATTACAG
* * *
26806225 GGGTATTTCGGTTA-TTTACCCTATGGGGGTATTTCGACCACTTTACCCTA-TGACGCTATTTCG
1 GGGTATTTCGGTCATTTTA-CCTATGGGGGTATTTCGATCATTTTA-CCTATTGACGCTATTTCG
*
26806288 GTCACTTTACCCTATGAGGGTATTTCGGTCACTTTATCC-TATGA
64 GTCACTTTACCCTATGAGGGTATTTCGGTCACTTTACCCTTATGA
** *
26806332 GGGTATTTCGGTCATTTTACCTATAAGGGTATTTCGATCATTTTATCCTATTGGA-G-TATTTTG
1 GGGTATTTCGGTCATTTTACCTATGGGGGTATTTCGATCATTTTA-CCTATT-GACGCTATTTCG
* * * * *
26806395 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTTTTGG
64 GTCACTTTACCCTATGAGGGTATTTCGGTCACTTTACCCTTATGA
* *
26806440 GGGTATTTTGGTCATTTTACTCTATGGGGGTATTCTTG-TCATTTTACCTATT
1 GGGTATTTCGGTCATTTTAC-CTATGGGGGTATT-TCGATCATTTTACCTATT
26806492 TTAGGGTCTC
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
107 80 0.58
108 34 0.25
109 21 0.15
110 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (108 bp):
GGGTATTTCGGTCATTTTACCTATGGGGGTATTTCGATCATTTTACCTATTGACGCTATTTCGGT
CACTTTACCCTATGAGGGTATTTCGGTCACTTTACCCTTATGA
Found at i:26806924 original size:27 final size:27
Alignment explanation
Indices: 26806903--26807175 Score: 244
Period size: 27 Copynumber: 10.2 Consensus size: 27
26806893 AGGGTATAAT
26806903 AATCATTTTACCCTATGGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
** * *
26806930 GGTCATTTTACCCTCTCGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
**
26806957 GGTCATTTTACCCTATGGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
*
26806984 AATCATTTTACCCTAT-GGGTTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
*** * * *
26807010 GGGCATTTTATCCTATGAGAGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
** * * *
26807037 GGTCATTTTA-CTTATGGGGTTATTTT
1 AATCATTTTACCCTATGGGGGTATTTC
** *
26807063 GGTCACTTTACCCTATGGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
** * *
26807090 GGTCACTTTACCCTATGGGGGTATTTT
1 AATCATTTTACCCTATGGGGGTATTTC
** **
26807117 GGTCACCTTACCCTATGGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
* *
26807144 GACCATTTTACCCTATGGGGGTATTTC
1 AATCATTTTACCCTATGGGGGTATTTC
*
26807171 GATCA
1 AATCA
26807176 CTTTGCTATC
Statistics
Matches: 210, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 41 0.20
27 169 0.80
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (27 bp):
AATCATTTTACCCTATGGGGGTATTTC
Found at i:26806939 original size:54 final size:54
Alignment explanation
Indices: 26806875--26806997 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
26806865 AAGGCCAAAA
*
26806875 CAGTCATTTTA-TCTCCTAAGGGTATAAT-AATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCT-CTAAGGGTAT-ATCAATCATTTTACCCTATGGGGGTATTT
* ** * **
26806929 CGGTCATTTTACCCTCTCGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTCTAAGGGTATATCAATCATTTTACCCTATGGGGGTATTT
*
26806983 CAATCATTTTACCCT
1 CAGTCATTTTACCCT
26806998 ATGGGTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 55 0.95
55 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (54 bp):
CAGTCATTTTACCCTCTAAGGGTATATCAATCATTTTACCCTATGGGGGTATTT
Found at i:26807034 original size:53 final size:54
Alignment explanation
Indices: 26806905--26807171 Score: 349
Period size: 54 Copynumber: 5.0 Consensus size: 54
26806895 GGTATAATAA
* *
26806905 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTCTCGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
** *
26806959 TCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTAT-GGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
* * * * * * *
26807012 GCATTTTATCCTATGAGAGTATTTCGGTCATTTTA-CTTATGGGGTTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
* * *
26807065 TCACTTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
** **
26807119 TCACCTTACCCTATGGGGGTATTTCGACCATTTTACCCTATGGGGGTATTTCG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
26807172 ATCACTTTGC
Statistics
Matches: 186, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
52 4 0.02
