Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 46 of 208
Found at i:17778103 original size:6 final size:6
Alignment explanation
Indices: 17778092--17778134 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
17778082 TAAAGCAGAG
* * *
17778092 CTGGCA CTGGCA CTGGCA CTGGCA CCGGCA CCGGCA CCGGCA C
1 CTGGCA CTGGCA CTGGCA CTGGCA CTGGCA CTGGCA CTGGCA C
17778135 CAGCAAAGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.16, C:0.42, G:0.33, T:0.09
Consensus pattern (6 bp):
CTGGCA
Found at i:17788331 original size:17 final size:18
Alignment explanation
Indices: 17788290--17788333 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
17788280 TTTATCAAAT
* *
17788290 AAATTATTAAAAATTTAT
1 AAATAATTAAAAATTTAA
17788308 AAA-AATTAAAAA-TTAA
1 AAATAATTAAAAATTTAA
17788324 AAATAATTAA
1 AAATAATTAA
17788334 GTTGATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 14 0.61
18 3 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAAATTTAA
Found at i:17789401 original size:32 final size:33
Alignment explanation
Indices: 17789363--17789447 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
17789353 TAATCAGTAT
17789363 GAGTTATCAAATTAAAATAATT-AATTTATCAC
1 GAGTTATCAAATTAAAATAATTAAATTTATCAC
* * **
17789395 GAGTTATTAAATTATAATGCTTCAAATTTATCAC
1 GAGTTATCAAATTAAAATAATT-AAATTTATCAC
* *
17789429 GAGTAATCAATTTATAAAT
1 GAGTTATCAAATTA-AAAT
17789448 TTATAATGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 18 0.43
34 21 0.50
35 3 0.07
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (33 bp):
GAGTTATCAAATTAAAATAATTAAATTTATCAC
Found at i:17792387 original size:12 final size:12
Alignment explanation
Indices: 17792370--17792396 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17792360 TGATTCTTTC
17792370 TTCCATATTGTT
1 TTCCATATTGTT
17792382 TTCCATATTGTT
1 TTCCATATTGTT
17792394 TTC
1 TTC
17792397 TAGAGGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (12 bp):
TTCCATATTGTT
Found at i:17793571 original size:16 final size:14
Alignment explanation
Indices: 17793548--17793598 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
17793538 CGAAAGGAAA
17793548 GAAAATTGGAAGGAT
1 GAAAATT-GAAGGAT
17793563 GAAAGATTGAAGGAT
1 GAAA-ATTGAAGGAT
*
17793578 AGAAAACTAGAAGGAT
1 -GAAAA-TTGAAGGAT
17793594 GAAAA
1 GAAAA
17793599 ACATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.53, C:0.02, G:0.29, T:0.16
Consensus pattern (14 bp):
GAAAATTGAAGGAT
Found at i:17801272 original size:19 final size:20
Alignment explanation
Indices: 17801233--17801274 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17801223 TTTTTAAATA
*
17801233 AAAAAATAAAAACCAGTTTT
1 AAAAAATAAAAACCAGATTT
*
17801253 AAAAAATAAAAGCCA-ATTT
1 AAAAAATAAAAACCAGATTT
17801272 AAA
1 AAA
17801275 TAGTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAATAAAAACCAGATTT
Found at i:17811474 original size:14 final size:16
Alignment explanation
Indices: 17811439--17811473 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17811429 TAAACTGAAA
*
17811439 AAAAATATAAGTGTTG
1 AAAAATATAAGTATTG
17811455 AAAAATA-AAGTATTG
1 AAAAATATAAGTATTG
17811470 AAAA
1 AAAA
17811474 TTTAACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (16 bp):
AAAAATATAAGTATTG
Found at i:17820507 original size:21 final size:20
Alignment explanation
Indices: 17820482--17820532 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
17820472 CCAAAACCTC
17820482 AAACCCCAAAATCATAATCCA
1 AAACCCCAAAATC-TAATCCA
* *
17820503 AAACCCTAAAATCTAATCTA
1 AAACCCCAAAATCTAATCCA
17820523 AAA-CCCAAAA
1 AAACCCCAAAA
17820533 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 12 0.44
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCCAAAATCTAATCCA
Found at i:17820519 original size:20 final size:20
Alignment explanation
Indices: 17820481--17820532 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
17820471 TCCAAAACCT
*
17820481 CAAACCCCAAAATCATAATC
1 CAAAACCCAAAATCATAATC
17820501 CAAAACCCTAAAATC-TAATC
1 CAAAACCC-AAAATCATAATC
*
17820521 TAAAACCCAAAA
