Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 9 of 126
Found at i:2176170 original size:24 final size:23
Alignment explanation
Indices: 2176119--2176164 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
2176109 TTAAACTTTG
*
2176119 TTTTAAATAAAAACTAATTATTA
1 TTTTAAATAAAAAATAATTATTA
2176142 TTTTAATATAAAAAATATATTAT
1 TTTTAA-ATAAAAAATA-ATTAT
2176165 CTTTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTAAATAAAAAATAATTATTA
Found at i:2177771 original size:16 final size:16
Alignment explanation
Indices: 2177752--2177782 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2177742 ATATTATTTC
*
2177752 AAATAAAAATGAAGTA
1 AAATAAAAATAAAGTA
2177768 AAATAAAAATAAAGT
1 AAATAAAAATAAAGT
2177783 GTAAATTGAA
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:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAGTA
Found at i:2177874 original size:24 final size:24
Alignment explanation
Indices: 2177846--2177891 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2177836 ACAAGTTAAT
*
2177846 TAAATATAAAAATTTTATATATTA
1 TAAATATAAAAATTTTAAATATTA
* *
2177870 TAAATTTTAAAATTTTAAATAT
1 TAAATATAAAAATTTTAAATAT
2177892 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATATAAAAATTTTAAATATTA
Found at i:2178973 original size:27 final size:27
Alignment explanation
Indices: 2178928--2178979 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2178918 AAACAAACCT
*
2178928 AAATTTAATTGAAACTTAT-AATTTTA
1 AAATTTAACTGAAACTTATGAATTTTA
*
2178954 AAATTTGAACTGAAATTTATGAATTT
1 AAATTT-AACTGAAACTTATGAATTT
2178980 ACAAATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 11 0.50
28 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (27 bp):
AAATTTAACTGAAACTTATGAATTTTA
Found at i:2178980 original size:27 final size:27
Alignment explanation
Indices: 2178928--2178985 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
2178918 AAACAAACCT
*
2178928 AAATTTAATTGAAACTTATAATTTTA-
1 AAATTTAACTGAAACTTATAATTTTAC
*
2178954 AAATTTGAACTGAAATTTATGAA-TTTAC
1 AAATTT-AACTGAAACTTAT-AATTTTAC
2178982 AAAT
1 AAAT
2178986 ACATAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (27 bp):
AAATTTAACTGAAACTTATAATTTTAC
Found at i:2189667 original size:25 final size:24
Alignment explanation
Indices: 2189624--2189678 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
2189614 TCATTTTGCC
*
2189624 ACTTCAGAATATTTCTCATCCTCTG
1 ACTTCAGAATATTTCTCATCCT-TA
*
2189649 ACTTCAGAAT-TGTTGTCATCCTTA
1 ACTTCAGAATAT-TTCTCATCCTTA
2189673 ACTTCA
1 ACTTCA
2189679 CAATGCCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (24 bp):
ACTTCAGAATATTTCTCATCCTTA
Found at i:2192903 original size:21 final size:20
Alignment explanation
Indices: 2192878--2192937 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2192868 ATTTTAAATT
2192878 TATTATAATATTTAATTTCA
1 TATTATAATATTTAATTTCA
*
2192898 TCATTATAATAATTAATTT--
1 T-ATTATAATATTTAATTTCA
* *
2192917 TATTATTATTTTTAATTTCA
1 TATTATAATATTTAATTTCA
2192937 T
1 T
2192938 TAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 2 0.06
21 16 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATAATATTTAATTTCA
Found at i:2192904 original size:24 final size:24
Alignment explanation
Indices: 2192846--2192910 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
2192836 TTTTATTACA
* * *
2192846 TTCATCGTTATTTTTATATTTAAT
1 TTCATCATTATTATAATATTTAAT
* *
2192870 TTTA-AATTTATTATAATATTTAAT
1 TTCATCA-TTATTATAATATTTAAT
*
2192894 TTCATCATTATAATAAT
1 TTCATCATTATTATAAT
2192911 TAATTTTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTCATCATTATTATAATATTTAAT
Found at i:2192931 original size:18 final size:18
Alignment explanation
Indices: 2192862--2192952 Score: 75
Period size: 18 Copynumber: 5.2 Consensus size: 18
2192852 GTTATTTTTA
*
2192862 TATT-TAAT-TTTAAATT
1 TATTATAATATTTAATTT
2192878 TATTATAATATTTAATTT
1 TATTATAATATTTAATTT
*
2192896 CATCATTATAATAATTAATTT
1 --T-ATTATAATATTTAATTT
* *
2192917 TATTATTATTTTTAATTT
1 TATTATAATATTTAATTT
*
2192935 CATTA-AA-A-TTAATTT
1 TATTATAATATTTAATTT
2192950 TAT
1 TAT
2192953 GATTCATCCG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
15 9 0.15
16 4 0.07
17 5 0.08
18 25 0.41
19 1 0.02
20 1 0.02
21 16 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATAATATTTAATTT
Found at i:2198328 original size:2 final size:2
Alignment explanation
Indices: 2198321--2198352 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2198311 AATATCTATC
2198321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2198353 CATTGTCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2210380 original size:16 final size:16
Alignment explanation
Indices: 2210359--2210419 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
2210349 AATATAGTAT
2210359 TTTATTAAATAATAAA
1 TTTATTAAATAATAAA
2210375 TTTATTAATATAAT-AA
1 TTTATTAA-ATAATAAA
*
2210391 TATA-TAAAT--TAAA
1 TTTATTAAATAATAAA
* *
2210404 TTAAATAAATAATAAA
1 TTTATTAAATAATAAA
2210420 ATATATATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 1 0.03
13 4 0.11
14 7 0.19
15 3 0.08
16 17 0.46
17 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTATTAAATAATAAA
Found at i:2210414 original size:25 final size:23
Alignment explanation
Indices: 2210366--2210418 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
2210356 TATTTTATTA
*
2210366 AATAATAAATTTATTAATATAAT
1 AATAATAAATTAATTAATATAAT
2210389 AATATATAAATTAAATTAA-ATAAAT
1 AATA-ATAAATT-AATTAATAT-AAT
2210414 AATAA
1 AATAA
2210419 AATATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 4 0.15
24 10 0.38
25 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATAATAAATTAATTAATATAAT
Found at i:2211310 original size:14 final size:14
Alignment explanation
Indices: 2211293--2211334 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
2211283 TAATAATTTT
2211293 ATTAATATAAATAA
1 ATTAATATAAATAA
2211307 ATTAATA-AATATAAA
1 ATTAATATAA-AT-AA
2211322 ATTAAT-TAAATAA
1 ATTAATATAAATAA
2211335 TAAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 11 0.44
15 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAATATAAATAA
Found at i:2211323 original size:19 final size:19
Alignment explanation
Indices: 2211295--2211342 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2211285 ATAATTTTAT
2211295 TAATAT-AAATAAATT-AA
1 TAATATAAAATAAATTAAA
*
2211312 TAAATATAAAATTAATTAAA
1 T-AATATAAAATAAATTAAA
2211332 TAATA-AAAATA
1 TAATATAAAATA
2211343 TATAGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 12 0.46
20 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATATAAAATAAATTAAA
Found at i:2211536 original size:16 final size:16
Alignment explanation
Indices: 2211515--2211554 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2211505 CATCAATTGT
*
2211515 ATTTTTTT-TGTATAAA
1 ATTTTTTTAT-TAAAAA
2211531 ATTTTTTTATTAAAAA
1 ATTTTTTTATTAAAAA
2211547 ATTTTTTT
1 ATTTTTTT
2211555 GAAAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTTTTTATTAAAAA
Found at i:2211537 original size:15 final size:15
Alignment explanation
Indices: 2211517--2211560 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2211507 TCAATTGTAT
*
2211517 TTTTTTTGTATAAAA
1 TTTTTTTGTAAAAAA
*
2211532 TTTTTTTATTAAAAAA
1 TTTTTTT-GTAAAAAA
2211548 TTTTTTTG-AAAAA
1 TTTTTTTGTAAAAA
2211561 GGTTATTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 13 0.52
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TTTTTTTGTAAAAAA
Found at i:2211650 original size:17 final size:17
Alignment explanation
Indices: 2211621--2211665 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
2211611 TTAAATTAAG
*
2211621 ATATTAA-ATAATAATT
1 ATATTAATATAATAAAT
*
2211637 TTATTAATATAATAAAT
1 ATATTAATATAATAAAT
*
2211654 ATATAAATATAA
1 ATATTAATATAA
2211666 CATTAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATTAATATAATAAAT
Found at i:2218898 original size:16 final size:17
Alignment explanation
Indices: 2218877--2218921 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
2218867 ATTTGAACTC
2218877 AAATTAACTCAAATCT-
1 AAATTAACTCAAATCTA
*
2218893 AAATTAACAT-GAATCTA
1 AAATTAAC-TCAAATCTA
2218910 AAATTAA-TCAAA
1 AAATTAACTCAAA
2218922 ATTGAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 15 0.62
17 8 0.33
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATTAACTCAAATCTA
Found at i:2219504 original size:2 final size:2
Alignment explanation
Indices: 2219497--2219535 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2219487 TAAAACCCAA
* *
2219497 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2219536 AATCAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2222154 original size:25 final size:26
Alignment explanation
Indices: 2222125--2222173 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2222115 ATTAATATAT