53 80 0.43
54 102 0.55
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.41
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
Found at i:26808412 original size:39 final size:39
Alignment explanation
Indices: 26808358--26808512 Score: 213
Period size: 39 Copynumber: 4.0 Consensus size: 39
26808348 ATAATTATAT
* *
26808358 CCCTGATCGCACTTACGTGCCACTATCGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTAC
* *
26808397 CCCTGCTCGCACTTACGTGCCCCTTTCGTACTTTGGTA-
1 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTAC
* *
26808435 CACTGATCGCACTTACGTGCCCCTGTCGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTAC
* * * *
26808474 CTCTGGTTGCACTTACGTGCCCCTGTTGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTAC
26808513 TCTTGATAGC
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 34 0.33
39 69 0.67
ACGTcount: A:0.14, C:0.34, G:0.20, T:0.33
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTAC
Found at i:26808467 original size:19 final size:19
Alignment explanation
Indices: 26808358--26808499 Score: 81
Period size: 19 Copynumber: 7.3 Consensus size: 19
26808348 ATAATTATAT
26808358 CCCTGATCGCACTTACGTGC
1 CCCTG-TCGCACTTACGTGC
* * * ** *
26808378 CACTATCGTACTTTGGTAC
1 CCCTGTCGCACTTACGTGC
26808397 CCCTGCTCGCACTTACGTGC
1 CCCTG-TCGCACTTACGTGC
* * ** *
26808417 CCCTTTCGTACTTTGGT-A
1 CCCTGTCGCACTTACGTGC
*
26808435 CACTGATCGCACTTACGTGC
1 CCCTG-TCGCACTTACGTGC
* *
26808455 CCCTGTCGTACTT-CGGTAC
1 CCCTGTCGCACTTAC-GTGC
* *
26808474 CTCTGGTTGCACTTACGTGC
1 CCCT-GTCGCACTTACGTGC
26808494 CCCTGT
1 CCCTGT
26808500 TGTACTTTGG
Statistics
Matches: 85, Mismatches: 31, Indels: 13
0.66 0.24 0.10
Matches are distributed among these distances:
18 4 0.05
19 46 0.54
20 34 0.40
21 1 0.01
ACGTcount: A:0.13, C:0.35, G:0.20, T:0.32
Consensus pattern (19 bp):
CCCTGTCGCACTTACGTGC
Found at i:26808487 original size:77 final size:77
Alignment explanation
Indices: 26808360--26808512 Score: 236
Period size: 77 Copynumber: 2.0 Consensus size: 77
26808350 AATTATATCC
*
26808360 CTGATCGCACTTACGTGCCACTATCGTACTTTGGTACCCCTGCTCGCACTTACGTGCCCCT-TTC
1 CTGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGCTCGCACTTACGTGCCCCTGTT-
26808424 GTACTTTGGTACA
65 GTACTTTGGTACA
* * * * *
26808437 CTGATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCTCTGGTTGCACTTACGTGCCCCTGTTG
1 CTGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGCTCGCACTTACGTGCCCCTGTTG
26808502 TACTTTGGTAC
66 TACTTTGGTAC
26808513 TCTTGATAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 67 0.97
78 2 0.03
ACGTcount: A:0.14, C:0.33, G:0.20, T:0.33
Consensus pattern (77 bp):
CTGATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGCTCGCACTTACGTGCCCCTGTTG
TACTTTGGTACA
Found at i:26808506 original size:19 final size:19
Alignment explanation
Indices: 26808445--26808506 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
26808435 CACTGATCGC
*
26808445 ACTTACGTGCCCCTGTCGT
1 ACTTACGTGCCCCTGTTGT
* * *
26808464 ACTT-CGGTACCTCTGGTTGC
1 ACTTAC-GTGCCCCT-GTTGT
26808484 ACTTACGTGCCCCTGTTGT
1 ACTTACGTGCCCCTGTTGT
26808503 ACTT
1 ACTT
26808507 TGGTACTCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 13 0.39
21 1 0.03
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.35
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTTGT
Found at i:26808673 original size:39 final size:37
Alignment explanation
Indices: 26808622--26808759 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 37
26808612 ATAATTATAT
26808622 CCCTGATCGCACTTACGTGCCACTATCGTACTTCGGTA
1 CCCTGATCGCACTTACGTGCC-CTATCGTACTTCGGTA
*
26808660 TCCCTGATCGCACTTACGTGCCCCTGA-CTTACTTCGGTA
1 -CCCTGATCGCACTTACGTG-CCCT-ATCGTACTTCGGTA
* * *
26808699 CCTCTGATTGCACTTACGTGCCCTTGTTGTACTTCGGTA
1 CC-CTGATCGCACTTACGTGCCC-TATCGTACTTCGGTA
* * *
26808738 CTCTTGATAGCACTTTCGTGCC
1 C-CCTGATCGCACTTACGTGCC
