Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, 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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 29
Found at i:3931955 original size:47 final size:44
Alignment explanation
Indices: 3931860--3931979 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 44
3931850 GATTTGATAA
* *
3931860 GTAGTGGTTGATTATTTTAATATGTAG-GGTTTTTATTTTAACAT
1 GTAGTAGTTGATTATTTTAATA-GTAGTGGTTTTTATTTTAACAG
*
3931904 GTAGT-GTTGATTATTTTTAATAGATAGTGGTTTGATTATTTTTACAG
1 GTAGTAGTTGATTA-TTTTAATAG-TAGTGGTTT--TTATTTTAACAG
*
3931951 GTAGTAGTTTATTATTTTAATAGGTAGTG
1 GTAGTAGTTGATTATTTTAATA-GTAGTG
3931980 ATCTTAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
43 9 0.14
44 16 0.24
45 5 0.08
47 28 0.42
48 8 0.12
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.51
Consensus pattern (44 bp):
GTAGTAGTTGATTATTTTAATAGTAGTGGTTTTTATTTTAACAG
Found at i:3939670 original size:81 final size:81
Alignment explanation
Indices: 3939529--3939678 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
3939519 AAATGCATTG
** * * * *
3939529 TTTTACCCAAAGGCATTTAGTCTTTCATCTAACTTGCATGATTGACACCTTCCTAACAAATGCAC
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTAACAAATGAAC
3939594 AGCTAGGCCATTAATC
66 AGCTAGGCCATTAATC
* * * **
3939610 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGAAC
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTAACAAATGAAC
3939675 AGCT
66 AGCT
3939679 GTCGCAACCG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (81 bp):
TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTAACAAATGAAC
AGCTAGGCCATTAATC
Found at i:3940145 original size:13 final size:13
Alignment explanation
Indices: 3940127--3940156 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3940117 TAGCTTACAT
3940127 TAAATAAAATAAA
1 TAAATAAAATAAA
*
3940140 TAAATAAGATAAA
1 TAAATAAAATAAA
3940153 TAAA
1 TAAA
3940157 AGTATATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:3942359 original size:105 final size:105
Alignment explanation
Indices: 3941944--3942970 Score: 1346
Period size: 105 Copynumber: 9.8 Consensus size: 105
3941934 ATCTTTTGCC
** ** * * ** * * *
3941944 GTGAAGTTGAAATTAACTCTGAAA-CCGGAAAGT-TTATTGACAGTCAGCCGTCCCTTCATTGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
** * *
3942007 AAGTTGAACTTTTGCTGTCTTGAGTCCAATATCCTTCGCT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
3942047 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTC-ATCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAG-CGGTCCCTTCGTCG
* * * *
3942111 TGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG-T
64 TGAAGTTGAACTTGCGTTGTCTGGAGT--C-CAATATCCTTCGCT
* ** * * * **
3942155 CGTGGAGTTGAAATCGTGG--GAGAAACT-GAAAAGTTGTTTATTGACAACCAGCCATCCCTTCG
1 -GTGAAGTTGAAAT--TGGCTCTGAAATTGGGAAA-TTG-TTGTTGACAACCAGCGGTCCCTTCG
* * *
3942217 TTGTGAAGTTGAAATTGGCGTTGTCTGGAGTCCAATATCCTACGCT
61 TCGTGAAGTTGAACTT-GCGTTGTCTGGAGTCCAATATCCTTCGCT
3942263 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
* *
3942328 AAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
** * * *
3942368 GCAAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
3942433 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTTGCT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
3942473 GTGAAGTTGAAATTGGCTCTTAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCAT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGT
3942538 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
65 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * *
3942579 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
3942644 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
3942684 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
**
3942749 AAGTTGAACTTGTATTGTCTGGAGTCCAATATCCTTCGCT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
3942789 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
3942854 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * * *
3942894 GTAAAGTTGAAATTGGCTC--------CGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
3942951 AAGTTGAACTTGTGTTGTCT
66 AAGTTGAACTTGCGTTGTCT
3942971 TGAGCGATAT
Statistics
Matches: 833, Mismatches: 73, Indels: 42
0.88 0.08 0.04
Matches are distributed among these distances:
97 53 0.06
103 22 0.03
104 6 0.01
105 447 0.54
106 178 0.21
107 31 0.04
108 13 0.02
109 68 0.08
110 12 0.01
111 3 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTG
AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
Found at i:3942782 original size:421 final size:422
Alignment explanation
Indices: 3941988--3943002 Score: 1436
Period size: 421 Copynumber: 2.4 Consensus size: 422
3941978 TATTGACAGT
* * ** * *
3941988 CAGCCGTCCCTTCATTGTGAAGTTGAACTTTTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAG
1 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
3942053 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTCATCCCTTCGTTGTGAAGTT
66 TTGAAATTGGCTCT-AAATTGGGAAATTGTTTGTTGACAACCAG-CGTCCCTTCGTTGTGAAGTT
* * *
3942118 GAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGGAGAAACTG
129 GAACTTGTGTTGTCTCGAGT-GCACAATATCCTCCGTCGTGAAGTTGAAATC-TGGCAGAAACTG
* *
3942183 AAAAGTTGTTTATTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAAATTGGCGTTGTCTGGAGT
192 AAAAGTTGATTATTGACAACCAGCCATCCCTTCGTCGTGAAGTTGAAATTGGCGTTGTCTGGAGT
3942248 CCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGC
257 CCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGC
* *
3942313 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGCAAAGTTAA
322 GGTCCCTTCGTCGTGAAGTTGAACATGCATTGTCTGGAGTCCAATATCCTTCGCTGCAAAGTTAA
3942378 AATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
387 AATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
*
3942414 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAG
1 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
**
3942479 TTGAAATTGGCTCTTAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTT
66 TTGAAATTGGCTC-TAAATTGGGAAATTGTTTGTTGACAACCAGC-GTCCCTTCGTTGTGAAGTT
* * * * *
3942544 GAACTTGCGTTGTCTGGAGT-C-CAATATCCTTCG-CTGTGAAGTTGAAAT-TGGCTCCGAAATT
129 GAACTTGTGTTGTCTCGAGTGCACAATATCCTCCGTC-GTGAAGTTGAAATCTGG--CAGAAACT
** * ** *
3942605 GGGAAGTT-ATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT-GCGTTGTCTGGAG
191 GAAAAGTTGATTATTGACAACCAGCCATCCCTTCGTCGTGAAGTTGAAATTGGCGTTGTCTGGAG
* *
3942668 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAG
256 TCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
* * ** *
3942733 CGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
321 CGGTCCCTTCGTCGTGAAGTTGAACATGCATTGTCTGGAGTCCAATATCCTTCGCTGCAAAGTTA
3942798 AAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
386 AAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
* * *
3942835 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTAAAG
1 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
3942900 TTGAAATTGGCTC-------CGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
66 TTGAAATTGGCTCTAAATTGGGAAATTGTTTGTTGACAACCAG-CGTCCCTTCGTTGTGAAGTTG
* * *
3942957 AACTTGTGTTGTCTTGA--G--CGATATCCTCCGTCGTGGAGTTGAAATC
130 AACTTGTGTTGTCTCGAGTGCACAATATCCTCCGTCGTGAAGTTGAAATC
3943003 GTGGACGTTT
Statistics
Matches: 533, Mismatches: 47, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
410 22 0.04
411 1 0.00
412 47 0.09
413 8 0.02
421 248 0.47
422 37 0.07
423 33 0.06
424 1 0.00
425 1 0.00
426 134 0.25
427 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (422 bp):
CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCTAAATTGGGAAATTGTTTGTTGACAACCAGCGTCCCTTCGTTGTGAAGTTGA
ACTTGTGTTGTCTCGAGTGCACAATATCCTCCGTCGTGAAGTTGAAATCTGGCAGAAACTGAAAA
GTTGATTATTGACAACCAGCCATCCCTTCGTCGTGAAGTTGAAATTGGCGTTGTCTGGAGTCCAA
TATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGGTC
CCTTCGTCGTGAAGTTGAACATGCATTGTCTGGAGTCCAATATCCTTCGCTGCAAAGTTAAAATT
GGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
Found at i:3954236 original size:13 final size:13
Alignment explanation
Indices: 3954218--3954247 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3954208 TAGCTTACAT
3954218 TAAATAAAATAAA
1 TAAATAAAATAAA
*
3954231 TAAATAAGATAAA
1 TAAATAAAATAAA
3954244 TAAA
1 TAAA
3954248 AGTATATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:3955937 original size:55 final size:55
Alignment explanation
Indices: 3955872--3956385 Score: 775
Period size: 55 Copynumber: 9.4 Consensus size: 55
3955862 AAATTTAAAA
* * * * * *
3955872 ACTTATTATGAATTTCTT-AGTTCTGCATACAAAGTGCCCCTACAGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTT-TACACATAAAGTGCCCATACGGAAATTCATCC
* * * *
3955927 ACTTAGTATGAATTTCTTAAGTTCACACATTAAGTGCTCATACGAAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* *
3955982 ACTTAGTATGAATTTCTTAAGTTAACACATATAGTGCCCATACGG-AATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
3956036 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * *
3956091 ACTTAGTATGATTTTCTTAAGTTTACACATATAGTGCACATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* *
3956146 ACTTAATATGAATTTCTTAAGTTTACACATATAA-TGCCCATACGGAAATTCATCT
1 ACTTAGTATGAATTTCTTAAGTTTACACATA-AAGTGCCCATACGGAAATTCATCC
*
3956201 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
*
3956256 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGTCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
*
3956311 ACTTAGTATGAATTTCTTAAGTTTACACATATAA-TGTCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATA-AAGTGCCCATACGGAAATTCATCC
* *
3956366 ACTAAGTATGAATTTTTTAA
1 ACTTAGTATGAATTTCTTAA
3956386 CTTTTTGCAC
Statistics
Matches: 422, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
54 53 0.13
55 362 0.86
56 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (55 bp):
ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
Found at i:3959573 original size:303 final size:302
Alignment explanation
Indices: 3958816--3959727 Score: 1438
Period size: 303 Copynumber: 3.0 Consensus size: 302
3958806 TTAAATTAAT
* *
3958816 TACTACAATATTATTTAACCTTGCAAAAAATGTAAATATATTAACAATATATTTTTATAAAAATA
1 TACTACAATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATATTTTTTTATAAAAATA
* *
3958881 ATGACTAAATATTATGATTAC---ATAATAATGATTAAATTTGTTACTTCAGATTTTTTTTTATA
66 ATGATTAAATATTATGATTACATTATAATAATGATTAAATTTATTACTTCAGA---TTTTTTATA
* * * * *
3958943 ACTACTTATTATTTCTTTGAATTTATTACTCCCTAATTCTCAGCCAAAGCACCCCATTTTATAAC
128 ACTACTTATTATTACTTCGAATTTATTACTCCCTAATTCTCAACCAAAACACCTCATTTTATAAC
* * * * *
3959008 ATTCCGAGGTATTCATTATACTTTCCCGTTCAACCACCAACCTACCCGGGTTATTAATAGATAAT
193 ATCCCGAGATATTCATTATACTTTCTCGTTCAACCACCAACCTACCAGGGTTATTAATGGATAAT
3959073 TAATGGTGCCATTATTTTTTTGTCATTATAATAAATATTATTTTTC
258 TAATGGTGCCATTA-TTTTTTGTCATTATAATAAATATTATTTTTC