2222125 TTATT-AAG-ATATTAAAAATTATTTC
1 TTATTAAAGTATATT-AAAATTATTTC
2222150 TTATTAAAGTATATTAAAATTATT
1 TTATTAAAGTATATTAAAATTATT
2222174 AATACTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TTATTAAAGTATATTAAAATTATTTC
Found at i:2222287 original size:23 final size:23
Alignment explanation
Indices: 2222269--2222337 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 23
2222259 ATTATTTTTC
2222269 TATTATTTATTAATATATTATAA
1 TATTATTTATTAATATATTATAA
* *
2222292 TATTATTTATTAACATTGTTATAA
1 TATTATTTATTAATA-TATTATAA
*
2222316 TATTAATTAATTAATATATTAT
1 TATT-ATTTATTAATATATTAT
2222338 TTATAAGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 14 0.36
24 16 0.41
25 9 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTATTTATTAATATATTATAA
Found at i:2222909 original size:14 final size:14
Alignment explanation
Indices: 2222890--2222925 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2222880 AACATTTCAG
*
2222890 TTACAATTATTTAA
1 TTACAATTAATTAA
2222904 TTACAATTAATTAA
1 TTACAATTAATTAA
*
2222918 TTATAATT
1 TTACAATT
2222926 TATATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TTACAATTAATTAA
Found at i:2223090 original size:2 final size:2
Alignment explanation
Indices: 2223078--2223112 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2223068 CATAATCATT
* *
2223078 TA TA AA TA TA TA TA GA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2223113 CTATCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2223765 original size:2 final size:2
Alignment explanation
Indices: 2223758--2223783 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2223748 AACAGCCTCC
2223758 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
2223784 TTGAATCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2225468 original size:27 final size:26
Alignment explanation
Indices: 2225414--2225465 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
2225404 AGCAAACTCC
*
2225414 AAATTTAGTTGAAATTTGTAATTTTA
1 AAATTTAGTTGAAATTTATAATTTTA
*
2225440 AAATTTGGATTGAAATTTATGAATTT
1 AAATTTAG-TTGAAATTTAT-AATTT
2225466 AAAGCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 10 0.45
28 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (26 bp):
AAATTTAGTTGAAATTTATAATTTTA
Found at i:2227445 original size:18 final size:18
Alignment explanation
Indices: 2227422--2227457 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2227412 AATAAAGATG
2227422 ATGTAAA-ATAAAAATATA
1 ATGTAAAGA-AAAAATATA
2227440 ATGTAAAGAAAAAATATA
1 ATGTAAAGAAAAAATATA
2227458 TCATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
ATGTAAAGAAAAAATATA
Found at i:2228199 original size:18 final size:16
Alignment explanation
Indices: 2228164--2228213 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
2228154 ATATAAAATA
*
2228164 TAAATTTTAATTTTAT
1 TAAATTTTAATATTAT
2228180 TAAATTTATATATATTAT
1 TAAATTT-TA-ATATTAT
2228198 TAAAATTTTAA-ATTAT
1 T-AAATTTTAATATTAT
2228214 ATTAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
18 9 0.30
19 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAATTTTAATATTAT
Found at i:2228216 original size:18 final size:18
Alignment explanation
Indices: 2228165--2228230 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
2228155 TATAAAATAT
*
2228165 AAATTTT-AATTTTATT-
1 AAATTTTAAATTATATTA
*
2228181 AAA-TTTATATATATTATTA
1 AAATTTTAAAT-TA-TATTA
2228200 AAATTTTAAATTATATTA
1 AAATTTTAAATTATATTA
*
2228218 ATATTTTAAATTA
1 AAATTTTAAATTA
2228231 AATGATATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.07
16 5 0.12
17 1 0.02
18 21 0.51
19 5 0.12
20 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTTTAAATTATATTA
Found at i:2229947 original size:21 final size:21
Alignment explanation
Indices: 2229903--2229948 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
2229893 ATAAAATATA
*
2229903 TAAATTATATTTTTTATTTTAT
1 TAAATTATATTATTTA-TTTAT
2229925 TAAATCTATATTATTTA-TTAT
1 TAAAT-TATATTATTTATTTAT
2229946 TAA
1 TAA
2229949 CCAACAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TAAATTATATTATTTATTTAT
Found at i:2231343 original size:8 final size:8
Alignment explanation
Indices: 2231330--2231364 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
2231320 CACACGAAAC
2231330 TATATAAA
1 TATATAAA
2231338 TATATAAA
1 TATATAAA
2231346 TATATAAA
1 TATATAAA
*
2231354 TAAATAAA
1 TATATAAA
2231362 TAT
1 TAT
2231365 TGTATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TATATAAA
Found at i:2231934 original size:13 final size:13
Alignment explanation
Indices: 2231916--2231940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2231906 TATAAAATTT
2231916 AAAAATTTTATTG
1 AAAAATTTTATTG
2231929 AAAAATTTTATT
1 AAAAATTTTATT
2231941 TACACTCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAAAATTTTATTG
Found at i:2232469 original size:34 final size:34
Alignment explanation
Indices: 2232416--2232508 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
2232406 ACTTATTCTC
* * * **
2232416 AAATAAATTTTCAAGAGTTTTAAAAAATTTTTTA
1 AAATAAATTTTTAAAAGTTTTAAAAAACTTTCAA
* ***
2232450 AAATAAATTTTTGAAAGTTTTTTGAAACTTTCAA
1 AAATAAATTTTTAAAAGTTTTAAAAAACTTTCAA
*
2232484 AAATAAATTTTTAAAAATTTTAAAA
1 AAATAAATTTTTAAAAGTTTTAAAA
2232509 GGTTATTAGA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (34 bp):
AAATAAATTTTTAAAAGTTTTAAAAAACTTTCAA
Found at i:2234465 original size:108 final size:108
Alignment explanation
Indices: 2234327--2234522 Score: 383
Period size: 108 Copynumber: 1.8 Consensus size: 108
2234317 ATGAAAACGG
*
2234327 TGAAAAAGAGCTCAAACGAATAAAGCTTGAGGAATAAAGTAGCAGAACGAGTTAGTGGAACAGGG
1 TGAAAAAGAGCTCAAACGAATAAAGCTTGAGGAATAAAGTAGCAGAACAAGTTAGTGGAACAGGG
2234392 AATCAAAACCAATAACTGTGTATTGTCCGTCTGCCAAAGAGCA
66 AATCAAAACCAATAACTGTGTATTGTCCGTCTGCCAAAGAGCA
2234435 TGAAAAAGAGCTCAAACGAATAAAGCTTGAGGAATAAAGTAGCAGAACAAGTTAGTGGAACAGGG
1 TGAAAAAGAGCTCAAACGAATAAAGCTTGAGGAATAAAGTAGCAGAACAAGTTAGTGGAACAGGG
2234500 AATCAAAACCAATAACTGTGTAT
66 AATCAAAACCAATAACTGTGTAT
2234523 GTGTATATAT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 87 1.00
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (108 bp):
TGAAAAAGAGCTCAAACGAATAAAGCTTGAGGAATAAAGTAGCAGAACAAGTTAGTGGAACAGGG
AATCAAAACCAATAACTGTGTATTGTCCGTCTGCCAAAGAGCA
Found at i:2235567 original size:11 final size:11
Alignment explanation
Indices: 2235553--2235591 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2235543 CATCAAAATT
2235553 AAAAAAAATAG
1 AAAAAAAATAG
2235564 AAAAAAAATA-
1 AAAAAAAATAG
*
2235574 AAAACAAATAG
1 AAAAAAAATAG
2235585 AAGAAAA
1 AA-AAAA
2235592 TTGAGAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 12 0.50
12 3 0.12
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAG
Found at i:2235570 original size:20 final size:21
Alignment explanation
Indices: 2235547--2235593 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2235537 AAAAAGCATC
2235547 AAAATTAAAAA-AAATAGAAA
1 AAAATTAAAAACAAATAGAAA
* *
2235567 AAAAATAAAAACAAATAGAAG
1 AAAATTAAAAACAAATAGAAA
2235588 AAAATT
1 AAAATT
2235594 GAGAAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAATTAAAAACAAATAGAAA
Found at i:2236321 original size:35 final size:35
Alignment explanation
Indices: 2236275--2236344 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2236265 TATCATTCTC
*
2236275 GTACAATGTTAATGGACAATACTTACATGAAATTT
1 GTACAATGTTAATGAACAATACTTACATGAAATTT
2236310 GTACAATGTTAATGAACAATACTTACATGAAATTT
1 GTACAATGTTAATGAACAATACTTACATGAAATTT
2236345 TATAAGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (35 bp):
GTACAATGTTAATGAACAATACTTACATGAAATTT
Found at i:2238045 original size:2 final size:2
Alignment explanation
Indices: 2238038--2238066 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2238028 TATATGGATA
2238038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2238067 AAGAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2242084 original size:34 final size:32
Alignment explanation
Indices: 2242037--2242105 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
2242027 TATATTTTTT
* *
2242037 TTACAAATTTTTGAATATTCATATTTGGTAAG
1 TTACAAATTTTTGAAAATTCATATTTGGAAAG
* *
2242069 TTACATAATTTTTTGAAAATTTATTTTTGGAAAG
1 TTACA-AA-TTTTTGAAAATTCATATTTGGAAAG
2242103 TTA
1 TTA
2242106 TATCAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 2 0.06
34 24 0.77
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (32 bp):
TTACAAATTTTTGAAAATTCATATTTGGAAAG
Found at i:2242141 original size:20 final size:20
Alignment explanation
Indices: 2242131--2242172 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2242121 TTAAAAAGTT
2242131 ATATAACTTTTCAAAAAATC
1 ATATAACTTTTCAAAAAATC
* * *
2242151 ATATAGCTTTTCGAAAATTC
1 ATATAACTTTTCAAAAAATC