26808760 GTGGTTATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 5 0.06
39 76 0.89
40 4 0.05
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (37 bp):
CCCTGATCGCACTTACGTGCCCTATCGTACTTCGGTA
Found at i:26808684 original size:20 final size:20
Alignment explanation
Indices: 26808622--26808721 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 20
26808612 ATAATTATAT
26808622 CCCTGATCGCACTTACGTGC
1 CCCTGATCGCACTTACGTGC
* * **
26808642 CACT-ATCGTACTT-CGGTAT
1 CCCTGATCGCACTTAC-GTGC
26808661 CCCTGATCGCACTTACGTGC
1 CCCTGATCGCACTTACGTGC
** *
26808681 CCCTGA-CTTACTT-CGGTAC
1 CCCTGATCGCACTTAC-GTGC
* *
26808700 CTCTGATTGCACTTACGTGC
1 CCCTGATCGCACTTACGTGC
26808720 CC
1 CC
26808722 TTGTTGTACT
Statistics
Matches: 57, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
18 2 0.04
19 26 0.46
20 27 0.47
21 2 0.04
ACGTcount: A:0.16, C:0.36, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCTGATCGCACTTACGTGC
Found at i:26820607 original size:22 final size:22
Alignment explanation
Indices: 26820581--26820623 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
26820571 GGATGATAGG
* *
26820581 TGGACGATTTTGGGCTTCCATC
1 TGGACAATTTTGGGCCTCCATC
26820603 TGGACAATTTTGGGCCTCCAT
1 TGGACAATTTTGGGCCTCCAT
26820624 GTAATTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (22 bp):
TGGACAATTTTGGGCCTCCATC
Found at i:26826523 original size:29 final size:29
Alignment explanation
Indices: 26826468--26826534 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
26826458 GAAGGGAATT
* **
26826468 TGCCAAGGACTGTTTTGACCATAGAAGTC
1 TGCCAAGGACTGGTCCGACCATAGAAGTC
* *
26826497 TGCCAAGGACTGGTCCGACTATGGAAGTC
1 TGCCAAGGACTGGTCCGACCATAGAAGTC
**
26826526 CACCAAGGA
1 TGCCAAGGA
26826535 AGGTATGTCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (29 bp):
TGCCAAGGACTGGTCCGACCATAGAAGTC
Found at i:26829905 original size:38 final size:38
Alignment explanation
Indices: 26829860--26829933 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
26829850 TTAAAAGTGT
26829860 GAAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAG
1 GAAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAG
*
26829898 GAAAATCACTTGAAGTGACTAGAGCCTTATCTTTAA
1 GAAAATCACTTGAAGTAACTAGAGCCTTATCTTTAA
26829934 GATGGTAGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (38 bp):
GAAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAG
Found at i:26832202 original size:27 final size:27
Alignment explanation
Indices: 26832172--26832316 Score: 98
Period size: 27 Copynumber: 5.4 Consensus size: 27
26832162 TTTCATCTCC
26832172 TAGGGGT-TTAACAACCATTTTACCCTA
1 TAGGGGTATT-ACAACCATTTTACCCTA
* * *
26832199 TAGGGGTATTTCGATCATTTTACCCTA
1 TAGGGGTATTACAACCATTTTACCCTA
* * ** *
26832226 TGGGGGTATTTCAGTCATTTTACCTTA
1 TAGGGGTATTACAACCATTTTACCCTA
* * * * *
26832253 TGGGGGTATTTCGATCATTTTACCTTA
1 TAGGGGTATTACAACCATTTTACCCTA
* * *
26832280 T-GAGGGTATTTCAATCATTTAACCCTA
1 TAG-GGGTATTACAACCATTTTACCCTA
26832307 TTA-GGGTATT
1 -TAGGGGTATT
26832317 TTGGTCATTT
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 98 0.96
28 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTACAACCATTTTACCCTA
Found at i:26832297 original size:81 final size:81
Alignment explanation
Indices: 26832187--26832531 Score: 333
Period size: 81 Copynumber: 4.3 Consensus size: 81
26832177 GTTTAACAAC
* * *
26832187 CATTTTACCCTAT-AGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTA-CC
1 CATTTTACCCTATGA-GGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCC
26832250 TTATGGGGGTATTTC-GAT
65 -TATGGGGGTATTTCAG-T
* * * * *
26832268 CATTTTACCTTATGAGGGTATTTCAATCATTTAACCCTATTAGGGTATTTTGGTCATTTTATGCT
1 CATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCT
26832333 ATGGGGGTATTTCAGT
66 ATGGGGGTATTTCAGT
* * * ** * * * ** *
26832349 CACTTTACCATATGCGGGTATTTCGGTCACTTTACCTTATGCA-GGTATTTCGATCACGTTACCC