3959119 TACTACAATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATA-TTTTTTATAAAAATA
1 TACTACAATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATATTTTTTTATAAAAATA
* *
3959183 ATGATTAAATACTATGATTATATTATAATAATGATTAAATTTATTACTTCAGATTTTTTATAACT
66 ATGATTAAATATTATGATTACATTATAATAATGATTAAATTTATTACTTCAGATTTTTTATAACT
* *
3959248 ACTTATTTTTACTTCAAATTTATTACTCCCTAATTCTCAACCAAAACACCTCATTTTATAACATC
131 ACTTATTATTACTTCGAATTTATTACTCCCTAATTCTCAACCAAAACACCTCATTTTATAACATC
* * *
3959313 CCGCGATATTCATTATA-TGTTCTCATTCAACCACCAACCTATCAGGGTTATTAATGGATAATTA
196 CCGAGATATTCATTATACT-TTCTCGTTCAACCACCAACCTACCAGGGTTATTAATGGATAATTA
* *
3959377 ATGGTGTCATTATTTTTCGTCATTATAATAAATATTATTTTTC
260 ATGGTGCCATTATTTTTTGTCATTATAATAAATATTATTTTTC
*
3959420 TACTACGATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATATTTTTTTTATAAAAAT
1 TACTACAATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATA-TTTTTTTATAAAAAT
3959485 AATGATTAAATATTATGATTACATTATAATAATGATTAAATTTATTACTTCAGATTTTTTATAAC
65 AATGATTAAATATTATGATTACATTATAATAATGATTAAATTTATTACTTCAGATTTTTTATAAC
*
3959550 TACTTATTATTACTTCGAATTTATTACTCCCTAATTCTCAACCAAAACACCTAATTTTATAACAT
130 TACTTATTATTACTTCGAATTTATTACTCCCTAATTCTCAACCAAAACACCTCATTTTATAACAT
* *
3959615 CTCGGGATATTCATTATACTTTCTCGTTCAACCACCAACACCAACCTACCAGGGTTATTAATGGA
195 CCCGAGATATTCATTATACTTTCTCGTTC-A--A-C--CACCAACCTACCAGGGTTATTAATGGA
3959680 TAATTAATGGTGCCATTATTTTTTGTCATTATAATAAATATTATTTTT
254 TAATTAATGGTGCCATTATTTTTTGTCATTATAATAAATATTATTTTT
3959728 TGTCATTATA
Statistics
Matches: 561, Mismatches: 35, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
301 79 0.14
302 167 0.30
303 211 0.38
304 2 0.00
305 28 0.05
306 1 0.00
307 1 0.00
309 72 0.13
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (302 bp):
TACTACAATATTATTTAACCTTGCAAAAAATATAAATATATTAACAATATTTTTTTATAAAAATA
ATGATTAAATATTATGATTACATTATAATAATGATTAAATTTATTACTTCAGATTTTTTATAACT
ACTTATTATTACTTCGAATTTATTACTCCCTAATTCTCAACCAAAACACCTCATTTTATAACATC
CCGAGATATTCATTATACTTTCTCGTTCAACCACCAACCTACCAGGGTTATTAATGGATAATTAA
TGGTGCCATTATTTTTTGTCATTATAATAAATATTATTTTTC
Found at i:3959722 original size:25 final size:25
Alignment explanation
Indices: 3959694--3959752 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
3959684 TAATGGTGCC
3959694 ATTATTTTTTGTCATTATAATAAAT
1 ATTATTTTTTGTCATTATAATAAAT
3959719 ATTATTTTTTGTCATTATAATAAAT
1 ATTATTTTTTGTCATTATAATAAAT
3959744 ATTATTTTT
1 ATTATTTTT
3959753 CTACTACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
ATTATTTTTTGTCATTATAATAAAT
Found at i:3967382 original size:18 final size:18
Alignment explanation
Indices: 3967359--3967399 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3967349 CGACCCGTTT
3967359 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
3967377 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
3967395 ACCCG
1 ACCCG
3967400 TTGACCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:3967392 original size:8 final size:8
Alignment explanation
Indices: 3967381--3967435 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
3967371 GACCCGACCC
3967381 GACCCGTT
1 GACCCGTT
3967389 GACCC---
1 GACCCGTT
3967394 GACCCGTT
1 GACCCGTT
3967402 GACCCGTT
1 GACCCGTT
*
3967410 GA-CTGTT
1 GACCCGTT
3967417 GACCCGTT
1 GACCCGTT
3967425 GA-CCGTT
1 GACCCGTT
3967432 GACC
1 GACC
3967436 GGAGTTGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 22 0.55
ACGTcount: A:0.15, C:0.36, G:0.25, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:3967392 original size:13 final size:13
Alignment explanation
Indices: 3967332--3967407 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
3967322 AGCCCGACCC
3967332 GACCCGACCCGTT
1 GACCCGACCCGTT
*
3967345 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
3967358 TACCCGACCAGTT
1 GACCCGACCCGTT
3967371 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
3967389 GACCCGACCCGTT
1 GACCCGACCCGTT
3967402 GACCCG
1 GACCCG
3967408 TTGACTGTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 43 0.80
18 11 0.20
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3967403 original size:31 final size:31
Alignment explanation
Indices: 3967346--3967407 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3967336 CGACCCGTTT
*
3967346 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
*
3967377 ACCCGACCCGTTGACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
3967408 TTGACTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCG
Found at i:3967419 original size:7 final size:7
Alignment explanation
Indices: 3967397--3967436 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
3967387 TTGACCCGAC
3967397 CCGTTGA
1 CCGTTGA
3967404 CCCGTTGA
1 -CCGTTGA
*
3967412 CTGTTGA
1 CCGTTGA
3967419 CCCGTTGA
1 -CCGTTGA
3967427 CCGTTGA
1 CCGTTGA
3967434 CCG
1 CCG
3967437 GAGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:3967419 original size:15 final size:15
Alignment explanation
Indices: 3967397--3967435 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3967387 TTGACCCGAC
3967397 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
3967412 CTGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
3967427 CCGTTGACC
1 CCGTTGACC
3967436 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:3968757 original size:18 final size:18
Alignment explanation
Indices: 3968731--3968766 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3968721 TCGAAATGAC
*
3968731 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3968749 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3968767 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3969946 original size:23 final size:23
Alignment explanation
Indices: 3969920--3969993 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
3969910 AATTCTATTA
*
3969920 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
3969943 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
3969966 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
3969990 TGAT
1 TGAT
3969994 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:3969981 original size:24 final size:24
Alignment explanation
Indices: 3969926--3970000 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
3969916 ATTATGATCC
3969926 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
3969949 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
3969973 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
3969997 TGAC
1 TGAC
3970001 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:3972241 original size:18 final size:18
Alignment explanation
Indices: 3972218--3972258 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3972208 CGACCCGTTT
3972218 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
3972236 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
3972254 ACCCG
1 ACCCG
3972259 TTGACCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:3972243 original size:31 final size:31
Alignment explanation
Indices: 3972205--3972266 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3972195 CCGACCGTTT
*
3972205 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
*
3972236 ACCCGACCCGTTGACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
3972267 TTGACTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCG
Found at i:3972251 original size:8 final size:8
Alignment explanation
Indices: 3972240--3972294 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
3972230 GACCCGACCC
3972240 GACCCGTT
1 GACCCGTT
3972248 GACCC---
1 GACCCGTT
3972253 GACCCGTT
1 GACCCGTT
3972261 GACCCGTT
1 GACCCGTT
*
3972269 GA-CTGTT
1 GACCCGTT
3972276 GACCCGTT
1 GACCCGTT
3972284 GA-CCGTT
1 GACCCGTT
3972291 GACC
1 GACC
3972295 GGAGTTGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 22 0.55
ACGTcount: A:0.15, C:0.36, G:0.25, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:3972251 original size:13 final size:13
Alignment explanation
Indices: 3972192--3972266 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 13
3972182 AGCCCGACCC
3972192 GACCCGA-CCGTT
1 GACCCGACCCGTT
*
3972204 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
3972217 TACCCGACCAGTT
1 GACCCGACCCGTT
3972230 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
3972248 GACCCGACCCGTT
1 GACCCGACCCGTT
3972261 GACCCG
1 GACCCG
3972267 TTGACTGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
12 6 0.11
13 36 0.68
18 11 0.21
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3972278 original size:7 final size:7
Alignment explanation
Indices: 3972256--3972295 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
3972246 TTGACCCGAC
3972256 CCGTTGA
1 CCGTTGA
3972263 CCCGTTGA
1 -CCGTTGA
*
3972271 CTGTTGA
1 CCGTTGA
3972278 CCCGTTGA
1 -CCGTTGA
3972286 CCGTTGA
1 CCGTTGA
3972293 CCG
1 CCG
3972296 GAGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:3972278 original size:15 final size:15
Alignment explanation
Indices: 3972256--3972294 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3972246 TTGACCCGAC
3972256 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
3972271 CTGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
3972286 CCGTTGACC
1 CCGTTGACC
3972295 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:3973616 original size:18 final size:18
Alignment explanation
Indices: 3973590--3973625 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3973580 TCGAAATGAC
*
3973590 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3973608 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3973626 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3974805 original size:23 final size:23
Alignment explanation
Indices: 3974779--3974852 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
3974769 AATTCTATTA
*
3974779 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
3974802 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
3974825 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
3974849 TGAT
1 TGAT
3974853 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:3974840 original size:24 final size:24
Alignment explanation
Indices: 3974785--3974859 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
3974775 ATTATGATCC
3974785 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
3974808 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
3974832 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
3974856 TGAC
1 TGAC
3974860 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:3979300 original size:35 final size:35
Alignment explanation
Indices: 3979244--3979318 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
3979234 TTCATGTTCA
*
3979244 AAATTCCAAAACACTTCAATTACATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCCAAACCCT
* * * *
3979279 AAATTCTAAAATACTTTAATTATATTCCAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCCAAACCCT
3979314 AAATT
1 AAATT
3979319 AAAGTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCCAAACCCT
Found at i:3981938 original size:27 final size:28
Alignment explanation
Indices: 3981908--3981967 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
3981898 AAATGCAAAT
3981908 TATTTTCTG-AAAACAAAAACAGAAAAA
1 TATTTTCTGTAAAACAAAAACAGAAAAA
* *
3981935 TATTTTCTGTAAAACAAAAACATAAAAT
1 TATTTTCTGTAAAACAAAAACAGAAAAA
3981963 TATTT
1 TATTT
3981968 AAAAATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (28 bp):
TATTTTCTGTAAAACAAAAACAGAAAAA
Found at i:3989762 original size:21 final size:23
Alignment explanation
Indices: 3989716--3989763 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3989706 ATCAAGTACA
* *
3989716 ATAATATATTAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
3989739 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
3989762 AT
1 AT
3989764 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:3990688 original size:182 final size:182
Alignment explanation
Indices: 3990381--3990835 Score: 730
Period size: 182 Copynumber: 2.5 Consensus size: 182
3990371 ATTTTTTTAC
* * *
3990381 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
* *
3990446 TACATTTTTATAAAGTATCGATACTTTATTGGCGATATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGATATAACTTCTTTTCTTTTAAATTCCAAAAG
* * * *
3990511 TGTCGATACTTATAATAAAGTATTGACACTATCAACATATCCGGTATCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
3990563 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
* * *
3990628 TACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTCTTTTTTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGATATAACTTCTTTTCTTTTAAATTCCAAAAG
3990693 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
* ** * * * *
3990745 TACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTTTTTTTACATGTTTTATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAAC-TGTTATATTGTTATGGATCG
3990810 ATACATTTTTATAAAGTATCGACACT
65 ATACATTTTTATAAAGTATCGACACT
3990836 ATCAACATAT
Statistics
Matches: 252, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
182 208 0.83
183 44 0.17
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGATATAACTTCTTTTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
Found at i:3994021 original size:196 final size:197
Alignment explanation
Indices: 3993624--3994297 Score: 834
Period size: 220 Copynumber: 3.3 Consensus size: 197
3993614 AGACATTTGG
* * * *
3993624 TTATAATTATGTTTTTCGATGTTTTTGGAATTGACAATTGTTATAAATGTATCGAAACTTTGTT-
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGAAACTTT-TTA
* * *
3993688 GTGCACTTGGTTCTGAAATACATTCTGGA-CAAAAGTATCGACACTTATTCTATTTGTGTCAATA
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTT-TT-GATTTGTGTCGATA
* * * * * * ***
3993752 ATGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGATCGGTTATATTTCTAATTTACCTA
128 CTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTA
3993817 TTACA
193 TTACA
* *
3993822 TTATAATTATAGTTTTT-GATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGAAACTTTTTA
*
3993886 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACAC-TTTGATTTGTGTCGATACT
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTTTGATTTGTGTCGATACT
*
3993950 TTTTTTACACCTCTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATT
130 TTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATT
3994015 ACA
195 ACA
* *
3994018 TTATAATTATGTTTTTTGATGTTTTCGGGATCGACACTTTTTATAAATGTATCGAAACTTGTTAT
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGAAACTT-TT-T
*
3994083 AAATGTATCGACACTTTTTAGTGCACTTGGTTCTTAAATACATTCTGGACCAAAAGTATCGACAC
64 --A-G--T-G-CAC---TT-G-G----T--TT-TGAAATACATTCTGGACCAAAAGTATCGACAC
*
3994148 TTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTAAGACCGT
110 -T-TTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGT
3994213 TTACATGAATAATTTACCTATTACA
173 TTACATGAATAATTTACCTATTACA
* * *
3994238 TTATAATTATGTTTTTCGATGTTTTCAGGATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGAAACTT
3994298 GTTTTATTTG
Statistics
Matches: 418, Mismatches: 30, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
195 6 0.01
196 122 0.29
197 6 0.01
198 79 0.19
199 21 0.05
200 1 0.00
201 1 0.00
203 1 0.00
204 1 0.00
205 3 0.01
208 2 0.00
209 1 0.00
210 1 0.00
214 1 0.00
216 2 0.00
217 30 0.07
220 140 0.33
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (197 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTATAAATGTATCGAAACTTTTTAG
TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTTTGATTTGTGTCGATACTT
TTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTA
CA
Found at i:3994071 original size:21 final size:21
Alignment explanation
Indices: 3994047--3994102 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3994037 TGTTTTCGGG
3994047 ATCGACACTTTTTATAAATGT
1 ATCGACACTTTTTATAAATGT
* *
3994068 ATCGAAACTTGTTATAAATGT
1 ATCGACACTTTTTATAAATGT
3994089 ATCGACACTTTTTA
1 ATCGACACTTTTTA
3994103 GTGCACTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (21 bp):
ATCGACACTTTTTATAAATGT
Found at i:3997488 original size:199 final size:199
Alignment explanation
Indices: 3997207--3998702 Score: 2564
Period size: 199 Copynumber: 7.5 Consensus size: 199
3997197 TTTTCAATTT
* ** * * *
3997207 AAACCGGTATTTTTAGACTAGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTTGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
* * *
3997272 TGTTTTTAGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTCGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
3997337 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTGTTTGTAAACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3997402 TCAA
196 TCAA
*
3997406 AAACTGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
*
3997471 TGATTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
3997536 CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3997601 TCAA
196 TCAA
* * *
3997605 AAACTGGTATATTTAGACCGGTTATATTGCTAATCTACATATTATATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
*
3997670 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
3997735 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3997800 TCAA
196 TCAA
*
3997804 AAACCGGTATATTTAGACCGGTTTTATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
3997869 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
3997934 CATTATGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCAATACTTGTTTTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3997999 TCAA
196 TCAA
*
3998003 AAACCGGTATATTTAGATCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
* *
3998068 TGTTTTTGGGATCGACACTTGTTACAAATGTATTGACACGTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
3998133 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATAGTTTTTTTACACCTGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3998198 TCAA
196 TCAA
3998202 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
*
3998267 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
3998332 CATTCTGGACAAAAAGTATCGACACTT-TCTTGATTTGTGTCGATACTTTTTTTATACCTGTTTT
131 CATTCTGGACAAAAAGTATCGACACTTGT-TTGATTTGTGTCGATACTTTTTTTACACCTGTTTT
3998396 CTCAA
195 CTCAA
3998401 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
* *
3998466 TGTTTTTGGGATCGACACTTGTTACAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAGTA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * * *
3998531 CATTATGGACCAAAAGTATCAACACTTGTTCGATTTGTGTCGATAC-TTTTTTACACATGTTTTC
131 CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
3998595 TCAA
196 TCAA
* * * *
3998599 AAACCGGTATATTTAAACCGGTTATATTGCTAATTTACCAATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
*
3998664 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACAC
3998703 ATAAGTTTAC
Statistics
Matches: 1230, Mismatches: 65, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
198 119 0.10
199 1110 0.90
200 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACAAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACCTGTTTTC
TCAA
Found at i:3999094 original size:18 final size:19
Alignment explanation
Indices: 3999047--3999095 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3999037 TTACATTCAC
*
3999047 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
3999066 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
3999085 ATAC-AAATTAA
1 ATACAAAATTAA
3999096 CCATGCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:4000595 original size:18 final size:18
Alignment explanation
Indices: 4000559--4000597 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4000549 TTCTCCTCAT
* *
4000559 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTCTATTC
4000577 TTCCTCCATCTTCTATTC
1 TTCCTCCATCTTCTATTC
4000595 TTC
1 TTC
4000598 AAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTCTATTC
Found at i:4001296 original size:22 final size:21
Alignment explanation
Indices: 4001268--4001324 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
4001258 AACCCGCATT
*
4001268 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
4001290 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
4001314 TATAAAAAAAC
1 TATAATAAAAC
4001325 AAAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 18 0.60
25 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:4002503 original size:182 final size:182
Alignment explanation
Indices: 4002191--4003394 Score: 1684
Period size: 182 Copynumber: 6.6 Consensus size: 182
4002181 TTCGCGTACT
* * * * * *
4002191 TATTAAAGTATCAAAACTTTCAACATATCCGGTATCTATTTACCGGTTTTTTCA-TTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTTCCGGTTTTGTCATTTTTGAGACC
* * * *
4002255 GGTTTTATCATATTTTTACCTGTTATATTGTTCTGGATCGATATATTTTCATAAAGTGTTGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
*
4002320 TTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
4002373 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTTCGGTTTTGTCATTTTTGGGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
* *
4002438 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
*
4002503 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
4002555 TATTAAATTATCGACACTTTCAATATATCCGGTAGCATTTTAT-TGGTTTTGTCAATTTTGAGAT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTT-TCCGGTTTTGTCATTTTTGAGAC
*
4002619 CTGTTTTATCATATTTTTACCTGTTTTATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
64 CTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
*
4002684 CTTTTTAGGCGCTATAACTTCTTCTTTTTTAAATTCAGAAAGTGTCGATACTTA
129 CTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* *
4002738 TATTAAATTATCGACACTTTTAACATATCCAGTAACTTTTTCCGGTTTTGTCATTTTT-AGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
* * ** *
4002802 GTTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
* * *