2242171 AT
1 AT
2242173 TTTGGATGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATAACTTTTCAAAAAATC
Found at i:2242848 original size:17 final size:18
Alignment explanation
Indices: 2242828--2242861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2242818 ATTTCATTTT
*
2242828 AAAAAAG-ATTTGAAAAA
1 AAAAAAGCATGTGAAAAA
2242845 AAAAAAGCATGTGAAAA
1 AAAAAAGCATGTGAAAA
2242862 GTAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAAAGCATGTGAAAAA
Found at i:2243217 original size:21 final size:22
Alignment explanation
Indices: 2243192--2243234 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2243182 AAAGGTTTAA
*
2243192 ATAATTTA-TAGATATGCAAAT
1 ATAATTTATTAGATATGAAAAT
2243213 ATAATTTATTAGATATGAAAAT
1 ATAATTTATTAGATATGAAAAT
2243235 TCAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAATTTATTAGATATGAAAAT
Found at i:2246225 original size:28 final size:26
Alignment explanation
Indices: 2246189--2246252 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
2246179 TATTTATATG
*
2246189 TATTTTATTTATATAGTTATATATTTAT
1 TATTATATTTATA-AGTTATATA-TTAT
* *
2246217 TATTATA-TTATAATTTATTTATTAT
1 TATTATATTTATAAGTTATATATTAT
2246242 TATTATTATTT
1 TATTA-TATTT
2246253 TTTATCTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.29
26 9 0.29
27 7 0.23
28 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTATATTTATAAGTTATATATTAT
Found at i:2246251 original size:86 final size:89
Alignment explanation
Indices: 2246098--2246269 Score: 205
Period size: 86 Copynumber: 2.0 Consensus size: 89
2246088 TTTTTTCTTT
* *
2246098 TGTATTTTATGTATTTTATTATTTATTTATTATTACTATATATTAATATATGTATATCTTTATTT
1 TGTATTTTATGTATTATATTATATATTTATTATTACTATATATTAATATATGTATATCTTTATTT
*
2246163 ATTTTTTTTC-TGTTAATATTTATA
66 ATTTTTTATCTTG-TAATATTTATA
* * *
2246187 TGTATTTTATTTA-TATAGTTATATATTTATTATTA-TAT-TA-TAATTTATTTATTAT-TATTA
1 TGTATTTTATGTATTATA-TTATATATTTATTATTACTATATATTAATATATGTA-TATCT-TTA
2246247 -TTATTTTTTATCTTGTAATATTT
63 TTTATTTTTTATCTTGTAATATTT
2246270 TTTGGATTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
86 29 0.40
87 10 0.14
88 6 0.08
89 28 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (89 bp):
TGTATTTTATGTATTATATTATATATTTATTATTACTATATATTAATATATGTATATCTTTATTT
ATTTTTTATCTTGTAATATTTATA
Found at i:2247221 original size:32 final size:32
Alignment explanation
Indices: 2247180--2247262 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
2247170 TTTTTTTTGA
2247180 ATTTATTTATTTATTTATTTA-TTCTGAATTTT
1 ATTTATTTATTTATTTATTTATTTCTGAA-TTT
*
2247212 ATTTATTTATTTATTTATTTATTTTTGAATTT
1 ATTTATTTATTTATTTATTTATTTCTGAATTT
*
2247244 ATTTATTTTTTTATTTATT
1 ATTTATTTATTTATTTATT
2247263 AGATTAGGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 42 0.88
33 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (32 bp):
ATTTATTTATTTATTTATTTATTTCTGAATTT
Found at i:2247259 original size:28 final size:28
Alignment explanation
Indices: 2247173--2247262 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 28
2247163 CCAGGTTTTT
*
2247173 TTTTTGAATTTATTTATTTATTTATTTA
1 TTTTTGAATTTATTTATTTTTTTATTTA
*
2247201 -TTCTGAATTTTATTTATTTATTTATTTATTTA
1 TTTTTGAA-TTTATTTA--T-TTT-TTTATTTA
2247233 TTTTTGAATTTATTTATTTTTTTATTTA
1 TTTTTGAATTTATTTATTTTTTTATTTA
2247261 TT
1 TT
2247263 AGATTAGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 6 0.11
28 18 0.34
29 3 0.06
30 2 0.04
31 2 0.04
32 16 0.30
33 6 0.11
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (28 bp):
TTTTTGAATTTATTTATTTTTTTATTTA
Found at i:2247278 original size:4 final size:4
Alignment explanation
Indices: 2247180--2247262 Score: 96
Period size: 4 Copynumber: 19.8 Consensus size: 4
2247170 TTTTTTTTGA
2247180 ATTT ATTT ATTT ATTT ATTT ATTCT GAATTTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATT-T --A-TTT ATTT ATTT ATTT ATTT
* *
2247228 ATTT ATTT -TTGA ATTT ATTT ATTT TTTT ATTT ATT
1 ATTT ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATT
2247263 AGATTAGGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
3 2 0.03
4 59 0.86
5 4 0.06
7 2 0.03
8 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:2247455 original size:59 final size:59
Alignment explanation
Indices: 2247382--2247894 Score: 654
Period size: 59 Copynumber: 8.8 Consensus size: 59
2247372 ATAAAAATAT
2247382 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * *
2247441 AAAAAAATATTTTT-GAAGAAAAGTTGAAAGTATCAATTTTTCTTAATAATAAAATTT-A
1 AAAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * *
2247499 AAAAAAAAAGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTTTA
1 AAAAAAATA--TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA--TTTTCA
*
2247562 AAAAAAA-A-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* *
2247618 -AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCA
1 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * *
2247676 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * * *
2247734 -AAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCCTTAAAAATAAAATTTCA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
** ** * *
2247792 AAAAAAGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC-
1 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* *
2247850 AAAAGAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTA
2247895 CACAAGAACA
Statistics
Matches: 402, Mismatches: 33, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
55 6 0.01
56 1 0.00
57 103 0.26
58 51 0.13
59 188 0.47
60 40 0.10
62 5 0.01
63 8 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
Found at i:2247482 original size:116 final size:114
Alignment explanation
Indices: 2247362--2247894 Score: 676
Period size: 116 Copynumber: 4.6 Consensus size: 114
2247352 TATTATTCTA
* * *
2247362 TTTTCTTTAAATAAAAATATAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTA
1 TTTTCTTAAAAT-AAAATTTAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTA
2247427 AAAATAAATTTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT
64 AAAATAAATTTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT
*
2247478 TTTTCTTAATAATAAAATTTAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTTCTTAA-AATAAAATTT-AAAAAAATA--TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
*
2247543 TTAAAAATAAATTTTTTTAAAAAAAA-A-TTTTG-AGAAAAAGTTGAAAGTATCAAT
61 TTAAAAATAAA--TTTTCAAAAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAAT
* *
2247597 TTTTCTTAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 TTTTCTT-AAAATAAAATTTAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTA
* **
2247662 AAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAT
64 AAAATAAATTTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT
* * * *
2247713 TTTCCTTAAGAATAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCCTTA
1 TTTTCTTAA-AATAAAATTTAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** *
2247778 AAAATAAAATTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAAT
64 AAAATAAATTTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT
* * * * * *
2247829 TTTTCTCGAAATTAAAGTTTCAAAAGAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
1 TTTTCT-TAAAATAAAATTT-AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
2247894 A
63 A
2247895 CACAAGAACA
Statistics
Matches: 373, Mismatches: 28, Indels: 31
0.86 0.06 0.07
Matches are distributed among these distances:
114 11 0.03
115 3 0.01
116 199 0.53
117 54 0.14
118 9 0.02
119 80 0.21
120 5 0.01
121 12 0.03
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (114 bp):
TTTTCTTAAAATAAAATTTAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
AATAAATTTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT
Found at i:2247557 original size:17 final size:16
Alignment explanation
Indices: 2247535--2247573 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2247525 TGAAAGTATC
*
2247535 AATTTTCCTTAAAAATA
1 AATTTT-CTTAAAAAAA
*
2247552 AATTTTTTTAAAAAAA
1 AATTTTCTTAAAAAAA
2247568 AATTTT
1 AATTTT
2247574 GAGAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTTTCTTAAAAAAA
Found at i:2247564 original size:16 final size:16
Alignment explanation
Indices: 2247543--2247573 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2247533 TCAATTTTCC
*
2247543 TTAAAAATAAATTTTT
1 TTAAAAAAAAATTTTT
2247559 TTAAAAAAAAATTTT
1 TTAAAAAAAAATTTT
2247574 GAGAAAAAGT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAAAAAAATTTTT
Found at i:2256302 original size:16 final size:16
Alignment explanation
Indices: 2256273--2256355 Score: 109
Period size: 16 Copynumber: 5.2 Consensus size: 16
2256263 ACTATGCTTG
2256273 AAAAAAATGAAAAAAAT
1 AAAAAAATG-AAAAAAT
*
2256290 GAAAAAATG-AAAAAT
1 AAAAAAATGAAAAAAT
2256305 AAAAAAAATG-AAAAAT