1 CATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATG-AGGGTATTTCGGTCATTTTATCC
26832413 TATGGGGGTATTTCAGT
65 TATGGGGGTATTTCAGT
* * * * * * * *
26832430 CATTTTACCCTGTTAGGGTGTTTTAGTTATTTTACCCTATAAGGGTATTTCGGTCATTTTATACT
1 CATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCT
* *
26832495 ATAGGGGTATTT-TGAT
66 ATGGGGGTATTTCAG-T
*
26832511 CATTTTACCCCATG-GGGTATT
1 CATTTTACCCTATGAGGGTATT
26832532 CAGGTTATTT
Statistics
Matches: 212, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
80 8 0.04
81 200 0.94
82 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (81 bp):
CATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCT
ATGGGGGTATTTCAGT
Found at i:26832317 original size:27 final size:27
Alignment explanation
Indices: 26832187--26832545 Score: 286
Period size: 27 Copynumber: 13.3 Consensus size: 27
26832177 GTTTAACAAC
26832187 CATTTTACCCTAT-AGGGGTATTTC-GAT
1 CATTTTACCCTATGA-GGGTATTTCAG-T
*
26832214 CATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGAGGGTATTTCAGT
* *
26832241 CATTTTACCTTATGGGGGTATTTC-GAT
1 CATTTTACCCTATGAGGGTATTTCAG-T
* *
26832268 CATTTTACCTTATGAGGGTATTTCAAT
1 CATTTTACCCTATGAGGGTATTTCAGT
* * **
26832295 CATTTAACCCTATTAGGGTATTTTGGT
1 CATTTTACCCTATGAGGGTATTTCAGT
** *
26832322 CATTTTATGCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGAGGGTATTTCAGT
* * * *
26832349 CACTTTACCATATGCGGGTATTTCGGT
1 CATTTTACCCTATGAGGGTATTTCAGT
* *
26832376 CACTTTACCTTATGCA-GGTATTTC-GAT
1 CATTTTACCCTATG-AGGGTATTTCAG-T
** *
26832403 CACGTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGAGGGTATTTCAGT
* * * *
26832430 CATTTTACCCTGTTAGGGTGTTTTAGT
1 CATTTTACCCTATGAGGGTATTTCAGT
* * *
26832457 TATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATGAGGGTATTTCAGT
** *
26832484 CATTTTATACTAT-AGGGGTATTT-TGAT
1 CATTTTACCCTATGA-GGGTATTTCAG-T
*
26832511 CATTTTACCCCATG-GGGTA-TTCAGGT
1 CATTTTACCCTATGAGGGTATTTCA-GT
*
26832537 TATTTTACC
1 CATTTTACC
26832546 TATTTTGGGG
Statistics
Matches: 269, Mismatches: 50, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.01
26 18 0.07
27 247 0.92
28 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATGAGGGTATTTCAGT
Found at i:26835548 original size:27 final size:26
Alignment explanation
Indices: 26835518--26835878 Score: 313
Period size: 27 Copynumber: 13.5 Consensus size: 26
26835508 GGGATATAAT
*
26835518 AGTCATTTTACCCTATGGGGTTATGTC
1 AGTCATTTTACCCTATGGGG-TATTTC
*
26835545 AGTCATTTTACACTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
* *
26835572 -GATCATTCTACCCTATGGGGGTATTTT
1 AG-TCATTTTACCCTAT-GGGGTATTTC
*
26835599 ATTCATTTTACCCTATGGGAGTATTTC
1 AGTCATTTTACCCTATGGG-GTATTTC
26835626 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTAT-GGGGTATTTC
* * *
26835653 GGTCACTTTACCCTATGGCGATATTTC
1 AGTCATTTTACCCTATGG-GGTATTTC
*
26835680 -GATCACTTTACCCTATGAGGGTATTTC
1 AG-TCATTTTACCCTATG-GGGTATTTC
* * **
26835707 AATCA-TTTA-TCTATAAAGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
26835732 -GATCATTTTACCCTATGGGAGTATTTC
1 AG-TCATTTTACCCTATGGG-GTATTTC
* *
26835759 GGTCATTTTACCCTATGGAGTTATTTC
1 AGTCATTTTACCCTATGG-GGTATTTC
* *
26835786 AGTCATTTTACCCTATGGGGGTGTTCC
1 AGTCATTTTACCCTAT-GGGGTATTTC
* *
26835813 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTAT-GGGGTATTTC
* * *
26835840 GGTCATTTTACTCTATGTGGGTATTCTT
1 AGTCATTTTACCCTATG-GGGTATT-TC
26835868 A-TCATTTTACC
1 AGTCATTTTACC
26835879 TATTTTAGGG
Statistics
Matches: 280, Mismatches: 32, Indels: 44
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.05
26 17 0.06
27 233 0.83
28 15 0.05
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTC
Found at i:26835605 original size:54 final size:53
Alignment explanation
Indices: 26835520--26835878 Score: 384
Period size: 54 Copynumber: 6.7 Consensus size: 53
26835510 GATATAATAG
* * *
26835520 TCATTTTACCCTATGGGGTTATGTCAGTCATTTTACACTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTCGA
* * *
26835574 TCATTCTACCCTATGGGGGTATTTTATTCATTTTACCCTATGGGAGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGG-GTATTTCGA
* * *
26835628 TCATTTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGCGATATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGG-GGTATTTCGA
* * * * **
26835682 TCACTTTACCCTATGAGGGTATTTCAATCA-TTTA-TCTATAAAGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGA
* * *
26835734 TCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGGAGTTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGG-GGTATTTCGA
* * * * *
26835787 GTCATTTTACCCTATGGGGGTGTTCCGGTCATTTTACCCTATGGGGGTATTTTGG
1 -TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGA
* * *
26835842 TCATTTTACTCTATGTGGGTATTCTTA-TCATTTTACC
1 TCATTTTACCCTATGGGGGTATT-TCAGTCATTTTACC
26835879 TATTTTAGGG
Statistics
Matches: 254, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
52 38 0.15
53 11 0.04
54 202 0.80
55 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGA
Found at i:26835665 original size:81 final size:79
Alignment explanation
Indices: 26835517--26835878 Score: 379
Period size: 81 Copynumber: 4.5 Consensus size: 79
26835507 AGGGATATAA
* * *
26835517 TAGTCATTTTACCCTATGGGGTTATGTCAGTCATTTTACACTATGAGGGTATTTCGATCATTCTA
1 TAGTCATTTTACCCTATGGGG-TATTTCA-TCATTTTACCCTATGAGGGTATTTCGATCATTTTA
26835582 CCCTATGGGGGTATTT
64 CCCTATGGGGGTATTT
* * * *
26835598 TATTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCACTTTA
1 TAGTCATTTTACCCTATGGG-GTATTTC-ATCATTTTACCCTATGAGGGTATTTCGATCATTTTA
* *
26835663 CCCTATGGCGATA-TT
64 CCCTATGGGGGTATTT
* * * * *
26835678 TCGATCACTTTACCCTATGAGGGTATTTCAATCA-TTTA-TCTATAAAGGTATTTCGATCATTTT
1 TAG-TCATTTTACCCTATG-GGGTATTTC-ATCATTTTACCCTATGAGGGTATTTCGATCATTTT
*
26835741 ACCCTATGGGAGTATTT
63 ACCCTATGGGGGTATTT
** * * * * *
26835758 CGGTCATTTTACCCTATGGAGTTATTTCAGTCATTTTACCCTATGGGGGTGTTCCGGTCATTTTA
1 TAGTCATTTTACCCTATGG-GGTATTTCA-TCATTTTACCCTATGAGGGTATTTCGATCATTTTA
26835823 CCCTATGGGGGTATTT
64 CCCTATGGGGGTATTT
* * *
26835839 TGGTCATTTTACTCTATGTGGGTATTCTTATCATTTTACC
1 TAGTCATTTTACCCTATG-GGGTATT-TCATCATTTTACC
26835879 TATTTTAGGG
Statistics
Matches: 232, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.01
79 54 0.23
80 14 0.06
81 155 0.67
82 7 0.03
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (79 bp):
TAGTCATTTTACCCTATGGGGTATTTCATCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
CTATGGGGGTATTT
Found at i:26835820 original size:106 final size:106
Alignment explanation
Indices: 26835520--26835812 Score: 308
Period size: 106 Copynumber: 2.7 Consensus size: 106
26835510 GATATAATAG
* * * * *
26835520 TCATTTTACCCTATGGG-GTTATGTCAGTCATTTTACACTAT-GAGGGTATTTCGATCA-TTCTA
1 TCATTTTACCCTATGGGAG-TATTTCGGTCACTTTACCCTATGGA-GATATTTCGATCACTT-TA
* ** * * **
26835582 CCCTATGGGGGTATTTTATTCATTTTACCCTAT-GGGAGTATTTCGA
63 CCCTATGAGGGTATTCCAATCA-TTTA-TCTATAAAG-GTATTTCGA
* *
26835628 TCATTTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGCGATATTTCGATCACTTTACCC
1 TCATTTTACCCTATGGGAGTATTTCGGTCACTTTACCCTATGGAGATATTTCGATCACTTTACCC
*
26835693 TATGAGGGTATTTCAATCATTTATCTATAAAGGTATTTCGA
66 TATGAGGGTATTCCAATCATTTATCTATAAAGGTATTTCGA
* * *
26835734 TCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGGAGTTATTTC-AGTCATTTTACC
1 TCATTTTACCCTATGGGAGTATTTCGGTCACTTTACCCTATGGAGATATTTCGA-TCACTTTACC
* *
26835798 CTATGGGGGTGTTCC
65 CTATGAGGGTATTCC
26835813 GGTCATTTTA
Statistics
Matches: 160, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
105 1 0.01
106 82 0.51
107 5 0.03
108 68 0.43
109 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (106 bp):
TCATTTTACCCTATGGGAGTATTTCGGTCACTTTACCCTATGGAGATATTTCGATCACTTTACCC
TATGAGGGTATTCCAATCATTTATCTATAAAGGTATTTCGA
Found at i:26835874 original size:160 final size:160
Alignment explanation
Indices: 26835524--26835864 Score: 436