4002866 TTATAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * * * * * *
4002918 TATTAAATTATCAACACTTTCAATATATCCGGTAGCGTTTACTGGTTTTATCAATTTTGAGACAT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
* *
4002983 GTTTTATTATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAAT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
** * *
4003048 TTTTAAACGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * *
4003100 TATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTATCATTTTTTAGACTT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
* * *
4003165 GTTTTATCATATTTTTACCTATTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
* *
4003230 TTTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
4003282 TATTAAATTATCGATAC--TCGACACATATCTGGTAGCGTTTTACCGGTTTTGTCA-TTTTGGGA
1 TATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC-TTTTTCCGGTTTTGTCATTTTTGAGA
* * * * * * *
4003344 CCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGGGTCGATCCATTTT
63 CCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
4003395 TCATTTCTAT
Statistics
Matches: 905, Mismatches: 108, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
180 115 0.13
181 105 0.12
182 502 0.55
183 182 0.20
184 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (182 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCT
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:4003330 original size:545 final size:546
Alignment explanation
Indices: 4002212--4003375 Score: 1719
Period size: 545 Copynumber: 2.1 Consensus size: 546
4002202 CAAAACTTTC
* * *
4002212 AACATATCCGGTATCTATTTACCGGTTTTTTCATTTTGAGACCGGTTTTATCATATTTTTACCTG
1 AACATATCCAGTAACT-TTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTG
* * *
4002277 TTATATTGTTCTGGATCGATATATTTTCATAAAGTGTTGACACTTTTTAAGCGCTATAACTTCTT
65 TTATATTGTTCTGGATCGATATATTTTCATAAAGTATCGACACTTTATAAGCGCTATAACTTCTT
*
4002342 CTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTA
130 CTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCAACACTTTCAACATATCCGGTA
** * * * *
4002407 ACTTTTTTCGGTTTTGTCATTTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAG
195 ACTTTACTCGGTTTTATCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGGTAAG
* ** *
4002472 GATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTC
260 GATCGATACATTTTCATAAAGTGTCGACAATTTTTAAACGCAATAACTTCTTCTCTTTTAAATTC
* * *
4002537 AGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAGCATTTTATTGGT
325 AGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACATTTTATCGGT
* * * * *
4002602 TTTGTCAATTTTGAGATCTGTTTTATCATATTTTTACCTGTTTTATTGTTATGGATCGATACATT
390 TTTATCAATTTTGAGATCTGTTTTATCATATTTTTACCTATTATATTGGTAAGGATCGATACATT
*
4002667 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTTTTTTAAATTCAGAAAGTGTCGA
455 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGA
**
4002732 TACTTATATTAAATTATCGACACTTTT
520 TACTTATATTAAATTATCGACACTTCG
* * *
4002759 AACATATCCAGTAACTTTTTCCGGTTTTGTCATTTTTAGACCTGTTTTATCATATTTTTACCTGT
1 AACATATCCAGTAACTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGT
* ** * *
4002824 TATATTGTTGTGGATCGATAT-TTTTTTTAAAGTATCGACACTTTATAGGTGCTATAACTTCTTC
66 TATATTGTTCTGGATCGATATATTTTCATAAAGTATCGACACTTTATAAGCGCTATAACTTCTTC
* * *
4002888 TCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCAACACTTTCAATATATCCGGTAG
131 TCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCAACACTTTCAACATATCCGGTAA
* * *
4002953 CGTTTACT-GGTTTTATCAATTTTGAGACATGTTTTATTATATTTTTACCTGTTATATTGTTATG
196 C-TTTACTCGGTTTTATCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGGTAAG
*
4003017 GATCGATACATTTTCATAAAGTGTCGACAATTTTTAAACGCAATAACTTTTTCTCTTTTAAATTC
260 GATCGATACATTTTCATAAAGTGTCGACAATTTTTAAACGCAATAACTTCTTCTCTTTTAAATTC
* *
4003082 AGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAAC-TTTT-TCCGG
325 AGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACATTTTAT-CGG
* *
4003145 TTTTATCATTTTTTAGA-CTTGTTTTATCATATTTTTACCTATTATATTGGTAAGGATCGATACA
389 TTTTATCAATTTTGAGATC-TGTTTTATCATATTTTTACCTATTATATTGGTAAGGATCGATACA
* *
4003209 TTTTCATAAAGTGTCGACACTTTTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTC
453 TTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTC
*
4003274 GATACTTATATTAAATTATCGATAC-TCG
518 GATACTTATATTAAATTATCGACACTTCG
** * * * *
4003302 ACACATATCTGGTAGCGTTTTACCGGTTTTGTCATTTTGGGACCGGTTTTGTCATATTTGTACCT
1 A-ACATATCCAGTAAC-TTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCT
*
4003367 GTAATATTG
64 GTTATATTG
4003376 CTATGGGTCG
Statistics
Matches: 552, Mismatches: 60, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
543 4 0.01
544 158 0.29
545 307 0.56
546 69 0.12
547 14 0.03
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (546 bp):
AACATATCCAGTAACTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGT
TATATTGTTCTGGATCGATATATTTTCATAAAGTATCGACACTTTATAAGCGCTATAACTTCTTC
TCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCAACACTTTCAACATATCCGGTAA
CTTTACTCGGTTTTATCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGGTAAGG
ATCGATACATTTTCATAAAGTGTCGACAATTTTTAAACGCAATAACTTCTTCTCTTTTAAATTCA
GAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACATTTTATCGGTT
TTATCAATTTTGAGATCTGTTTTATCATATTTTTACCTATTATATTGGTAAGGATCGATACATTT
TCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGAT
ACTTATATTAAATTATCGACACTTCG
Found at i:4003348 original size:20 final size:21
Alignment explanation
Indices: 4003323--4003361 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4003313 GTAGCGTTTT
4003323 ACCGGTTTTGTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
4003343 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
4003362 TACCTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:4003830 original size:22 final size:19
Alignment explanation
Indices: 4003791--4003839 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 19
4003781 ATATTAAATT
4003791 AAAATATTTAAAAATAATA
1 AAAATATTTAAAAATAATA
4003810 ATAAATATGTTAAGAAATAATA
1 A-AAATAT-TTAA-AAATAATA
4003832 AAAATATT
1 AAAATATT
4003840 GCATTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.26
21 10 0.37
22 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAATATTTAAAAATAATA
Found at i:4005004 original size:112 final size:112
Alignment explanation
Indices: 4004804--4005154 Score: 535
Period size: 112 Copynumber: 3.1 Consensus size: 112
4004794 TTGTCGGTTT
* **
4004804 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAA-T
1 GTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACT
* * *
4004868 CGGTCTATAAATGACAAAACAGGTAAAGCACTACTGGATATATTGAAA
66 -GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
4004916 GTGTCGATACTTTATAAAAATGTATCAATCCATATCAATATAACAAGTAAAAAAATGACAAAACT
1 GTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACT
*
4004981 GATCTATAAATGACAAAATAGGTAAAGCGCTACCGGATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
4005028 GTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGTCAAAAC-
1 GTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACT
* * * * *
4005092 AAGTTTATAAATGAAAAAACAGGTAAAGCGCTACCGGATATGTTGATA
66 GA-TCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
4005140 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
4005155 TATAAGTATC
Statistics
Matches: 219, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.00
112 217 0.99
113 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACT
GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:4006057 original size:21 final size:21
Alignment explanation
Indices: 4006032--4006085 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
4006022 CGTTGTACAA
4006032 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
4006053 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
4006074 GGGGGAATCGGT
1 GGGGGAATCGGT
4006086 TCCCTCCGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.15, C:0.24, G:0.46, T:0.15
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:4008655 original size:20 final size:21
Alignment explanation
Indices: 4008601--4008663 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
4008591 GATTCCCCTG
4008601 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
4008625 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
4008645 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
4008664 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:4015174 original size:23 final size:23
Alignment explanation
Indices: 4015148--4015195 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
4015138 AAATAGGTCA
*
4015148 ATATAAACGTTATCTATTACATT
1 ATATAAACGTTATCTAATACATT
** *
4015171 ATATAAGTGTTATCTAATATATT
1 ATATAAACGTTATCTAATACATT
4015194 AT
1 AT
4015196 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (23 bp):
ATATAAACGTTATCTAATACATT
Found at i:4022484 original size:19 final size:20
Alignment explanation
Indices: 4022441--4022488 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4022431 TCTAAATCCT
*
4022441 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
4022461 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
4022480 TTTTCAAAA
1 TTTTCAAAA
4022489 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:4023401 original size:34 final size:32
Alignment explanation
Indices: 4023348--4023417 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
4023338 CCTTACAAAC
*
4023348 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
* *
4023380 TCCCTAGCTTTTACACGGGCTAAGCTATAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
4023414 TCCC
1 TCCC
4023418 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:4023879 original size:19 final size:20
Alignment explanation
Indices: 4023855--4023895 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
4023845 AACCATGCAA
4023855 GGGGGAATCTGTACCC-CTG
1 GGGGGAATCTGTACCCTCTG
*
4023874 GGGGGAATCTGTTCCCTCTG
1 GGGGGAATCTGTACCCTCTG
4023894 GG
1 GG
4023896 CAATCTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (20 bp):
GGGGGAATCTGTACCCTCTG
Found at i:4030582 original size:76 final size:76
Alignment explanation
Indices: 4030368--4030565 Score: 333
Period size: 76 Copynumber: 2.6 Consensus size: 76
4030358 TTTATTTTTG
* * * *
4030368 TATTTTAGTTTAAATATGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTATC
1 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAGATATTATTTTTATATTTTATC
*
4030433 TTTGTTTTAGG
66 TTTGTTTTAGA
*
4030444 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAGATATTATTTTTATATTTTATT
1 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAGATATTATTTTTATATTTTATC
4030509 TTTGTTTTAGA
66 TTTGTTTTAGA
*
4030520 TATTTTAGTTTAAATAGGTTTTAGTTTTTTAATTAGGATTTAAGAT
1 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAGAT
4030566 GTTTTAGCTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 115 1.00