1 -AAAAAAATGAAAAAAT
*
2256321 AAAAAAATAAAAAAAT
1 AAAAAAATGAAAAAAT
2256337 AAAAAAATGAAAAAA-
1 AAAAAAATGAAAAAAT
2256352 AAAA
1 AAAA
2256356 GTGAAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
15 18 0.30
16 34 0.57
17 8 0.13
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAAAATGAAAAAAT
Found at i:2256309 original size:24 final size:24
Alignment explanation
Indices: 2256275--2256355 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
2256265 TATGCTTGAA
*
2256275 AAAAATGAAAAAAATGAAAAAATG
1 AAAAATAAAAAAAATGAAAAAATG
2256299 AAAAATAAAAAAAATG-AAAAAT-
1 AAAAATAAAAAAAATGAAAAAATG
* *
2256321 AAAAAAATAAAAAAATAAAAAAATG
1 AAAAATA-AAAAAAATGAAAAAATG
2256346 AAAAA-AAAAA
1 AAAAATAAAAA
2256356 GTGAAAAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.12
23 18 0.35
24 22 0.43
25 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (24 bp):
AAAAATAAAAAAAATGAAAAAATG
Found at i:2256364 original size:8 final size:8
Alignment explanation
Indices: 2256274--2256351 Score: 88
Period size: 8 Copynumber: 9.8 Consensus size: 8
2256264 CTATGCTTGA
2256274 AAAAAATG
1 AAAAAATG
2256282 AAAAAAATG
1 -AAAAAATG
2256291 AAAAAATG
1 AAAAAATG
*
2256299 -AAAAATAA
1 AAAAAAT-G
2256307 AAAAAATG
1 AAAAAATG
*
2256315 -AAAAATA
1 AAAAAATG
*
2256322 AAAAAATA
1 AAAAAATG
*
2256330 AAAAAATA
1 AAAAAATG
2256338 AAAAAATG
1 AAAAAATG
2256346 AAAAAA
1 AAAAAA
2256352 AAAAGTGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
7 12 0.19
8 36 0.58
9 14 0.23
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:2257449 original size:25 final size:25
Alignment explanation
Indices: 2257415--2257464 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2257405 TTAGAGGAGC
*
2257415 AATTTACTTTTCCAAAGTCGTGGTG
1 AATTTACTTTTCCAAAGTCGCGGTG
2257440 AATTTACTTTTCCAAAGTCGCGGTG
1 AATTTACTTTTCCAAAGTCGCGGTG
2257465 CCTCTGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (25 bp):
AATTTACTTTTCCAAAGTCGCGGTG
Found at i:2257486 original size:67 final size:65
Alignment explanation
Indices: 2257374--2257505 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 65
2257364 GTCAAGGAGC
*
2257374 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 AATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAGTCGTGGT
2257439 G
65 G
*
2257440 AATTTACTTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCCAAGTCGTGGT
1 AATTTAC-TTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCGTGGT
2257505 G
65 G
2257506 CCTCTGTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 18 0.29
67 45 0.71
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (65 bp):
AATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCGTGGTG
Found at i:2257510 original size:41 final size:42
Alignment explanation
Indices: 2257440--2257565 Score: 175
Period size: 41 Copynumber: 3.0 Consensus size: 42
2257430 AGTCGTGGTG
* *
2257440 AATTTACTTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGT
1 AATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
2257482 AATTTACTTTTCC-AAGTCGTGGTGCCTCTGTTTAAAGGAGC
1 AATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
2257523 AATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
2257566 TTTGGTCAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 35 0.47
42 14 0.19
43 25 0.33
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
AATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:2257623 original size:10 final size:10
Alignment explanation
Indices: 2257574--2257623 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
2257564 GCTTTGGTCA
2257574 AAAACAAAAAC
1 AAAA-AAAAAC
2257585 -AAAAAAAAC
1 AAAAAAAAAC
*
2257594 ATAAAAAAAC
1 AAAAAAAAAC
2257604 ATAAAAAAAAC
1 A-AAAAAAAAC
2257615 AAAAAAAAA
1 AAAAAAAAA
2257624 TGAAAATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 6 0.17
10 20 0.57
11 9 0.26
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:2257629 original size:10 final size:10
Alignment explanation
Indices: 2257579--2257622 Score: 65
Period size: 9 Copynumber: 4.5 Consensus size: 10
2257569 GGTCAAAAAC
2257579 AAAAACA-AA
1 AAAAACATAA
2257588 AAAAACATAA
1 AAAAACATAA
2257598 AAAAACATAAA
1 AAAAACAT-AA
2257609 AAAAACA-AA
1 AAAAACATAA
2257618 AAAAA
1 AAAAA
2257623 ATGAAAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.42
10 10 0.30
11 9 0.27
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (10 bp):
AAAAACATAA
Found at i:2257629 original size:11 final size:10
Alignment explanation
Indices: 2257574--2257629 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
2257564 GCTTTGGTCA
*
2257574 AAAACAAAAAC
1 AAAA-AAAAAT
2257585 AAAAAAAACAT
1 AAAAAAAA-AT
*
2257596 AAAAAAACAT
1 AAAAAAAAAT
*
2257606 -AAAAAAAAC
1 AAAAAAAAAT
2257615 AAAAAAAAAT
1 AAAAAAAAAT
*
2257625 GAAAA
1 AAAAA
2257630 TGTTGAGTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 7 0.19
10 18 0.49
11 12 0.32
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:2257975 original size:34 final size:38
Alignment explanation
Indices: 2257892--2257976 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 38
2257882 CTGTTAATAT
*
2257892 TTATA-TGTATTTTATTTATATAGTTATATATTTATTA
1 TTATATTGTAATTTATTTATATAGTTATATATTTATTA
* *
2257929 TTATATTATAATTTATTTAT-TA-TTAT-TA-TTATTT
1 TTATATTGTAATTTATTTATATAGTTATATATTTATTA
*
2257963 TTATCTTGTAATTT
1 TTATATTGTAATTT
2257977 TTTTGGATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
34 17 0.40
35 2 0.05
36 4 0.10
37 7 0.17
38 12 0.29
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.65
Consensus pattern (38 bp):
TTATATTGTAATTTATTTATATAGTTATATATTTATTA
Found at i:2258520 original size:19 final size:19
Alignment explanation
Indices: 2258493--2258530 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2258483 ATCGGTAGAC
2258493 TTCTAACGAAAAACCCAGA
1 TTCTAACGAAAAACCCAGA
* *
2258512 TTCTGACGAAAATCCCAGA
1 TTCTAACGAAAAACCCAGA
2258531 ATCCAGTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.18
Consensus pattern (19 bp):
TTCTAACGAAAAACCCAGA
Found at i:2258870 original size:20 final size:17
Alignment explanation
Indices: 2258839--2258886 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
2258829 CCGCTCCAGG
2258839 TTTTTT-TTTTTGAATTT
1 TTTTTTATTTTTGAA-TT
2258856 ATTTATTTATTTTTGAATT
1 -TTT-TTTATTTTTGAATT
2258875 TTTTTTATTTTT
1 TTTTTTATTTTT
2258887 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.32
18 6 0.21
19 5 0.18
20 8 0.29
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTTTGAATT
Found at i:2258888 original size:20 final size:19
Alignment explanation
Indices: 2258842--2258888 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2258832 CTCCAGGTTT
2258842 TTTTTTTTGAATTTATTTA
1 TTTTTTTTGAATTTATTTA
*
2258861 TTTATTTTTGAATTTTTTTTA
1 TTT-TTTTTGAA-TTTATTTA
2258882 TTTTTTT
1 TTTTTTT
2258889 ATTTATTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTTGAATTTATTTA
Found at i:2258939 original size:6 final size:6
Alignment explanation
Indices: 2258918--2258980 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
2258908 TTTAATATTC
* * * *
2258918 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTT TGTTTTA CTCTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
*
2258965 TTTTCA TTTTTA TTTT
1 TTTTTA TTTTTA TTTT
2258981 GTTTTATTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
5 7 0.16
6 33 0.75
7 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:2258953 original size:30 final size:30
Alignment explanation
Indices: 2258919--2258975 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2258909 TTAATATTCT
*
2258919 TTTTA-TCTTTATTTTATTTTTATTTTTTTG
1 TTTTACTCTTT-TTTTATTTTCATTTTTTTG
2258949 TTTTACTCTTTTTTTATTTTCATTTTT
1 TTTTACTCTTTTTTTATTTTCATTTTT
2258976 ATTTTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (30 bp):
TTTTACTCTTTTTTTATTTTCATTTTTTTG
Found at i:2259136 original size:60 final size:59
Alignment explanation
Indices: 2259013--2259231 Score: 341
Period size: 59 Copynumber: 3.7 Consensus size: 59
2259003 AAATAAAAAT
*
2259013 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-C
* *
2259072 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
** *
2259131 AAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
2259191 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAATTTT
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
2259232 TTAAATCAAT
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
59 88 0.59
60 60 0.41
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:2259243 original size:72 final size:72
Alignment explanation
Indices: 2259164--2259303 Score: 280
Period size: 72 Copynumber: 1.9 Consensus size: 72
2259154 AGTTGAAAGT
2259164 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
2259229 TTTTTAA