Period size: 160 Copynumber: 2.1 Consensus size: 160
26835514 TAATAGTCAT
* * * * *
26835524 TTTACCCTATG-GGGTTATGTCAGTCATTTTACACTATGAGGGTATTTCGATCATTCTACCCTAT
1 TTTACCCTATGAGGG-TATTTCAATCA-TTTA-TCTATAAAGGTATTTCGATCATTCTACCCTAT
* * * *
26835588 GGGGGTATTTTATTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATGGGGGTATTTC
63 GGGAGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATGGGGGTATTCC
26835653 GGTCACTTTACCCTATGGCGATATTTCGATCAC
128 GGTCACTTTACCCTATGGCGATATTTCGATCAC
*
26835686 TTTACCCTATGAGGGTATTTCAATCATTTATCTATAAAGGTATTTCGATCATTTTACCCTATGGG
1 TTTACCCTATGAGGGTATTTCAATCATTTATCTATAAAGGTATTTCGATCATTCTACCCTATGGG
* *
26835751 AGTATTTCGGTCATTTTACCCTAT-GGAGTTATTTC-AGTCATTTTACCCTATGGGGGTGTTCCG
66 AGTATTTCAGTCATTTTACCCTATGGGAG-TATTTCGA-TCATTTTACCCTATGGGGGTATTCCG
* * * * * *
26835814 GTCATTTTACCCTATGGGGGTATTTTGGTCAT
129 GTCACTTTACCCTATGGCGATATTTCGATCAC
* *
26835846 TTTACTCTATGTGGGTATT
1 TTTACCCTATGAGGGTATT
26835865 CTTATCATTT
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
159 5 0.03
160 124 0.79
161 4 0.03
162 20 0.13
163 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (160 bp):
TTTACCCTATGAGGGTATTTCAATCATTTATCTATAAAGGTATTTCGATCATTCTACCCTATGGG
AGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATGGGGGTATTCCGGT
CACTTTACCCTATGGCGATATTTCGATCAC
Found at i:26836327 original size:27 final size:27
Alignment explanation
Indices: 26836297--26836575 Score: 342
Period size: 27 Copynumber: 10.3 Consensus size: 27
26836287 TACAATAGTT
26836297 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** *
26836324 ATTTTACCCTATGGAAGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** *
26836351 ATTTTACCCTATGGTAGTATTTTTGGTC
1 ATTTTACCCTATGGGGGTA-TTTCGGTC
*
26836379 ACTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
26836406 ACTTTACCCTATGGAGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** *
26836433 ACCTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
26836460 ATTTTACCCTATGGGGGTATTTCTATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
26836487 ATTTTACCCTATGTGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
26836514 ATTTTACCCCATAGGGTTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** * *
26836541 ATTTTACTTTATGGGGATATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
26836568 ATTTTACC
1 ATTTTACC
26836576 TATTTTGGGG
Statistics
Matches: 218, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 196 0.90
28 22 0.10
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:26836862 original size:27 final size:26
Alignment explanation
Indices: 26836832--26836933 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
26836822 CACACGGCCC
* *
26836832 ATTTCGGTCATTTTATCCTATGTGGTT
1 ATTTCGGTCATTTTACCCTATG-GGGT
* *
26836859 ATTTCAGTCATTTTATCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTAT-GGGGT
*
26836886 ATTTCGGTCATTTTACCCTACGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGT
**
26836912 ATTTTTGTCATTTTACCCTATG
1 ATTTCGGTCATTTTACCCTATG
26836934 CAGGAGCTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.36
27 41 0.62
28 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.47
Consensus pattern (26 bp):
ATTTCGGTCATTTTACCCTATGGGGT
Found at i:26837041 original size:46 final size:46
Alignment explanation
Indices: 26836930--26837041 Score: 109
Period size: 46 Copynumber: 2.4 Consensus size: 46
26836920 CATTTTACCC
** * *
26836930 TATGCAGGAGCTGGGAACCTAAACATGTATTCTCAAGTCTGCAACA
1 TATGCAGGAGCTCAGAACCTAAACATGTAATCTCAAGTCCGCAACA
* * * ** * *
26836976 CATGTAGGAGCCCTA-AACCTATTCCTGTAATCTCGAGTCCGCAACA
1 TATGCAGGAGCTC-AGAACCTAAACATGTAATCTCAAGTCCGCAACA
26837022 TATGCAGGAGCTCAGAACCT
1 TATGCAGGAGCTCAGAACCT
26837042 GGGCAAAACT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
45 1 0.02
46 49 0.98
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TATGCAGGAGCTCAGAACCTAAACATGTAATCTCAAGTCCGCAACA