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.59
Consensus pattern (76 bp):
TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAGATATTATTTTTATATTTTATC
TTTGTTTTAGA
Found at i:4031151 original size:4 final size:4
Alignment explanation
Indices: 4031142--4031187 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
4031132 CTCAATCTCT
* *
4031142 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA ATT- CTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
4031188 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
3 5 0.14
4 27 0.75
5 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4031254 original size:16 final size:18
Alignment explanation
Indices: 4031212--4031257 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
4031202 AATTTTTTTT
4031212 TTATATTTATTACTATTAA
1 TTATA-TTATTACTATTAA
*
4031231 TATTTATTATTA-TATT-A
1 T-TATATTATTACTATTAA
4031248 TTATATTATT
1 TTATATTATT
4031258 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 4 0.17
19 7 0.29
20 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTATTACTATTAA
Found at i:4036941 original size:16 final size:14
Alignment explanation
Indices: 4036912--4036946 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
4036902 CGTTCATTTA
4036912 ATAAATAAACGAAC
1 ATAAATAAACGAAC
4036926 ATAAATGAACACGAAC
1 ATAAAT-AA-ACGAAC
4036942 ATAAA
1 ATAAA
4036947 CGAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (14 bp):
ATAAATAAACGAAC
Found at i:4037032 original size:10 final size:10
Alignment explanation
Indices: 4037017--4037081 Score: 66
Period size: 10 Copynumber: 6.7 Consensus size: 10
4037007 CATTTAATAA
4037017 ATAAACGAAC
1 ATAAACGAAC
4037027 ATAAACGAAC
1 ATAAACGAAC
*
4037037 ACGAACACGAAC
1 A-TAA-ACGAAC
*
4037049 ATAAATGAAC
1 ATAAACGAAC
4037059 ----ACGAAC
1 ATAAACGAAC
4037065 ATAAACGAAC
1 ATAAACGAAC
4037075 ATAAACG
1 ATAAACG
4037082 TTGGAGACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
6 5 0.11
10 29 0.64
11 4 0.09
12 7 0.16
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4037042 original size:16 final size:16
Alignment explanation
Indices: 4037037--4037075 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4037027 ATAAACGAAC
4037037 ACGAACACGAACATAA
1 ACGAACACGAACATAA
*
4037053 ATGAACACGAACATAA
1 ACGAACACGAACATAA
4037069 ACGAACA
1 ACGAACA
4037076 TAAACGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACACGAACATAA
Found at i:4037049 original size:22 final size:22
Alignment explanation
Indices: 4037021--4037065 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4037011 TAATAAATAA
4037021 ACGAACATAAACGAACACGAAC
1 ACGAACATAAACGAACACGAAC
*
4037043 ACGAACATAAATGAACACGAAC
1 ACGAACATAAACGAACACGAAC
4037065 A
1 A
4037066 TAAACGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.13, T:0.07
Consensus pattern (22 bp):
ACGAACATAAACGAACACGAAC
Found at i:4042797 original size:11 final size:11
Alignment explanation
Indices: 4042715--4042798 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
4042705 TTATATACGT
*
4042715 TAATAGTAAAA
1 TAATATTAAAA
*
4042726 TAATAATAAATA
1 TAATATTAAA-A
4042738 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
4042751 TATATATATATAA
1 TA-ATAT-TAAAA
4042764 TAACT-TTAAAA
1 TAA-TATTAAAA
*
4042775 -AACATTAAAA
1 TAATATTAAAA
*
4042785 TAATATTAGAA
1 TAATATTAAAA
4042796 TAA
1 TAA
4042799 AAATAATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:4043286 original size:36 final size:37
Alignment explanation
Indices: 4043214--4043314 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
4043204 GTGCTTGTGG
* * * *
4043214 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
4043251 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
4043287 ATCCTATTTTT-GAGAGTTTGAATCCTAG
1 ATCCTATTTTTAG-GAGTTTGAATCCTAG
4043315 TAGGACAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.53
37 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:4044092 original size:106 final size:106
Alignment explanation
Indices: 4043775--4044228 Score: 500
Period size: 106 Copynumber: 4.3 Consensus size: 106
4043765 AATATTGTTC
* * ** **
4043775 CGAGTCCAATATCC-TCTGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTC-GCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGAC
* * *
4043839 -AGTCAGTCGCCCCTTCG-CTGTGAAGTT-AAGCTTGTGCTGTCT
65 AAG-CAGCCGTCCCTTCGTC-GTGAAGTTGAA-CTTGTGTTGTCT
* * * *
4043881 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA---CAAAA-T-CTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGACA
* * *
4043940 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTTTCT
66 AGCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
*
4043981 CGAGTCCATTATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATTG-TTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGAAAAATTGTTTGTTGAC
* *
4044045 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AAGCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* * * *
4044087 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGACA
* *
4044152 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 AGCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* *
4044193 CGAGTGCCACGATATCCTCCG-TCGTGGAGTTGAAAT
1 CGAGT-CCA--ATATCCTTCGCT-GTGAAGTTGAAAT
4044229 CGCGGATGGC
Statistics
Matches: 299, Mismatches: 33, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
100 76 0.25
101 6 0.02
102 3 0.01
105 15 0.05
106 172 0.58
107 5 0.02
108 1 0.00
109 21 0.07
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGACA
AGCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
Found at i:4044129 original size:206 final size:209
Alignment explanation
Indices: 4043775--4044228 Score: 534
Period size: 206 Copynumber: 2.2 Consensus size: 209
4043765 AATATTGTTC
* * **
4043775 CGAGTCCAATATCCTCTGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCTGCTGTGAAGTTGAAATTGGCTCTGAAACCGAAAAATTGTTTGTTGACA
* *
4043840 GTCAGTCGCCCCTTCGCTGTGAAGTTAAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
66 GTCAGTCGCCCCTTCGCTGTGAAGTTAAGCTTGCGCTGTCTCGAGTCCAATATCCTTCGCTGTGA
*
4043905 AGTTGAAATTGACTCTGAACA-A-AA-T-CTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTT
131 AGTTGAAATTGACTCTGAA-ATAGAAGTGCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
*
4043966 GAACTTGTGTTTTCT
195 GAACTTGTGTTGTCT
* **
4043981 CGAGTCCATTATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATTG-TTGTTGA
1 CGAGTCCAATATCCTCT-GCTGTGAAGTTGAAATTGGCTCTGAAA-CCGAAAAATTGTTTGTTGA
* * *
4044044 CAAG-CAG-CGGTCCCTTCG-TCGTGAAGTTGAA-CTTGCGTTGTCTGGAGTCCAATATCCTTCG
64 C-AGTCAGTC-GCCCCTTCGCT-GTGAAGTT-AAGCTTGCGCTGTCTCGAGTCCAATATCCTTCG
* * *
4044105 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTT
125 CTGTGAAGTTGAAATTGACTCTGAAA-T-AGAAG-TGCTTGTTGACAACCAGCCGTCCCTTCGTT
4044170 GTGAAGTTGAACTTGTGTTGTCT
187 GTGAAGTTGAACTTGTGTTGTCT
* *
4044193 CGAGTGCCACGATATCCTCCG-TCGTGGAGTTGAAAT
1 CGAGT-CCA--ATATCCTCTGCT-GTGAAGTTGAAAT
4044229 CGCGGATGGC
Statistics
Matches: 210, Mismatches: 20, Indels: 27
0.82 0.08 0.11
Matches are distributed among these distances:
205 4 0.02
206 115 0.55
207 11 0.05
208 1 0.00
209 2 0.01
211 1 0.00
212 53 0.25
213 3 0.01
214 1 0.00
215 19 0.09
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (209 bp):
CGAGTCCAATATCCTCTGCTGTGAAGTTGAAATTGGCTCTGAAACCGAAAAATTGTTTGTTGACA
GTCAGTCGCCCCTTCGCTGTGAAGTTAAGCTTGCGCTGTCTCGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGACTCTGAAATAGAAGTGCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
AACTTGTGTTGTCT
Found at i:4044922 original size:68 final size:67
Alignment explanation
Indices: 4044819--4044989 Score: 229
Period size: 68 Copynumber: 2.5 Consensus size: 67
4044809 GGAAACGATC
* *
4044819 TCAAAGATATTTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAA
4044884 TAAAT
63 TAAAT
** * * *
4044889 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAA
4044954 AT
66 AT
*
4044956 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAG
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAG
4044990 ATAGACGAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 22 0.24
66 3 0.03
67 23 0.26
68 32 0.36
69 4 0.04
70 6 0.07
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:4044965 original size:67 final size:67
Alignment explanation
Indices: 4044819--4045015 Score: 229
Period size: 65 Copynumber: 2.9 Consensus size: 67
4044809 GGAAACGATC
* * *
4044819 TCAAAGATATTTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAA
4044884 TAAAT
63 TAAAT
** * *
4044889 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
4044954 AT
66 AT
* ** * *
4044956 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
4045016 CTGTCTCAAG
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
65 38 0.35
66 7 0.06
67 23 0.21
68 32 0.29
69 4 0.04
70 6 0.05
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:4045016 original size:36 final size:35
Alignment explanation
Indices: 4044965--4045245 Score: 254
Period size: 36 Copynumber: 8.0 Consensus size: 35
4044955 TTCAAAGATT
* *
4044965 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
4045001 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
4045036 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
4045074 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
* * *
4045103 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAATT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-A
* * * *
4045139 TTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
4045175 TTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
4045210 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
4045246 CTCTTCTAGT
Statistics
Matches: 205, Mismatches: 24, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 1 0.00
31 1 0.00
32 2 0.01
33 1 0.00
34 1 0.00
35 10 0.05
36 135 0.66
37 33 0.16
38 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:4045074 original size:138 final size:137
Alignment explanation
Indices: 4044913--4045226 Score: 432
Period size: 138 Copynumber: 2.3 Consensus size: 137
4044903 TTTCAAGAGT
* * *
4044913 AACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGA
* *
4044978 AACTGTCTCAAGATAGACGAAA-ATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
66 AACTGTCTCAAGAGAGAC-AAATATTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-T
4045042 TCCAAAAGA
129 TCCAAAAGA
* * * * *
4045051 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGA
* * * * * * *
4045116 AATTGTCTCAAGAGAGACAAATTTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTATTT
66 AACTGTCTCAAGAGAGACAAATATTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTC
*
4045181 CAAGAGA
131 CAAAAGA
*
4045188 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
4045227 TGTCTCAAGA
Statistics