66 TTTTTAA
2259236 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
2259301 TTT
66 TTT
2259304 CCTTAAAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (72 bp):
ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
TTTTTAA
Found at i:2259356 original size:58 final size:58
Alignment explanation
Indices: 2259236--2259787 Score: 488
Period size: 59 Copynumber: 9.2 Consensus size: 58
2259226 AATTTTTTAA
* *
2259236 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAAT
1 ATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGT
2259295 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * ** *
2259353 ATCAATTTTCCTTAACAATAAAATTTTAAAAAAAAGGTTTTTGAGGACAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * *
2259412 ATCGATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTC---AAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* *
2259473 ATCAATTTTTCTTAAAAATAAA-TTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * * *** ** *
2259530 ATCAATTTT-C-GAAAGTATCAATTTTCCTTAAAAATAA-ATTTCCAAAAAAAATATTTTTGGGG
1 ATCAATTTTCCTTAAA-AATAAATTTT-C--AAAAA-AATATTT-TTGAGGAAA-A--GTT---G
2259592 AAAAGTT
54 -AAAG-T
* * * *
2259599 GAAAGTATCAATTTTTCTTAAGAATAAA-TTTCTAAAAAATATTTTT-AGAAAAAAGTTGAAAGT
1 ------ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGT
* * * *
2259662 ATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGT
* ** * * *
2259721 ATCAATTTTTCTCGAAATTAAAGTTTCAAAAGAATATTTTT-AGGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGT
2259779 ATCAATTTT
1 ATCAATTTT
2259788 TCCTACACAA
Statistics
Matches: 413, Mismatches: 47, Indels: 67
0.78 0.09 0.13
Matches are distributed among these distances:
55 3 0.01
56 5 0.01
57 63 0.15
58 94 0.23
59 127 0.31
60 14 0.03
61 54 0.13
62 1 0.00
63 1 0.00
64 6 0.01
65 1 0.00
67 1 0.00
68 6 0.01
69 1 0.00
70 2 0.00
71 6 0.01
72 8 0.02
74 1 0.00
75 12 0.03
76 5 0.01
77 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
Found at i:2259357 original size:117 final size:118
Alignment explanation
Indices: 2259236--2259787 Score: 566
Period size: 117 Copynumber: 4.6 Consensus size: 118
2259226 AATTTTTTAA
*
2259236 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAAT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAAT
2259301 TTTCCTTAAAAATAAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGT
66 TTTCCTTAAAAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * * *
2259353 ATCAATTTTCCTTAACAATAAAATTTT-AAAAAAAAGGTTTTTGAGGACAAGTTGAAAGTATCGA
1 ATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAA
* *
2259417 TTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGT
65 TTTTCCTTAAAAATAAATTTTC--AAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* * *
2259473 ATCAATTTTTCTTAAAAATAAA-TTTC-CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAAT
** *
2259536 TTT-CGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTG
66 TTTCCTTAA--A--AA-------T--AAAT---TTT-CAAAAAAAATATTTTTGAGGAAAAGTTG
2259600 AAAGT
114 AAAGT
* * * * *
2259605 ATCAATTTTTCTTAAGAATAAA-TTTC-TAAAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAA
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAG-GAAAAGTTGAAAGTATCAA
* * ** *
2259667 TTTTTCTTAAAAATAAAATTTCAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGT
65 TTTTCCTTAAAAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
* ** * * * *
2259721 ATCAATTTTTCTCGAAATTAAAGTTTC-AAAAGAATATTTTT-AGGGAAAAGTTGAAAGTATCAA
1 ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGA-GGAAAAGTTGAAAGTATCAA
2259784 TTTT
65 TTTT
2259788 TCCTACACAA
Statistics
Matches: 373, Mismatches: 36, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
116 47 0.13
117 116 0.31
118 46 0.12
119 4 0.01
120 50 0.13
121 2 0.01
122 1 0.00
128 1 0.00
129 2 0.01
130 4 0.01
131 3 0.01
132 90 0.24
133 6 0.02
134 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (118 bp):
ATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAAT
TTTCCTTAAAAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
Found at i:2259454 original size:250 final size:248
Alignment explanation
Indices: 2259013--2259730 Score: 940
Period size: 250 Copynumber: 2.9 Consensus size: 248
2259003 AAATAAAAAT
* *
2259013 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
1 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
* *
2259078 AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTCAAAAAAAAGGGT
66 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTTAAAAAAAA-GGT
*
2259143 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAAAAAATGTTTTT
130 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTT
* *
2259206 GAGGAAAAGTTGAAAATATCAATTTTTT-AAATCAATTTTCCTTAAAAATAAATTTTC
195 GAGGAAAAGTTGAAAGTATCAATTTTTTAAAAT-AAATTTCC--AAAAA-AAATTTTC
* *
2259263 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC-AAAAA
1 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
2259327 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTTAAAAAAAAGGTT
66 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTTAAAAAAAAGGTT
* *
2259392 TTTGAGGACAAGTTGAAAGTATCGATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTG
131 TTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTG
* *
2259457 AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAATATTTTT
196 AGGAAAAGTTGAAAGTATCAA-TTTT-TT-AAAATAAATTTCCAAAAAAAATTTTC
* ** *** * **
2259513 GAGGAAAA-G-TTGAAAGTATCAATTTTCGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAA
1 AAAAAAAATGTTTTTGAGGA--AAAGTT-GAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAA
* * * *
2259576 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAAT-AAATTTCTAAAAAATA
63 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTT-TAAAAAAAA
* * **
2259640 --TTTTT-AGAAAAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAAATTTCAAAAAAAGGA--
127 GGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCT-TTAAAAATAAATTTTCAAAAAAAAAATG
*
2259699 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
190 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
2259731 CTCGAAATTA
Statistics
Matches: 420, Mismatches: 35, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
246 1 0.00
247 4 0.01
248 79 0.19
249 68 0.16
250 154 0.37
251 46 0.11
252 57 0.14
253 7 0.02
254 4 0.01
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (248 bp):
AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTTAAAAAAAAGGTT
TTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTG
AGGAAAAGTTGAAAGTATCAATTTTTTAAAATAAATTTCCAAAAAAAATTTTC
Found at i:2259545 original size:16 final size:16
Alignment explanation
Indices: 2259524--2259555 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2259514 AGGAAAAGTT
2259524 GAAAGTATCAATTTTC
1 GAAAGTATCAATTTTC
2259540 GAAAGTATCAATTTTC
1 GAAAGTATCAATTTTC
2259556 CTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
GAAAGTATCAATTTTC
Found at i:2259547 original size:73 final size:74
Alignment explanation
Indices: 2259467--2259613 Score: 260
Period size: 75 Copynumber: 2.0 Consensus size: 74
2259457 AGGAAAAGTT
*
2259467 GAAAGTATCAATTTTTCTTAAAAATAAATTTCC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTA
1 GAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTA
2259531 TCAATTTTC
66 TCAATTTTC
*
2259540 GAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGT
1 GAAAGTATCAATTTTCCTTAAAAATAAATTTCC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGT
2259605 ATCAATTTT
65 ATCAATTTT
2259614 TCTTAAGAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
73 32 0.46
75 38 0.54
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (74 bp):
GAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTA
TCAATTTTC
Found at i:2259612 original size:132 final size:134
Alignment explanation
Indices: 2259406--2259670 Score: 428
Period size: 132 Copynumber: 2.0 Consensus size: 134
2259396 AGGACAAGTT
* * *
2259406 GAAAGTATCGATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGTTTTTGAGGAAAAGTTGAAA
1 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAATATTTTTGAGGAAAAGTTGAAA
*
2259471 GTATCAATTTTTCTTAAAAATAAATTTCCAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAA
66 GTATCAATTTTTCTTAAAAATAAATTTCCAAAAAATATTTTTAGA-AAAAAGTTGAAAGTATCAA
2259535 TTTTC
130 TTTTC
* *
2259540 GAAAGTATCAATTTTCCTTAAAAATAAA-TTTC-CAAAAAAAATATTTTTGGGGAAAAGTTGAAA
1 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAATATTTTTGAGGAAAAGTTGAAA
* *
2259603 GTATCAATTTTTCTTAAGAATAAATTTCTAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAAT
66 GTATCAATTTTTCTTAAAAATAAATTTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAAT
2259668 TTT
131 TTT
2259671 TCTTAAAAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