Found at i:26839374 original size:17 final size:17
Alignment explanation
Indices: 26839352--26839388 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26839342 TATGAGATGG
26839352 ATGTTT-AATTCATATAT
1 ATGTTTCAATT-ATATAT
26839369 ATGTTTCAATTATATAT
1 ATGTTTCAATTATATAT
26839386 ATG
1 ATG
26839389 CATGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (17 bp):
ATGTTTCAATTATATAT
Found at i:26847440 original size:26 final size:26
Alignment explanation
Indices: 26847405--26847758 Score: 402
Period size: 26 Copynumber: 13.5 Consensus size: 26
26847395 GCTGGTATGG
* *
26847405 TTACTGAAATACCATCGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
*
26847431 TTACCAAAATACCCTCGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
*
26847457 TTATCGAAATACCCTCGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
** *
26847483 TTACTAAAATACCCTCGATGGATAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* * *
26847509 TTACTGAAATACCTTCAATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* *
26847535 CTACCGAAATACCCTCGATGGGAAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* *
26847561 TCATCGAAATACCCTCGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* *
26847587 TTACCAAAATACCCTTGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* * *
26847613 TTACCGAAATACACTCGACGTGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* ** *
26847639 TTACCAAAAATACCCTTAATGGATAAA
1 TTACC-GAAATACCCTCGATGGGTAAA
* *
26847666 TTACCAAAATACCCTGGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
*
26847692 TTACCGAAATTCCCTCGATGGGTAAA
1 TTACCGAAATACCCTCGATGGGTAAA
* * * *
26847718 TTACTGAAATACCCCTAGAAGGGTAGA
1 TTACCGAAATA-CCCTCGATGGGTAAA
*
26847745 TTAACCGATATACC
1 TT-ACCGAAATACC
26847759 TCTACTAGAT
Statistics
Matches: 274, Mismatches: 51, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 232 0.85
27 35 0.13
28 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (26 bp):
TTACCGAAATACCCTCGATGGGTAAA
Found at i:26848422 original size:24 final size:24
Alignment explanation
Indices: 26848390--26848437 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
26848380 CTGGTATTTC
26848390 AATTTTCTTTTAATTGGGTTTTAT
1 AATTTTCTTTTAATTGGGTTTTAT
26848414 AATTTTCTTTTAATTGGGTTTTAT
1 AATTTTCTTTTAATTGGGTTTTAT
26848438 TTACTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.62
Consensus pattern (24 bp):
AATTTTCTTTTAATTGGGTTTTAT
Found at i:26854911 original size:26 final size:27
Alignment explanation
Indices: 26854875--26854987 Score: 153
Period size: 26 Copynumber: 4.3 Consensus size: 27
26854865 CGTGGTTATT
*
26854875 GAAATACCCTCAATGGGTAAATTA-CA
1 GAAATACCCTCGATGGGTAAATTACCA
26854901 GAAATACCCTCGATGGGTAAATTACCA
1 GAAATACCCTCGATGGGTAAATTACCA
*
26854928 -AAATACCCTCGATGGGTAAATTATCA
1 GAAATACCCTCGATGGGTAAATTACCA
* * *
26854954 -AAATACCCCCGATAGGTAAATTA-TA
1 GAAATACCCTCGATGGGTAAATTACCA
26854979 GAAATACCC
1 GAAATACCC
26854988 AGAAGGGTAG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.01
26 77 0.96
27 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAATTACCA
Found at i:26855178 original size:26 final size:27
Alignment explanation
Indices: 26855142--26855192 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
26855132 ATGGAGGAAA
*
26855142 TACTGTTTCT-GTGGCTCTGCCACAAT
1 TACTATTTCTGGTGGCTCTGCCACAAT
*
26855168 TACTATTTCTGGTGGCTTTGCCACA
1 TACTATTTCTGGTGGCTCTGCCACA
26855193 TATTCTGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (27 bp):
TACTATTTCTGGTGGCTCTGCCACAAT
Found at i:26868059 original size:107 final size:107
Alignment explanation
Indices: 26867854--26868063 Score: 285
Period size: 107 Copynumber: 2.0 Consensus size: 107
26867844 AATCAATACA
* *
26867854 AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATAGGGAAACCATCCAAAC
1 AAAATAGAAGTAGACAAGGACCACAATCCAATTTCTATAACCCTTCATAGGGAAACCATCCAAAA