Matches: 153, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
137 46 0.30
138 107 0.70
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (137 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAATATTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTC
CAAAAGA
Found at i:4045182 original size:101 final size:103
Alignment explanation
Indices: 4045001--4045189 Score: 274
Period size: 102 Copynumber: 1.9 Consensus size: 103
4044991 TAGACGAAAA
*
4045001 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
*
4045066 GACGAAATTTGTTTCAA-AGAAAACATATTCAAATATT
66 GACGAAATTTATTTCAAGAGAAAACATATTCAAATATT
* * ** * ** *
4045103 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAATTTTA-TTTCAAGGGAAACTGTCTCAAGATA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
4045167 GACGAAATTTATTTCAAGAGAAA
66 GACGAAATTTATTTCAAGAGAAA
4045190 CTGTCTCAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
101 36 0.47
102 40 0.53
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (103 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACGAAATTTATTTCAAGAGAAAACATATTCAAATATT
Found at i:4045267 original size:35 final size:36
Alignment explanation
Indices: 4045107--4045279 Score: 145
Period size: 36 Copynumber: 4.8 Consensus size: 36
4045097 AATATTTTGT
* * * * **
4045107 TTCAAGGGAAATTGTCTCAAGAGAGACAAATTTTAT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * * * **
4045143 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTAT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* *
4045179 TTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGA-AAACTGTCTCAAGAGAGACAAAATCTGC
*
4045215 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * *
4045249 TTCTAGTGAAAACGGTCTCAAGTGAGACAAA
1 TTCAAG-GAAAACTGTCTCAAGAGAGACAAA
4045280 TCTTGTTTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.04
35 23 0.19
36 90 0.76
37 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
Found at i:4046828 original size:22 final size:22
Alignment explanation
Indices: 4046790--4046849 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
4046780 TTGCATGTGT
*
4046790 TTTTTGTTCCCTTTTTTATTTTTG
1 TTTTTGTT--CTTTTTTACTTTTG
*
4046814 TTTTTGTTCTTTTTTGCTTTTG
1 TTTTTGTTCTTTTTTACTTTTG
*
4046836 TTTTT-TGCTTTTTT
1 TTTTTGTTCTTTTTT
4046850 TTCCCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.24
22 17 0.52
24 8 0.24
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (22 bp):
TTTTTGTTCTTTTTTACTTTTG
Found at i:4046829 original size:16 final size:15
Alignment explanation
Indices: 4046777--4046841 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 15
4046767 CTTTAGGGAA
* *
4046777 TTTTTGCATGTGTTT
1 TTTTTGCTTTTGTTT
* *
4046792 TTTGTTCCCTTTT-TTA
1 TTT-TT-GCTTTTGTTT
*
4046808 TTTTTGTTTTTGTTCT
1 TTTTTGCTTTTGTT-T
4046824 TTTTTGCTTTTGTTT
1 TTTTTGCTTTTGTTT
4046839 TTT
1 TTT
4046842 GCTTTTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 4 0.11
15 11 0.29
16 20 0.53
17 3 0.08
ACGTcount: A:0.03, C:0.09, G:0.12, T:0.75
Consensus pattern (15 bp):
TTTTTGCTTTTGTTT
Found at i:4046850 original size:22 final size:22
Alignment explanation
Indices: 4046800--4046851 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
4046790 TTTTTGTTCC
** *
4046800 CTTTTTTATTTTTGTTTTTGTT
1 CTTTTTTGCTTTTGTTTTTGCT
4046822 CTTTTTTGCTTTTGTTTTTTGCT
1 CTTTTTTGCTTTTG-TTTTTGCT
*
4046845 TTTTTTT
1 CTTTTTT
4046852 CCCTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.81
Consensus pattern (22 bp):
CTTTTTTGCTTTTGTTTTTGCT
Found at i:4058242 original size:28 final size:28
Alignment explanation
Indices: 4058193--4058355 Score: 82
Period size: 28 Copynumber: 5.6 Consensus size: 28
4058183 AAAATGTTAT
4058193 TTAAATATATAAATAATATTATTCAT-TA
1 TTAAATATATAAATAATATTATT-ATATA
** *
4058221 TTAAATATATAAATTTTTTTATTATATA
1 TTAAATATATAAATAATATTATTATATA
* * *
4058249 TTATTAAAATAAAATATAATA-TCTTATATTA
1 TTA--AATATATAA-ATAATATTATTATA-TA
* * * *
4058280 TTATA-ATATAATTGATTATTTTATATAATA
1 TTAAATATATAAAT-AATATTAT-TAT-ATA
* *
4058310 TTAAAAATATAATATTATATTATTATAAATA
1 TTAAATATATAA-ATAATATTATTAT--ATA
*
4058341 TT-AATAAATAAATAA
1 TTAAATATATAAATAA
4058356 ATAATATTTT
Statistics
Matches: 101, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
27 3 0.03
28 33 0.33
29 6 0.06
30 32 0.32
31 26 0.26
32 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TTAAATATATAAATAATATTATTATATA
Found at i:4058252 original size:31 final size:30
Alignment explanation
Indices: 4058193--4058353 Score: 110
Period size: 31 Copynumber: 5.4 Consensus size: 30
4058183 AAAATGTTAT
4058193 TTAAATATATAAA-TA-A-TATTAT-TCATTA
1 TTAAA-ATATAAATTATATTATTATAT-ATTA
* *
4058221 TTAAATATATAAATTTTTTTATTATATATTA
1 TTAAA-ATATAAATTATATTATTATATATTA
*
4058252 TTAAAATA-AAA-TATAATATCT-TATATTA
1 TTAAAATATAAATTATATTAT-TATATATTA
* *
4058280 TTATAATAT-AATTGATTATT-TTATATAATA
1 TTAAAATATAAATT-A-TATTATTATATATTA
*
4058310 TTAAAAATATAATATTATATTATTATA-AATA
1 TT-AAAATATAA-ATTATATTATTATATATTA
4058341 TTAATAA-ATAAAT
1 TTAA-AATATAAAT
4058354 AAATAATATT
Statistics
Matches: 109, Mismatches: 9, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
28 34 0.31
29 9 0.08
30 19 0.17
31 36 0.33
32 8 0.07
33 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAAAATATAAATTATATTATTATATATTA
Found at i:4058328 original size:22 final size:23
Alignment explanation
Indices: 4058303--4058346 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4058293 GATTATTTTA
4058303 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
4058325 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
4058347 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:4058591 original size:42 final size:42
Alignment explanation
Indices: 4058545--4058734 Score: 294
Period size: 42 Copynumber: 4.6 Consensus size: 42
4058535 TACATTATGG
* * * * *
4058545 AAAACCAATTACGTAAAATAAACACAGGCAAACATTTTCCGA
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
4058587 AAAACGAATTACGTGAAAC--ACACGGGAAAACATTTTCCGA
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
*
4058627 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGG
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
*
4058669 AAAACGAATTACGTGAAACAAACACGGGAAAATATTTTCCGA
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
*
4058711 AAAACGAATTACGTGAAACTAACA
1 AAAACGAATTACGTGAAACAAACA
4058735 TGAGAATTCG
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 38 0.28
42 99 0.72
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (42 bp):
AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
Found at i:4058682 original size:82 final size:83
Alignment explanation
Indices: 4058545--4058734 Score: 292
Period size: 82 Copynumber: 2.3 Consensus size: 83
4058535 TACATTATGG
* * * *
4058545 AAAACCAATTACGTAAAATAAACACAGGCAAACATTTTCCGAAAAACGAATTACGTGAAAC-ACA
1 AAAACGAATTACGTGAAACAAACACAGGAAAACATTTTCCGAAAAACGAATTACGTGAAACAACA
4058609 CGGGAAAACATTTTCCGA
66 CGGGAAAACATTTTCCGA
* *
4058627 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGGAAAACGAATTACGTGAAACAAAC
1 AAAACGAATTACGTGAAACAAACACAGGAAAACATTTTCCGAAAAACGAATTACGTGAAAC-AAC
*
4058692 ACGGGAAAATATTTTCCGA
65 ACGGGAAAACATTTTCCGA
*
4058711 AAAACGAATTACGTGAAACTAACA
1 AAAACGAATTACGTGAAACAAACA
4058735 TGAGAATTCG
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 55 0.56
84 43 0.44
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (83 bp):
AAAACGAATTACGTGAAACAAACACAGGAAAACATTTTCCGAAAAACGAATTACGTGAAACAACA
CGGGAAAACATTTTCCGA
Found at i:4073303 original size:52 final size:52
Alignment explanation
Indices: 4073218--4073323 Score: 187
Period size: 52 Copynumber: 2.0 Consensus size: 52
4073208 TGATATGGAG
4073218 AAATATTATTGGTTGAGACCACGGATAATGTAGTGAGCCGTGATTATCTAAT
1 AAATATTATTGGTTGAGACCACGGATAATGTAGTGAGCCGTGATTATCTAAT
*
4073270 AAATATTATTGGTTGAGACCGCGGATGAA-GTAGTGAGCCGTGATTATCTAAT
1 AAATATTATTGGTTGAGACCACGGAT-AATGTAGTGAGCCGTGATTATCTAAT
4073322 AA
1 AA
4073324 TTTCTCACGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 50 0.96
53 2 0.04
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (52 bp):
AAATATTATTGGTTGAGACCACGGATAATGTAGTGAGCCGTGATTATCTAAT
Found at i:4074427 original size:2 final size:2
Alignment explanation
Indices: 4074420--4074447 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4074410 TCACAAAATC
4074420 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
4074448 GTTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4074500 original size:2 final size:2
Alignment explanation
Indices: 4074493--4074520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4074483 AATATTTCTC
4074493 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
4074521 TTGGTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4075002 original size:17 final size:17
Alignment explanation
Indices: 4074980--4075036 Score: 105
Period size: 17 Copynumber: 3.3 Consensus size: 17
4074970 GGAGTAGGTA
4074980 ATTTTTTTGTTTAAATT
1 ATTTTTTTGTTTAAATT
4074997 ATTTTTTTGTTTAAATT
1 ATTTTTTTGTTTAAATT
4075014 ATTTTTTTGTTTAAATT
1 ATTTTTTTGTTTAAATT
4075031 AATTTT
1 -ATTTT
4075037 GATTATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
17 34 0.87
18 5 0.13
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTTTTGTTTAAATT
Found at i:4075108 original size:27 final size:26
Alignment explanation
Indices: 4075006--4075108 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 26
4074996 TATTTTTTTG
* *
4075006 TTTAAATTATTTTTTTGTTTAAATTAA
1 TTTAGATTATTTTTTT-TTCAAATTAA
* * *
4075033 TTTTGATTATTATTCTATTTTGCTAATTAT
1 TTTAGATTATT-TT-T-TTTT-CAAATTAA
*
4075063 TTTAAGATTAATTTTTTTTCAAATTAA
1 TTT-AGATTATTTTTTTTTCAAATTAA
4075090 TTTAGATTATTTTTATTTT
1 TTTAGATTATTTTT-TTTT
4075109 TCGATTAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
26 10 0.17
27 22 0.37
28 6 0.10
29 4 0.07
30 12 0.20
31 6 0.10
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (26 bp):
TTTAGATTATTTTTTTTTCAAATTAA
Found at i:4076151 original size:25 final size:25
Alignment explanation
Indices: 4076123--4076177 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
4076113 TAAGGATTAT
4076123 ATAAGAATATGAAATAACCTATGTA
1 ATAAGAATATGAAATAACCTATGTA
4076148 ATAAGAATATGAAATAACCTATGTA
1 ATAAGAATATGAAATAACCTATGTA
4076173 ATAAG
1 ATAAG
4076178 GACATAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (25 bp):
ATAAGAATATGAAATAACCTATGTA
Found at i:4076158 original size:13 final size:13
Alignment explanation
Indices: 4076123--4076164 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4076113 TAAGGATTAT
4076123 ATAAGAATATGAA
1 ATAAGAATATGAA
** *
4076136 ATAA-CCTATGTA
1 ATAAGAATATGAA
4076148 ATAAGAATATGAA
1 ATAAGAATATGAA
4076161 ATAA
1 ATAA
4076165 CCTATGTAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (13 bp):
ATAAGAATATGAA
Found at i:4076743 original size:34 final size:34