132 90 0.74
133 6 0.05
134 26 0.21
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (134 bp):
GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAATATTTTTGAGGAAAAGTTGAAA
GTATCAATTTTTCTTAAAAATAAATTTCCAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAAT
TTTC
Found at i:2259642 original size:309 final size:308
Alignment explanation
Indices: 2259014--2259789 Score: 1093
Period size: 309 Copynumber: 2.5 Consensus size: 308
2259004 AATAAAAATA
* *
2259014 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCCAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-TAAAAAA
** * * **
2259078 AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTCAAAAAAAAGGGT
65 AAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAAAATGT
* *
2259143 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATGTTTTTGA
130 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAATATTTTTGA
** * *
2259208 GGAAAAGTTGAAAATATCAATTTTTTAAATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATG
195 GGAAAAGTTGAAAATATCAATTTTGAAAATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATA
2259273 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
260 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
*
2259322 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAACAATAAAATTTTAAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAAA
* * * *
2259387 AGGTTTTTGAGGACAAGTTGAAAGTATCGATTTTCTTTAAAAATAAATTTTCAAAAAAAAAATGT
66 AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTC-AAAAAAAAATGT
*
2259452 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTC-CAAAAAATATTTTTGA
130 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAATATTTTTGA
*
2259515 GGAAAAGTTGAAAGTATCAATTTTCGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAA
195 GGAAAAGTTGAAAATATCAATTTT-GAAA--ATCAATTTTCCTTAAAAATAAATTTCCAAAAAAA
* * * *
2259580 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAA-TTTC
257 ATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
* * * *
2259631 TAAAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA-TTTCAAAAA
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAA
** * * * *
2259694 AAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTCGAAATTAAAGTTTCAAAAGAATAT
65 AAGG-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT-TTAAAAATAAAATTTCAAAAAAAAAT
*
2259758 -TTTTAG-GGAAAAGTTGAAAGTATCAATTTTTC
128 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
2259790 CTACACAAGA
Statistics
Matches: 420, Mismatches: 40, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
306 26 0.06
307 42 0.10
308 128 0.30
309 149 0.35
310 75 0.18
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (308 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAAA
AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAAAATGTT
TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAATATTTTTGAG
GAAAAGTTGAAAATATCAATTTTGAAAATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATAT
TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
Found at i:2259652 original size:75 final size:75
Alignment explanation
Indices: 2259467--2259639 Score: 201
Period size: 75 Copynumber: 2.3 Consensus size: 75
2259457 AGGAAAAGTT
* * * * *
2259467 GAAAGTATCAATTTTTCTTAAAAATAAATTTC--CAAAAAATATTTTTGAGGAAAAGTTGAAAGT
1 GAAAGAATCAAATTTCCTAAAAAATAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
2259530 ATCAATTTTC
66 ATCAATTTTC
* * * * *
2259540 GAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGT
1 GAAAGAATCAAATTTCCTAAAAAATAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
2259605 ATCAATTTTTC
66 ATCAA-TTTTC
**
2259616 TTAAGAAT-AAATTT-CTAAAAAATA
1 GAAAGAATCAAATTTCCTAAAAAATA
2259640 TTTTTAGAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
73 31 0.35
74 9 0.10
75 39 0.44
76 10 0.11
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (75 bp):
GAAAGAATCAAATTTCCTAAAAAATAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGT
ATCAATTTTC
Found at i:2259662 original size:116 final size:117
Alignment explanation
Indices: 2259540--2259787 Score: 360
Period size: 116 Copynumber: 2.1 Consensus size: 117
2259530 ATCAATTTTC
* * *
2259540 GAAAGTATCAATTTTCCTTAAAAAT-AAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
1 GAAAGTATCAATTTTCCTTAAAAATAAAATTT-CAAAAAAAAGATTTTTGAGAAAAAGTTGAAAG
*
2259604 TATCAATTTTTCT-TAAGAATAAA-TTTCTAAAA-AATATTTTTAGAAAAAAGTT
65 TATCAATTTTTCTCGAA-AATAAAGTTTC-AAAAGAATATTTTTAGAAAAAAGTT
* *
2259656 GAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGT
1 GAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGT
* **
2259721 ATCAATTTTTCTCGAAATTAAAGTTTCAAAAGAATATTTTTAGGGAAAAGTT
66 ATCAATTTTTCTCGAAAATAAAGTTTCAAAAGAATATTTTTAGAAAAAAGTT
2259773 GAAAGTATCAATTTT
1 GAAAGTATCAATTTT
2259788 TCCTACACAA
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
116 74 0.62
117 45 0.38
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (117 bp):
GAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGT
ATCAATTTTTCTCGAAAATAAAGTTTCAAAAGAATATTTTTAGAAAAAAGTT
Found at i:2259711 original size:132 final size:132
Alignment explanation
Indices: 2259441--2259696 Score: 356
Period size: 132 Copynumber: 1.9 Consensus size: 132
2259431 AAATTTTCAA
*
2259441 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
* * * * ** *
2259506 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCGAAAGTATCAATTTTCCTTAAAAATAAATTT
66 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCGAAAGAATAAAATTTCCAAAAAAAGAAATTT
2259571 CC
131 CC
* * *
2259573 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTCTAAAAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
*
2259638 TATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTTCTTAAA-AATAAAATTT-CAAAAAAAG
66 TATTTTTGAG-AAAAAGTTGAAAGTATCAA-TTTTC-GAAAGAATAAAATTTCCAAAAAAAG
2259697 GATTTTTGAG
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
131 2 0.02
132 92 0.84
133 12 0.11
134 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (132 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCGAAAGAATAAAATTTCCAAAAAAAGAAATTT
CC
Found at i:2264753 original size:25 final size:25
Alignment explanation
Indices: 2264725--2264784 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2264715 TCATTTTGCC
*
2264725 ACTTCAGAATAT-TTCTCATCCTCTG
1 ACTTCAGAATATGTTCTCATCCT-TA
*
2264750 ACTTCAGAAT-TGTTGTCATCCTTA
1 ACTTCAGAATATGTTCTCATCCTTA
*
2264774 ACTTCACAATA
1 ACTTCAGAATA
2264785 CCCAGATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (25 bp):
ACTTCAGAATATGTTCTCATCCTTA
Found at i:2267993 original size:24 final size:22
Alignment explanation
Indices: 2267955--2268010 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 22
2267945 TACATTCATC
2267955 ATTATTTTT-A-T-ATTTAAAT
1 ATTATTTTTAATTAATTTAAAT
* *
2267974 ATATATTTTATAATTAATTTTATT
1 AT-TATTTT-TAATTAATTTAAAT
2267998 ATTATTTTTAATT
1 ATTATTTTTAATT
2268011 TCATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.07
20 6 0.20
21 1 0.03
22 6 0.20
23 7 0.23
24 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTTTTAATTAATTTAAAT
Found at i:2273358 original size:2 final size:2
Alignment explanation
Indices: 2273351--2273379 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2273341 TTTTTCATAA
2273351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2273380 CATTGTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2278343 original size:16 final size:16
Alignment explanation
Indices: 2278322--2278360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2278312 ATCATTAAAA
*
2278322 ATCATCGCAAATCATC
1 ATCATCACAAATCATC
*
2278338 ATCATCATAAATCATC
1 ATCATCACAAATCATC
*
2278354 ATTATCA
1 ATCATCA
2278361 TTGGTTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCACAAATCATC
Found at i:2278361 original size:16 final size:16
Alignment explanation
Indices: 2278330--2278361 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2278320 AAATCATCGC
2278330 AAATCATCATCATCAT
1 AAATCATCATCATCAT
*
2278346 AAATCATCATTATCAT
1 AAATCATCATCATCAT
2278362 TGGTTTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATCATCATCATCAT
Found at i:2280711 original size:16 final size:16
Alignment explanation
Indices: 2280680--2280713 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2280670 ACCAATGATA
*
2280680 ATGATGATTTATGATG
1 ATGATGATTTACGATG
*
2280696 ATGATGATTTGCGATG
1 ATGATGATTTACGATG
2280712 AT
1 AT
2280714 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (16 bp):
ATGATGATTTACGATG
Found at i:2280713 original size:19 final size:16
Alignment explanation
Indices: 2280674--2280705 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2280664 CGATAAACCA
2280674 ATGATAATGATGATTT
1 ATGATAATGATGATTT
*