** * *
26867919 TTTTCTTGGAATAATCAAGGAAATAAACCGAACAACAACACG
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
* * * * **
26867961 AAAATAGAAGTAGACAAGGACCACAGTCTAATTTTTATAACCCTTCATGGGGAAACCATTGAAAA
1 AAAATAGAAGTAGACAAGGACCACAATCCAATTTCTATAACCCTTCATAGGGAAACCATCCAAAA
* * *
26868026 TTTTCTTAAAATGACCAAGAAAATGAACTGAACAACAA
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAA
26868064 TTACATGCAA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 88 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (107 bp):
AAAATAGAAGTAGACAAGGACCACAATCCAATTTCTATAACCCTTCATAGGGAAACCATCCAAAA
TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
Found at i:26897142 original size:54 final size:54
Alignment explanation
Indices: 26897060--26897170 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
26897050 CAGTCTGACC
* * *
26897060 CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
1 CTAAGCTAGCTAGCTCACTACTTACTTACCCCAAGCTTTAAATCAAAGACAACT
26897114 CTAAGCTAGCTAGCTCACTACTTACTTACCCCAAGCTTTAAATCAAAGACAACT
1 CTAAGCTAGCTAGCTCACTACTTACTTACCCCAAGCTTTAAATCAAAGACAACT
26897168 CTA
1 CTA
26897171 GCTCTATCCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (54 bp):
CTAAGCTAGCTAGCTCACTACTTACTTACCCCAAGCTTTAAATCAAAGACAACT
Found at i:26898191 original size:40 final size:40
Alignment explanation
Indices: 26898080--26898193 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 40
26898070 GAAAAAACGC
* * * *
26898080 CGCTATAGAATATGACATTTAATGGCGCTTTCCCTACAAA
1 CGCTATAGAACATGACCTTTAACGGCGCTTTCCCCACAAA
* * *
26898120 CGCCACTATAGAACATAACCTTCAACAGCGCTTTCCCCACAAA
1 CG---CTATAGAACATGACCTTTAACGGCGCTTTCCCCACAAA
* *
26898163 CGCTAAAGAACATGACCTTTAGCGGCGCTTT
1 CGCTATAGAACATGACCTTTAACGGCGCTTT
26898194 TTCAAAAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
40 26 0.44
43 33 0.56
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (40 bp):
CGCTATAGAACATGACCTTTAACGGCGCTTTCCCCACAAA
Found at i:26900175 original size:26 final size:26
Alignment explanation
Indices: 26900145--26900194 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
26900135 AAGTATACTA
*
26900145 TACTGGAAACTTTGTTGCGATACTGT
1 TACTGGAAACTTTGCTGCGATACTGT
* **
26900171 TACTGGCAGTTTTGCTGCGATACT
1 TACTGGAAACTTTGCTGCGATACT
26900195 ATTATTGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (26 bp):
TACTGGAAACTTTGCTGCGATACTGT
Found at i:26900210 original size:26 final size:26
Alignment explanation
Indices: 26900154--26900218 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
26900144 ATACTGGAAA
* * *
26900154 CTTTGTTGCGATACTGTTACTGGCAG
1 CTTTGCTGCGATACTATTACTGACAG
* *
26900180 TTTTGCTGCGATACTATTATTGACAG
1 CTTTGCTGCGATACTATTACTGACAG
*
26900206 CTTTGCTACGATA
1 CTTTGCTGCGATA
26900219 TTGGTGTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
CTTTGCTGCGATACTATTACTGACAG
Found at i:26900361 original size:28 final size:27
Alignment explanation
Indices: 26900329--26900386 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
26900319 GTACTGATAT
*
26900329 TGTATTGGGCAAAGGTCCACACTGTTAC
1 TGTATTGGGCAAAGGCCCACACTG-TAC
*
26900357 TGTATTGGTCAAAGGCCCACACTGTAC
1 TGTATTGGGCAAAGGCCCACACTGTAC
26900384 TGT
1 TGT
26900387 TACTGAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (27 bp):
TGTATTGGGCAAAGGCCCACACTGTAC
Found at i:26901022 original size:43 final size:42
Alignment explanation
Indices: 26900961--26901053 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 42
26900951 GTGTTACAAT
* * *
26900961 GCCGCTAAAGGTCATGTTCTTCAGCGGTGTTTTTAGTAAAAAC
1 GCCGCTAAAAGTCATGTTCTTCAGCGGTGTTTGT-GGAAAAAC
*
26901004 GCCGCTAAAAGTCATGTTCTTTAGCGGTGTTTGTGGAAAAAC
1 GCCGCTAAAAGTCATGTTCTTCAGCGGTGTTTGTGGAAAAAC
*
26901046 GCCACTAA
1 GCCGCTAA
26901054 CTTTAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 14 0.31
43 31 0.69
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
GCCGCTAAAAGTCATGTTCTTCAGCGGTGTTTGTGGAAAAAC
Done.