Alignment explanation
Indices: 4076704--4076771 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
4076694 TGGAAATGAT
4076704 CTATGTGTAAGTGAATTACATGACTATGTGACTA
1 CTATGTGTAAGTGAATTACATGACTATGTGACTA
4076738 CTATGTGTAAGTGAATTACATGACTATGTGACTA
1 CTATGTGTAAGTGAATTACATGACTATGTGACTA
4076772 TGTGTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (34 bp):
CTATGTGTAAGTGAATTACATGACTATGTGACTA
Found at i:4076768 original size:17 final size:17
Alignment explanation
Indices: 4076714--4076768 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4076704 CTATGTGTAA
4076714 GTGAATTACATGACTAT
1 GTGAATTACATGACTAT
* ** *
4076731 GTG-ACTACTATGTGTAA
1 GTGAATTAC-ATGACTAT
4076748 GTGAATTACATGACTAT
1 GTGAATTACATGACTAT
4076765 GTGA
1 GTGA
4076769 CTATGTGTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
16 4 0.14
17 20 0.71
18 4 0.14
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (17 bp):
GTGAATTACATGACTAT
Found at i:4077277 original size:23 final size:23
Alignment explanation
Indices: 4077209--4077269 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
4077199 ACATTTTATA
*
4077209 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
4077232 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
4077255 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
4077270 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4079409 original size:21 final size:21
Alignment explanation
Indices: 4079385--4079428 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4079375 CTTAATCATC
4079385 CATCTACTTTCCCATGTTGGA
1 CATCTACTTTCCCATGTTGGA
4079406 CATCTACTTTCCCATGTTGGA
1 CATCTACTTTCCCATGTTGGA
4079427 CA
1 CA
4079429 GACGTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (21 bp):
CATCTACTTTCCCATGTTGGA
Found at i:4082295 original size:49 final size:49
Alignment explanation
Indices: 4082223--4082322 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
4082213 GTTGATGTGT
*
4082223 CTATGCTTAAAAAATATATAGTATAAAAATTATAAAACTTTTATGGGCC
1 CTATGCTTAAAAAATATATAGTATAAAAATTATAAAACTTTTATGGACC
4082272 CTATGCTTAAAAAATATATAGTATAAAAATTATAAAACTTTTATGGACC
1 CTATGCTTAAAAAATATATAGTATAAAAATTATAAAACTTTTATGGACC
4082321 CT
1 CT
4082323 GAGCGGACGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (49 bp):
CTATGCTTAAAAAATATATAGTATAAAAATTATAAAACTTTTATGGACC
Found at i:4089508 original size:14 final size:15
Alignment explanation
Indices: 4089484--4089512 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4089474 TCAAAGTGTT
4089484 TGAGCAAAGCAGTTG
1 TGAGCAAAGCAGTTG
4089499 TGAG-AAAGCAGTTG
1 TGAGCAAAGCAGTTG
4089513 CTTTTCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (15 bp):
TGAGCAAAGCAGTTG
Found at i:4098716 original size:16 final size:17
Alignment explanation
Indices: 4098692--4098735 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
4098682 TATTTACATA
*
4098692 TATTGTTATAAAAAA-T
1 TATTTTTATAAAAAATT
4098708 TATTTTTATAAAAAATT
1 TATTTTTATAAAAAATT
4098725 TAATTTTTATA
1 T-ATTTTTATA
4098736 TATTTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.56
17 2 0.08
18 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTTTTATAAAAAATT
Found at i:4104193 original size:25 final size:24
Alignment explanation
Indices: 4104158--4104262 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 24
4104148 AAGGGGCGCT
*
4104158 ATTTTTC-AAATAACTTCATCAAAC
1 ATTTTTCAAAAT-TCTTCATCAAAC
4104182 ATTTTTCAAAATTCTTTCATCAAAC
1 ATTTTTCAAAATTC-TTCATCAAAC
4104207 ATTATTT-AAAATTCTATCAT-AAAGC
1 ATT-TTTCAAAATTCT-TCATCAAA-C
4104232 A-TTTTCAAAACTTCTTCATCAAAC
1 ATTTTTCAAAA-TTCTTCATCAAAC
4104256 -TTTTTCA
1 ATTTTTCA
4104263 CCTTTTGAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 18
0.79 0.01 0.20
Matches are distributed among these distances:
23 3 0.04
24 28 0.39
25 37 0.52
26 3 0.04
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (24 bp):
ATTTTTCAAAATTCTTCATCAAAC
Found at i:4104410 original size:14 final size:15
Alignment explanation
Indices: 4104391--4104422 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4104381 AAAGAAAAAT
4104391 CAAAATTT-TTGGGG
1 CAAAATTTGTTGGGG
4104405 CAAAATTTGTTGGGG
1 CAAAATTTGTTGGGG
4104420 CAA
1 CAA
4104423 GATGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (15 bp):
CAAAATTTGTTGGGG
Found at i:4104520 original size:18 final size:20
Alignment explanation
Indices: 4104484--4104520 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4104474 TCTCATTCAA
*
4104484 TCGACTCTTTTCAAGAAGAT
1 TCGACTCTTTGCAAGAAGAT
4104504 TCGACT-TTTGCAA-AAGA
1 TCGACTCTTTGCAAGAAGA
4104521 CTTAATTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (20 bp):
TCGACTCTTTGCAAGAAGAT
Found at i:4105202 original size:188 final size:188
Alignment explanation
Indices: 4104852--4105261 Score: 520
Period size: 188 Copynumber: 2.2 Consensus size: 188
4104842 ATTGGTGACA
*
4104852 ACTAGACCTCCTAAACATGGAGGAGCAATGTCATCATAAGCAGCCAGATTCTCTTCATCGTGGAT
1 ACTAGACCTCCTAAACATGAAGGAGCAATGTCATCATAAGCAGCCAGATTCTCTTCATCGTGGAT
** * *
4104917 GAACAATACCATTTCTGACATCAAATTATCTCTAGGCAATCAGATTTCTTCAACAAGAAGGAACA
66 GAACAATACCATTTCCAACATCAAATTATCTCTAGGCAATCAGATTGCATCAACAAGAAGGAACA
* *
4104982 ATGCTGTATTTAGATATGACTAGACATCCTCATCAACTAGTAAAAATGTCATCCCCTG
131 ATGCTGTATTTAGATATAACTAAACATCCTCATCAACTAGTAAAAATGTCATCCCCTG
* * * *
4105040 ACTAGAGCTCCTCAACATGAAGGAGCAATGTCATCATAAGCGGTCAGATTCTCTTCATCGTGGAT
1 ACTAGACCTCCTAAACATGAAGGAGCAATGTCATCATAAGCAGCCAGATTCTCTTCATCGTGGAT
* * * *
4105105 GAGCAATGCCATTTCCAACATCAAATTATCTCTAGGTAATCAGATTGCATCAACAAGAAGGAGCA
66 GAACAATACCATTTCCAACATCAAATTATCTCTAGGCAATCAGATTGCATCAACAAGAAGGAACA
* * * * * * ** * *
4105170 GTG-T-TATCTTCAGATGTAACTAAACGTCCTCATCAAGTAGGAACAATACCATCCACTA
131 ATGCTGTAT-TT-AGATATAACTAAACATCCTCATCAACTAGTAAAAATGTCATCCCCTG
* * *
4105228 ACTAGTCATCCTTAAA-ATGAAGGAGTAATGTCAT
1 ACTAGACCTCC-TAAACATGAAGGAGCAATGTCAT
4105262 TAGAAATGAC
Statistics
Matches: 189, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
186 3 0.02
187 3 0.02
188 180 0.95
189 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (188 bp):
ACTAGACCTCCTAAACATGAAGGAGCAATGTCATCATAAGCAGCCAGATTCTCTTCATCGTGGAT
GAACAATACCATTTCCAACATCAAATTATCTCTAGGCAATCAGATTGCATCAACAAGAAGGAACA
ATGCTGTATTTAGATATAACTAAACATCCTCATCAACTAGTAAAAATGTCATCCCCTG
Found at i:4107602 original size:18 final size:18
Alignment explanation
Indices: 4107560--4107600 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
4107550 TTTACATATA
4107560 TTGTTAT-AAAATATTAT
1 TTGTTATAAAAATATTAT
4107577 TTGTTATAAAAAT-TTAT
1 TTGTTATAAAAATATTAT
4107594 TT-TTATA
1 TTGTTATA
4107601 TATTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TTGTTATAAAAATATTAT
Found at i:4108111 original size:12 final size:12
Alignment explanation
Indices: 4108075--4108117 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
4108065 GGAAAAAATG
*
4108075 AATAAATGAAAA
1 AATAAAAGAAAA
4108087 AATGAAGAA-AAAA
1 AAT-AA-AAGAAAA
4108100 AATAAAAGAAAA
1 AATAAAAGAAAA
4108112 AATAAA
1 AATAAA
4108118 TAAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 9 0.33
14 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
AATAAAAGAAAA
Found at i:4108118 original size:4 final size:4
Alignment explanation
Indices: 4108111--4108140 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
4108101 ATAAAAGAAA
4108111 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
4108141 TTAATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4108151 original size:2 final size:2
Alignment explanation
Indices: 4108144--4108168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4108134 TGAAATATTA
4108144 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 A
4108169 AATGAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4108397 original size:2 final size:2
Alignment explanation
Indices: 4108390--4108434 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
4108380 GATAATTACA
* *
4108390 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AA AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4108430 AT AT A
1 AT AT A
4108435 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:4108414 original size:17 final size:17
Alignment explanation
Indices: 4108392--4108434 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
4108382 TAATTACAAT
*
4108392 ATATATATATATATATA
1 ATATATATATATAAATA
4108409 ATATATATATATAAATA
1 ATATATATATATAAATA
*
4108426 ATAAATATA
1 ATATATATA
4108435 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATATATATAAATA
Found at i:4108445 original size:21 final size:21
Alignment explanation
Indices: 4108375--4108510 Score: 75
Period size: 21 Copynumber: 6.3 Consensus size: 21
4108365 AAAAAACTAA
*
4108375 ATAAAGATAATTACAATATATAT
1 ATAAAAATAA-TA-AATATATAT
* *
4108398 ATATATAT-AT-AATATATAT
1 ATAAAAATAATAAATATATAT
*
4108417 ATATAAATAATAAATATAGTAT
1 ATAAAAATAATAAATATA-TAT
*
4108439 -TAAAAATAACCAAAT-TAATAT
1 ATAAAAATAA-TAAATAT-ATAT
* * *
4108460 AAAAAAATAAAAAAATATATGT
1 ATAAAAAT-AATAAATATATAT
*
4108482 ATATATAATAAT-AATATATAGT
1 ATA-AAAATAATAAATATATA-T
*
4108504 GTAAAAA
1 ATAAAAA
4108511 AATCAATTGA
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
19 16 0.18
20 2 0.02
21 29 0.33
22 29 0.33
23 13 0.15
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAAAAATAATAAATATATAT
Found at i:4109987 original size:106 final size:106
Alignment explanation
Indices: 4109803--4111183 Score: 2192
Period size: 106 Copynumber: 13.0 Consensus size: 106
4109793 GCATTGTTCC
* * * * **
4109803 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTGGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
4109868 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4109909 GAGTACAATATCCTTCGCTGTGAAGTTCAAATTGGCTCTGAAATTGGGAAATTTTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
4109974 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4110015 AAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTTTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
4110080 CTAGCGGTCCCTTCGTCGTGAAGTTG-ACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4110120 GAATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
4110185 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4110226 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
4110291 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4110332 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
4110397 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4110438 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
4110503 CCAACGGTCCCTTCGTTGTGAAGTTGAACTTGCCTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4110544 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
4110609 CCAGCAGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4110650 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