2280690 ATGATGATGATGATTT
1 ATGATAATGATGATTT
2280706 GCGATGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:2290894 original size:29 final size:28
Alignment explanation
Indices: 2290862--2290956 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
2290852 TTTTAATTAT
2290862 ATATAAATATAATAGTTTATTAAAATAAA
1 ATATAAATATAATA-TTTATTAAAATAAA
* *
2290891 ATATTAACTAATAAT-TTTATTAATATAAA
1 ATA-TAAAT-ATAATATTTATTAAAATAAA
* *
2290920 ATCTATAAATATAAAATTAATTAAATAATAAA
1 A--TATAAATATAATATTTATT-AA-AATAAA
2290952 ATATA
1 ATATA
2290957 TATTTTTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
29 21 0.40
30 17 0.32
31 9 0.17
32 6 0.11
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (28 bp):
ATATAAATATAATATTTATTAAAATAAA
Found at i:2290932 original size:15 final size:14
Alignment explanation
Indices: 2290907--2290958 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
2290897 ACTAATAATT
*
2290907 TTATTAATATAAAA
1 TTATAAATATAAAA
2290921 TCTATAAATATAAAA
1 T-TATAAATATAAAA
2290936 TTAATTAAATAATAAAA
1 TT-A-TAAAT-ATAAAA
2290953 TATATA
1 T-TATA
2290959 TTTTTAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 2 0.06
15 14 0.44
16 7 0.22
17 8 0.25
18 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
TTATAAATATAAAA
Found at i:2302662 original size:21 final size:22
Alignment explanation
Indices: 2302638--2302680 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2302628 TTTTTTTTTT
*
2302638 TTAATT-TTGTTTAAATAAAAA
1 TTAATTATTATTTAAATAAAAA
*
2302659 TTAATTATTATTTTAATAAAAA
1 TTAATTATTATTTAAATAAAAA
2302681 ATATAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTATTATTTAAATAAAAA
Found at i:2303317 original size:16 final size:17
Alignment explanation
Indices: 2303292--2303324 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2303282 AACATGCCTT
*
2303292 TTTTTTACTT-ATATTC
1 TTTTTGACTTAATATTC
2303308 TTTTTGACTTAATATTC
1 TTTTTGACTTAATATTC
2303325 AGGTATGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTGACTTAATATTC
Found at i:2303735 original size:23 final size:24
Alignment explanation
Indices: 2303709--2303756 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2303699 ATATTAATTT
**
2303709 AATAAAAGTAATAAATATAA-ATA
1 AATAAAAACAATAAATATAACATA
*
2303732 AATAAAAACAATAACTATAACATA
1 AATAAAAACAATAAATATAACATA
2303756 A
1 A
2303757 TTCATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (24 bp):
AATAAAAACAATAAATATAACATA
Found at i:2304326 original size:5 final size:5
Alignment explanation
Indices: 2304316--2304347 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
2304306 ATATATTTAT
2304316 ATTAA ATTAA ATTAA ATTAA ATTAA ATATAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA AT-TAA A
2304348 CACTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:2305799 original size:20 final size:20
Alignment explanation
Indices: 2305774--2305811 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2305764 CTCAAAATAG
2305774 AATAAAAA-ATAATAAATAAT
1 AATAAAAACATAA-AAATAAT
2305794 AATAAAAACATAAAAATA
1 AATAAAAACATAAAAATA
2305812 GTCAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAAAACATAAAAATAAT
Found at i:2306870 original size:12 final size:11
Alignment explanation
Indices: 2306838--2306877 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
2306828 AAAAGAAAAA
2306838 AAAATAATAGAAT
1 AAAATAAT--AAT
2306851 AAAATAATAAT
1 AAAATAATAAT
2306862 AACAATAATAAT
1 AA-AATAATAAT
2306874 AAAA
1 AAAA
2306878 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.27
12 11 0.42
13 8 0.31
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:2306911 original size:18 final size:18
Alignment explanation
Indices: 2306890--2306938 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
2306880 AATTAAAAAT
2306890 TAAAAATTAAAAATTAAA
1 TAAAAATTAAAAATTAAA
*
2306908 TAAAAATTTAAAAATTCAA
1 TAAAAA-TTAAAAATTAAA
*
2306927 TAAAATTTAAAA
1 TAAAAATTAAAA
2306939 TAATCTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTAAAAATTAAA
Found at i:2306939 original size:7 final size:7
Alignment explanation
Indices: 2306877--2306923 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
2306867 TAATAATAAA
2306877 AAAAATT
1 AAAAATT
2306884 AAAAATT
1 AAAAATT
2306891 AAAAATT
1 AAAAATT
2306898 AAAAATT
1 AAAAATT
2306905 --AAA-T
1 AAAAATT
2306909 AAAAATTT
1 AAAAA-TT
2306917 AAAAATT
1 AAAAATT
2306924 CAATAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.03
5 3 0.08
6 3 0.08
7 23 0.64
8 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAAATT
Found at i:2307599 original size:31 final size:31
Alignment explanation
Indices: 2307555--2307641 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 31
2307545 TGATATCAGT
*
2307555 TAAACT-GAGCTTAAATTATATCGGTGATAGC
1 TAAACTAG-GCTTAAATTATATCGGTGATAGA
* * *
2307586 TAAATTAGGCTTAAATCTCAT-T-AGTGGTAGA
1 TAAACTAGGCTTAAAT-T-ATATCGGTGATAGA
*
2307617 TAAACTAGACTTAAATTATATCGGT
1 TAAACTAGGCTTAAATTATATCGGT
2307642 ACCAGCTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
29 2 0.05
30 2 0.05
31 35 0.80
32 3 0.07
33 2 0.05
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (31 bp):
TAAACTAGGCTTAAATTATATCGGTGATAGA
Found at i:2307630 original size:62 final size:63
Alignment explanation
Indices: 2307555--2307674 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 63
2307545 TGATATCAGT
* * * *
2307555 TAAACTGAGCTTAAATTATATCGGTGA-TAGCTAAATTAGGCTT-AAATCTCATTAGTGGTAGA
1 TAAACTGAGCTTAAATTATATCGGT-ACCAGCTAAACTAGACTTAAAATCTCATCAGTGGTAGA
2307617 TAAACT-AGACTTAAATTATATCGGTACCAGCTAAACTAGACTTAAAATCTCATCAGTG
1 TAAACTGAG-CTTAAATTATATCGGTACCAGCTAAACTAGACTTAAAATCTCATCAGTG
2307675 CCAACTAAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
61 3 0.06
62 35 0.69
63 13 0.25
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (63 bp):
TAAACTGAGCTTAAATTATATCGGTACCAGCTAAACTAGACTTAAAATCTCATCAGTGGTAGA
Found at i:2307746 original size:32 final size:32
Alignment explanation
Indices: 2307710--2307791 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 32
2307700 TGGGTGCCAT
**
2307710 CTAAATGAGACTTAAAATTTTATTTATG-CTAG
1 CTAAATGAGACTTAAAATTTTATCAATGTC-AG
* *
2307742 CTAAATTAAACTT-AAA-TTTATCAATGTCAG
1 CTAAATGAGACTTAAAATTTTATCAATGTCAG
2307772 CTAAACTG-GACTTAAAATTT
1 CTAAA-TGAGACTTAAAATTT
2307792 GGATGCAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
30 19 0.47
31 8 0.20
32 13 0.32
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (32 bp):
CTAAATGAGACTTAAAATTTTATCAATGTCAG
Found at i:2307848 original size:32 final size:30
Alignment explanation
Indices: 2307755--2307849 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 30
2307745 AATTAAACTT
*
2307755 AAATTTATCAATGTCAGCTAAACTGGACTTA
1 AAATTTATCAATGCCAGCTAAACTGG-CTTA
** * * *
2307786 AAA-TT-TGGATGCAAACTAAACTAGCATTA
1 AAATTTATCAATGCCAGCTAAACTGGC-TTA
2307815 AAATCTTATCAATGCCAGCTAAACTTGGCTTA
1 AAAT-TTATCAATGCCAGCTAAAC-TGGCTTA
2307847 AAA
1 AAA
2307850 ATCTCATCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
28 1 0.02
29 19 0.40
30 2 0.04
31 5 0.10
32 18 0.38
33 3 0.06
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (30 bp):
AAATTTATCAATGCCAGCTAAACTGGCTTA
Found at i:2309012 original size:196 final size:194
Alignment explanation
Indices: 2308631--2309009 Score: 422
Period size: 196 Copynumber: 2.0 Consensus size: 194
2308621 AATTTTTTAT
* *
2308631 TTGAAAAAAATATAATTACTTTTATTAAAATTTCATCTAAATTATTCCATAATTTATGACAAATT
1 TTGAAAAAAATATAATTACTTTTATTAAAATTTCATCTAAATTATTCCACAATTTAAGACAAATT
* * * *
2308696 TAGACAAAATTCTCACCTAAAGATTTCTTAAGAAATTTACCATTTGAAATTTTTAAGAATTTTAT
66 TAGACAAAATTCTCACATAAAGAATTCTTAAGAAATTTACCATTTGAAATTTATAAGAATTTCAT
* *** *
2308761 ATTTGCGTAATTAGTATTTAATTTTAAAATTTTAAAATTTTTTTATTTCTTTTCTTTTTTTTGC
131 ATTTGCGTAATTAGTATTTAATTCTAAAAAAATAAAATTTTTTTATTTATTTTCTTTTTTTTGC
** *
2308825 TTGAAAATAAATATTAATTA-TTGTTATTAAAACTTT-ATCTAAATTATTTTACCATTTAAGACA
1 TTGAAAA-AAATA-TAATTACTT-TTATTAAAA-TTTCATCTAAATTATTCCACAATTTAAGACA
* * *
2308888 AATTTGGATAAAATTCCTCACAT-AGGAATT-TTATAGAAATTTACCATTTGAAATTTATATA-A
62 AATTTAGACAAAATT-CTCACATAAAGAATTCTTA-AGAAATTTACCATTTGAAATTTATA-AGA
* *
2308950 ATTTCATCA-TTG-GATAATTATTATTT-ATTCTAAAAAAAT---ATTTTTTTATTT-TTTTATT
124 ATTTCAT-ATTTGCG-TAATTAGTATTTAATTCTAAAAAAATAAAATTTTTTTATTTATTTTCTT
2309008 TT
187 TT
2309010 CTTCTTAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
191 8 0.05
192 12 0.08
194 7 0.04
195 20 0.13
196 100 0.63
197 11 0.07
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (194 bp):
TTGAAAAAAATATAATTACTTTTATTAAAATTTCATCTAAATTATTCCACAATTTAAGACAAATT
TAGACAAAATTCTCACATAAAGAATTCTTAAGAAATTTACCATTTGAAATTTATAAGAATTTCAT
ATTTGCGTAATTAGTATTTAATTCTAAAAAAATAAAATTTTTTTATTTATTTTCTTTTTTTTGC
Found at i:2315167 original size:20 final size:19
Alignment explanation
Indices: 2315144--2315190 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2315134 TTTGCTTAGG
* *
2315144 ATTTTTTTTAAGTTCATTTT
1 ATTTTTTTTAACTT-ATTGT
2315164 ATTTTTATTTAACTTATTGT
1 ATTTTT-TTTAACTTATTGT
2315184 ATTTTTT
1 ATTTTTT
2315191 CCTAAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTTTTTTAACTTATTGT
Found at i:2315169 original size:21 final size:20
Alignment explanation
Indices: 2315145--2315190 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2315135 TTGCTTAGGA
* *
2315145 TTTTTTTTAAGTTCATTTTAT
1 TTTTTTTTAACTT-ATTGTAT
*
2315166 TTTTATTTAACTTATTGTAT
1 TTTTTTTTAACTTATTGTAT
2315186 TTTTT
1 TTTTT
2315191 CCTAAAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTTTTTAACTTATTGTAT
Found at i:2315495 original size:11 final size:11
Alignment explanation
Indices: 2315481--2315506 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2315471 AAAAAATGAG
2315481 AAAAATTATAA
1 AAAAATTATAA
2315492 AAAAATTATAA
1 AAAAATTATAA
2315503 AAAA
1 AAAA
2315507 TATTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:2316739 original size:23 final size:24
Alignment explanation
Indices: 2316712--2316764 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
2316702 TTTTTAAACT
*
2316712 TTATTTTAA-ATAAAAACTAATTA
1 TTATTTTAATATAAAAAATAATTA
*
2316735 TTATTTTAATATAAAAAATTATTA
1 TTATTTTAATATAAAAAATAATTA
2316759 -TATTTT
1 TTATTTT
2316765 CCAGAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATTTTAATATAAAAAATAATTA
Found at i:2317233 original size:23 final size:22
Alignment explanation
Indices: 2317207--2317254 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2317197 TAATACATGC
2317207 ATTTAAATTAAATTATATTTTAA
1 ATTTAAATT-AATTATATTTTAA
**
2317230 ATTTTAAATTTTTTATATTTTAA
1 A-TTTAAATTAATTATATTTTAA
2317253 AT
1 AT
2317255 AAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 1 0.05
23 13 0.59
24 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAAATTAATTATATTTTAA
Found at i:2317243 original size:16 final size:16
Alignment explanation
Indices: 2317224--2317254 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2317214 TTAAATTATA
2317224 TTTTAAATTTTAAATT
1 TTTTAAATTTTAAATT
*
2317240 TTTTATATTTTAAAT
1 TTTTAAATTTTAAAT
2317255 AAATTTAATA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATTTTAAATT
Found at i:2317371 original size:16 final size:16
Alignment explanation
Indices: 2317336--2317386 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
2317326 ATTAAGTGAT
**
2317336 TTATTTTATATTTTTT
1 TTATTTTATATTTTAA
*
2317352 TTATTTTATATTTAAA
1 TTATTTTATATTTTAA
*
2317368 TTATATTATATTTTAA
1 TTATTTTATATTTTAA
2317384 TTA
1 TTA
2317387 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATATTTTAA
Found at i:2317465 original size:23 final size:23
Alignment explanation
Indices: 2317430--2317473 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2317420 AATTAAATTA
2317430 ATTAAAAATTAAAA-TAATTTTT
1 ATTAAAAATTAAAATTAATTTTT
2317452 ATTAATAAATTAAAATTAATTT
1 ATTAA-AAATTAAAATTAATTT
2317474 AATAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTAAAAATTAAAATTAATTTTT
Found at i:2317479 original size:22 final size:22
Alignment explanation
Indices: 2317419--2317486 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
2317409 TTTGATTTTT
*
2317419 AAATTAAATTAATTAA-AAATTA
1 AAATTAATTTAA-TAATAAATTA
*
2317441 AAA-TAATTTTTATTAATAAATTA
1 AAATTAA--TTTAATAATAAATTA
*
2317464 AAATTAATTTAATAATTAATTA
1 AAATTAATTTAATAATAAATTA
2317486 A
1 A
2317487 TTAATTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.08
22 20 0.53
23 12 0.32
24 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTAATTTAATAATAAATTA
Found at i:2318335 original size:19 final size:18
Alignment explanation
Indices: 2318313--2318355 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
2318303 AATAAAATAT
2318313 TATTTTTTTAAATATAAAA
1 TATTTTTTTAAATAT-AAA
2318332 TATTATTTTTAAATATAAA
1 TATT-TTTTTAAATATAAA
2318351 TATTT
1 TATTT
2318356 AAAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 11 0.48
20 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTTTTAAATATAAA
Found at i:2318340 original size:20 final size:21
Alignment explanation
Indices: 2318304--2318354 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
2318294 TCCGAAATTA
2318304 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTA-TTTTTTAAAT
2318326 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
2318346 AT-AAATATT
1 ATAAAATATT
2318355 TAAAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
22 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:2318373 original size:15 final size:15
Alignment explanation
Indices: 2318324--2318374 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
2318314 ATTTTTTTAA
2318324 ATATAAAATATTATT
1 ATATAAAATATTATT
* * *
2318339 -T-TTAAATATAAAT
1 ATATAAAATATTATT
*
2318352 ATTTAAAATATTATT
1 ATATAAAATATTATT
2318367 ATATAAAA
1 ATATAAAA
2318375 ATATATAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
15 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAAAATATTATT
Found at i:2318507 original size:24 final size:24
Alignment explanation
Indices: 2318476--2318523 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2318466 ACCCCGATTA
* *
2318476 AAAAATAATAAATATAATACAAAT
1 AAAAATAACAAATATAACACAAAT
2318500 AAAAATAACAAATATAACACAAAT
1 AAAAATAACAAATATAACACAAAT
2318524 GATAACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAAATAACAAATATAACACAAAT
Found at i:2321781 original size:13 final size:13
Alignment explanation
Indices: 2321763--2321798 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2321753 GAATTGTAAC
2321763 AAAATAATAATTA
1 AAAATAATAATTA
*
2321776 AAAATATTAAATTA
1 AAAATAAT-AATTA
2321790 AAAATAATA
1 AAAATAATA
2321799 TATGATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAATAATTA
Found at i:2335337 original size:2 final size:2
Alignment explanation
Indices: 2335332--2335357 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2335322 AAATAGATGA
2335332 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
2335358 TCTAATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2336499 original size:18 final size:17
Alignment explanation
Indices: 2336471--2336504 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2336461 AGTCATTTTA
2336471 GGACATTAAAAAAAGAT
1 GGACATTAAAAAAAGAT
*
2336488 GGACACTTAAAATAAGA
1 GGACA-TTAAAAAAAGA
2336505 CAAAGGTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.18
Consensus pattern (17 bp):
GGACATTAAAAAAAGAT
Found at i:2336911 original size:12 final size:12
Alignment explanation
Indices: 2336894--2336918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2336884 CAACCGAATT
2336894 ATATATATTTTA
1 ATATATATTTTA
2336906 ATATATATTTTA
1 ATATATATTTTA
2336918 A
1 A
2336919 ATTTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATATTTTA
Found at i:2337085 original size:23 final size:23
Alignment explanation
Indices: 2337059--2337113 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
2337049 AGTTCAATTT
2337059 AAATTGAATGAAGGTTCGGATTC
1 AAATTGAATGAAGGTTCGGATTC
2337082 AAATTGAATGAAGGTTCGGATTC
1 AAATTGAATGAAGGTTCGGATTC
*
2337105 AAATCGAAT
1 AAATTGAAT
2337114 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (23 bp):
AAATTGAATGAAGGTTCGGATTC
Found at i:2338326 original size:27 final size:27
Alignment explanation
Indices: 2338296--2338352 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2338286 TTATTGCATG
*
2338296 ATTTTATTAATAAAATATTAAAT-TTTA
1 ATTTTAATAATAAAA-ATTAAATCTTTA
* *
2338323 ATTTTAATGATCAAAATTAAATCTTTA
1 ATTTTAATAATAAAAATTAAATCTTTA
2338350 ATT
1 ATT
2338353 GCCTCAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTTTAATAATAAAAATTAAATCTTTA
Found at i:2342478 original size:32 final size:33
Alignment explanation
Indices: 2342436--2342501 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
2342426 ATGATTCATA
2342436 TATTTATATCATATAAAATATTAAAATT-TATG
1 TATTTATATCATATAAAATATTAAAATTATATG
* ***
2342468 TATTTTTATCATATTTTATATTAAAATTATATG
1 TATTTATATCATATAAAATATTAAAATTATATG
2342501 T
1 T
2342502 CATAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (33 bp):
TATTTATATCATATAAAATATTAAAATTATATG
Found at i:2342599 original size:11 final size:11
Alignment explanation
Indices: 2342583--2342630 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
2342573 TAATTTTAAA
2342583 TTATATTATAT
1 TTATATTATAT
*
2342594 TTATATTTTATTT
1 TTATA--TTATAT
*
2342607 TTATATCATAT
1 TTATATTATAT
*
2342618 TTATATTTTAT
1 TTATATTATAT
2342629 TT
1 TT
2342631 TAAATTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 20 0.67
13 10 0.33
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTATAT
Done.