4110715 CCAGCGGTCCCTTCGTCGTGAAGTTGACCTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4110756 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
4110821 CCAGCGGTCCCTTCGTAC-TAAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGT-CGTGAAGTTGAACTTGCGTTGTCTG
* * *
4110862 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
4110927 CCAGCAGTCCCTTCATTGTAAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4110968 GAGTCCAATATCCTTCGCTATGAAGCTGGAATTGACTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
4111033 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4111074 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
4111139 CCAGCGGTCCCTTCGTTGTGAAGTTGAAATTGCGTTGTCGG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4111180 GAGT
1 GAGT
4111184 GGCACGATAT
Statistics
Matches: 1184, Mismatches: 87, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
105 100 0.08
106 1083 0.91
107 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4112054 original size:22 final size:21
Alignment explanation
Indices: 4112028--4112081 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
4112018 GTGTTTGGTC
4112028 AAAGGTTTGACATTTGATGCTA
1 AAAGGTTTGA-ATTTGATGCTA
*
4112050 AAAGGTTTGGAATTTGATGCTC
1 AAAGGTTT-GAATTTGATGCTA
4112072 AAAGGTTTGA
1 AAAGGTTTGA
4112082 TGGGGTAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (21 bp):
AAAGGTTTGAATTTGATGCTA
Found at i:4112737 original size:20 final size:20
Alignment explanation
Indices: 4112688--4112737 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4112678 TTTTTCCCTT
*
4112688 TTTCTTTTTGATATTTGTTC
1 TTTCTTTTTTATATTTGTTC
*
4112708 TTTCTTTTTTAT-TTTGTTT
1 TTTCTTTTTTATATTTGTTC
4112727 TCTTCTTTTTT
1 T-TTCTTTTTT
4112738 GCTTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (20 bp):
TTTCTTTTTTATATTTGTTC
Found at i:4113997 original size:15 final size:14
Alignment explanation
Indices: 4113971--4114000 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4113961 ATGTATATGT
4113971 AAAATGAAAAATGC
1 AAAATGAAAAATGC
4113985 AAAATGCAAAAATGC
1 AAAATG-AAAAATGC
4114000 A
1 A
4114001 TGAGATGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATGAAAAATGC
Found at i:4115749 original size:4 final size:4
Alignment explanation
Indices: 4115740--4115826 Score: 63
Period size: 4 Copynumber: 21.2 Consensus size: 4
4115730 TAGAGGGAAA
* * * * *
4115740 AAAT AAAT AAAT GAAA- AAAT GAAG AATAA AAAT AAGT AAAA AAAT AAA-
1 AAAT AAAT AAAT -AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
4115788 AGGAA- AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
4115827 TTAATATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
3 6 0.09
4 48 0.72
5 13 0.19
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:4115933 original size:29 final size:29
Alignment explanation
Indices: 4115901--4115968 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
4115891 TAGTAATATG
*
4115901 AAAATATAATATAATATAAATA-AAAAACC
1 AAAATATAAAATAA-ATAAATATAAAAACC
* *
4115930 AAAA-ACAAAAATAAATAAATATATAAACC
1 AAAATA-TAAAATAAATAAATATAAAAACC
4115959 -AAATATAAAA
1 AAAATATAAAA
4115969 GTATACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (29 bp):
AAAATATAAAATAAATAAATATAAAAACC
Found at i:4116741 original size:37 final size:37
Alignment explanation
Indices: 4116700--4116789 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
4116690 AGATCCTATC
* *
4116700 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCATAGCAGAACTCTATCATATT
* * *
4116737 TTTAGGAGTTTGAATCCTAGCAGAATTCTATCCTATT
1 TTTAGGAGTTTGAATCATAGCAGAACTCTATCATATT
4116774 TTTAGGAGTTTGAATC
1 TTTAGGAGTTTGAATC
4116790 GGACGAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCATAGCAGAACTCTATCATATT
Found at i:4121690 original size:22 final size:22
Alignment explanation
Indices: 4121662--4121710 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4121652 TGACTTTTTG
*
4121662 GTCAAAGTCAATACTGGTCGAA
1 GTCAAAGTCAATACTGGTCAAA
* *
4121684 GTCAAAGTCAATCCTGGTTAAA
1 GTCAAAGTCAATACTGGTCAAA
4121706 GTCAA
1 GTCAA
4121711 TGACCAGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (22 bp):
GTCAAAGTCAATACTGGTCAAA
Found at i:4123371 original size:10 final size:10
Alignment explanation
Indices: 4123356--4123398 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
4123346 ACAACATTTA
*
4123356 ATATATCTAT
1 ATATATCGAT
4123366 ATATATCGAT
1 ATATATCGAT
4123376 ATATA-CAGAT
1 ATATATC-GAT
4123386 ATATATCCGAT
1 ATATAT-CGAT
4123397 AT
1 AT
4123399 TATTGTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 1 0.03
10 22 0.76
11 5 0.17
12 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (10 bp):
ATATATCGAT
Found at i:4123709 original size:17 final size:17
Alignment explanation
Indices: 4123687--4123734 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4123677 AAAAATATAA
*
4123687 TAAATTCATTTTTATTT
1 TAAATTAATTTTTATTT
* *
4123704 TAAATTTTATTTTAATTT
1 TAAA-TTAATTTTTATTT
*
4123722 TAATTTAATTTTT
1 TAAATTAATTTTT
4123735 TATGAAATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TAAATTAATTTTTATTT
Found at i:4123722 original size:11 final size:11
Alignment explanation
Indices: 4123696--4123733 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
4123686 ATAAATTCAT
4123696 TTTTATTTTAAA
1 TTTTATTTT-AA
4123708 TTTTATTTTAA
1 TTTTATTTTAA
*
4123719 TTTTAATTTAA
1 TTTTATTTTAA
4123730 TTTT
1 TTTT
4123734 TTATGAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:4123734 original size:12 final size:12
Alignment explanation
Indices: 4123694--4123734 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4123684 TAATAAATTC
4123694 ATTTTTATTTTA
1 ATTTTTATTTTA
*
4123706 AATTTTATTTTA
1 ATTTTTATTTTA
*
4123718 A-TTTTAATTTA
1 ATTTTTATTTTA
4123729 ATTTTT
1 ATTTTT
4123735 TATGAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:4125552 original size:29 final size:28
Alignment explanation
Indices: 4125491--4125564 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 28
4125481 GGTCAAAGGT
4125491 GGTCAACGAC-AGTCAACAAAAAGTCAAC
1 GGTCAACGACGA-TCAACAAAAAGTCAAC
*
4125519 AGTCAACGACGATCAACAGAAAAGTCAAC
1 GGTCAACGACGATCAACA-AAAAGTCAAC
*
4125548 GGTCAACGACGGTCAAC
1 GGTCAACGACGATCAAC
4125565 GGTTAACGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 15 0.37
29 26 0.63
ACGTcount: A:0.43, C:0.26, G:0.20, T:0.11
Consensus pattern (28 bp):
GGTCAACGACGATCAACAAAAAGTCAAC
Found at i:4127553 original size:117 final size:117
Alignment explanation
Indices: 4127347--4127580 Score: 450
Period size: 117 Copynumber: 2.0 Consensus size: 117
4127337 GTGAGTCGAT
4127347 CTACAATCACCCAAACATAATCTGTTTTGCAAGGAGTCAGAGGAAGACCAGTAACGAAGTCCATC
1 CTACAATCACCCAAACATAATCTGTTTTGCAAGGAGTCAGAGGAAGACCAGTAACGAAGTCCATC
4127412 CTAATACGCTCCCATTTCCACTTAGGAATCTTAATTAACTGTAATAATCCAG
66 CTAATACGCTCCCATTTCCACTTAGGAATCTTAATTAACTGTAATAATCCAG
*
4127464 CTACAATCACCCAAACATAATCTGTTTTGGAAGGAGTCAGAGGAAGACCAGTAACGAAGTCCATC
1 CTACAATCACCCAAACATAATCTGTTTTGCAAGGAGTCAGAGGAAGACCAGTAACGAAGTCCATC
*
4127529 CTAATGCGCTCCCATTTCCACTTAGGAATCTTAATTAACTGTAATAATCCAG
66 CTAATACGCTCCCATTTCCACTTAGGAATCTTAATTAACTGTAATAATCCAG
4127581 ATGGATGCTA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (117 bp):
CTACAATCACCCAAACATAATCTGTTTTGCAAGGAGTCAGAGGAAGACCAGTAACGAAGTCCATC
CTAATACGCTCCCATTTCCACTTAGGAATCTTAATTAACTGTAATAATCCAG
Found at i:4132685 original size:29 final size:29
Alignment explanation
Indices: 4132653--4132711 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4132643 CCAGTCGACA
*
4132653 GAAAAGTCAAC-AGTCAATGGCGGTCAACG
1 GAAAAGTCAACGA-TCAACGGCGGTCAACG
* *
4132682 GAAACGTCAACGATCAACGGTGGTCAACG
1 GAAAAGTCAACGATCAACGGCGGTCAACG
4132711 G
1 G
4132712 TCAACGGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.36, C:0.22, G:0.29, T:0.14
Consensus pattern (29 bp):
GAAAAGTCAACGATCAACGGCGGTCAACG
Found at i:4132728 original size:13 final size:13
Alignment explanation
Indices: 4132710--4132734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4132700 GGTGGTCAAC
4132710 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4132723 GGTCAACGGGTC
1 GGTCAACGGGTC
4132735 AGACTGGTCA
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:0.16, C:0.24, G:0.44, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:4136598 original size:28 final size:28
Alignment explanation
Indices: 4136560--4136615 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4136550 AATGCCGGTT
* * *
4136560 TATTAAAAATTCAGTTTTTAAAATTTTA
1 TATTAAAAATTAAATTTATAAAATTTTA
*
4136588 TATTAATAATTAAATTTATAAAATTTTA
1 TATTAAAAATTAAATTTATAAAATTTTA
4136616 AAAGATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TATTAAAAATTAAATTTATAAAATTTTA
Found at i:4156341 original size:15 final size:15
Alignment explanation
Indices: 4156321--4156350 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4156311 CTTTCTCATA
4156321 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
4156336 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
4156351 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:4161216 original size:28 final size:28
Alignment explanation
Indices: 4161176--4161231 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4161166 AGGGAGAAGT
4161176 GTCAAATGAACTCCAACTTCATTCTCGC
1 GTCAAATGAACTCCAACTTCATTCTCGC
4161204 GTCAAATGAACTCCAACTTCATTCTCGC
1 GTCAAATGAACTCCAACTTCATTCTCGC
4161232 TTCTAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (28 bp):
GTCAAATGAACTCCAACTTCATTCTCGC
Found at i:4162679 original size:28 final size:28
Alignment explanation
Indices: 4162648--4162711 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
4162638 GTAAAATTTA
** **
4162648 AATAAAGGTAAAACTTGTCATAAATTAC
1 AATAAAGACAAAACTTCACATAAATTAC
4162676 AATAAAAAGACAAAACTTCACATAAATTAC
1 AAT--AAAGACAAAACTTCACATAAATTAC
4162706 AATAAA
1 AATAAA
4162712 TCCCCATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.20
30 24 0.80
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (28 bp):
AATAAAGACAAAACTTCACATAAATTAC
Found at i:4162739 original size:28 final size:28
Alignment explanation
Indices: 4162699--4162767 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
4162689 AACTTCACAT
4162699 AAATTACAATAAATCCCCATATTTTTAC
1 AAATTACAATAAATCCCCATATTTTTAC
*
4162727 AAATCACAATAAATCCCCATATTTTTAC
1 AAATTACAATAAATCCCCATATTTTTAC
*
4162755 AGATTACAATAAA
1 AAATTACAATAAA
4162768 ACGAACTCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (28 bp):
AAATTACAATAAATCCCCATATTTTTAC
Found at i:4163850 original size:20 final size:20
Alignment explanation
Indices: 4163825--4163862 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4163815 ATTCAGTGTA
4163825 AAAAAATTCA-TTATATACTC
1 AAAAAATT-ATTTATATACTC
4163845 AAAAAATTATTTATATAC
1 AAAAAATTATTTATATAC
4163863 GAACTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTTATATACTC
Done.