1 CAAAACCCAAAA
17820533 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 19 0.66
21 6 0.21
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAAACCCAAAATCATAATC
Found at i:17825286 original size:32 final size:32
Alignment explanation
Indices: 17825249--17825311 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
17825239 AGTCAGGATG
17825249 GATTTGGATGGATGATTGGATGCGGTGCGATT
1 GATTTGGATGGATGATTGGATGCGGTGCGATT
17825281 GATTTGGATGGATGATTGGATGCGGTGCGAT
1 GATTTGGATGGATGATTGGATGCGGTGCGAT
17825312 ATATTTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.06, G:0.41, T:0.33
Consensus pattern (32 bp):
GATTTGGATGGATGATTGGATGCGGTGCGATT
Found at i:17838330 original size:74 final size:74
Alignment explanation
Indices: 17838246--17838393 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 74
17838236 TTATTTTAAC
* * * **
17838246 ATTGTTGTTCAAAAGTATCGTTGAGATAAAAAGTGCTTTTGGAACTATGATATTAAATGGGTAAT
1 ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
17838311 TTTTAAAGT
66 TTTTAAAGT
* * * *
17838320 ATTGTGGTTCAAAAGTATTGTTGATATAAAAAGCGCTTTTGGAACTATAATGTTAAATGAATCAT
1 ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
17838385 TTTTAAAGT
66 TTTTAAAGT
17838394 TAGAAGTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (74 bp):
ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
TTTTAAAGT
Found at i:17847579 original size:23 final size:23
Alignment explanation
Indices: 17847553--17847596 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17847543 CAAATATGTC
*
17847553 TTAATTTAGTAAATTAATCTTGA
1 TTAATTAAGTAAATTAATCTTGA
*
17847576 TTAATTAAGTTAATTAATCTT
1 TTAATTAAGTAAATTAATCTT
17847597 AGTATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (23 bp):
TTAATTAAGTAAATTAATCTTGA
Found at i:17849751 original size:43 final size:42
Alignment explanation
Indices: 17849673--17849802 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 42
17849663 CATAGGATTT
* *
17849673 TCGATATGTGTTATCGTGTAATA-CCACGTCGGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCCA-GTCTGGGACGTTGGCA
17849716 TCGACT-TGTGTTTACGTGTAAGACCCAGTCTGGGACAG-TGGCA
1 TCGA-TATGTG-TTACGTGTAAGACCCAGTCTGGGAC-GTTGGCA
* * *
17849759 TCGATATGTGATTGCATGTAAGACCACA-TCTGAGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACC-CAGTCTGGGACGTTGGCA
17849802 T
1 T
17849803 TGTACGAGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 62 0.84
44 10 0.14
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCCAGTCTGGGACGTTGGCA
Found at i:17851700 original size:62 final size:61
Alignment explanation
Indices: 17851626--17851744 Score: 177
Period size: 61 Copynumber: 1.9 Consensus size: 61
17851616 ACTATTTTAA
* *
17851626 TAAATTTAATTTAATATTTATCTTGATTAGTATTTTA-TAATTTTAATATTAATATGAGATAT
1 TAAATTTAATTTAATATTTATCTT-AATAGTATTTTATTAA-TTTAAAATTAATATGAGATAT
* *
17851688 TAAATTTGATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATGTGAG
1 TAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATATGAG
17851745 TAATTTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 26 0.50
62 26 0.50
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (61 bp):
TAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATATGAGATAT
Found at i:17855062 original size:6 final size:6
Alignment explanation
Indices: 17855051--17855075 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17855041 CCTAACTGTT
17855051 CAAAGA CAAAGA CAAAGA CAAAGA C
1 CAAAGA CAAAGA CAAAGA CAAAGA C
17855076 GGGAGCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.20, G:0.16, T:0.00
Consensus pattern (6 bp):
CAAAGA
Found at i:17856077 original size:188 final size:188
Alignment explanation
Indices: 17855760--17856141 Score: 764
Period size: 188 Copynumber: 2.0 Consensus size: 188
17855750 GGGTGAGTTT
17855760 GTATAGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGCGGTGAGATTAGATACTGT
1 GTATAGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGCGGTGAGATTAGATACTGT
17855825 ATCGATACTGTAGCGTAAGACAAAAAGTAAGCTAAACGCACCGTACCGCACTCAATCGCCCATCC
66 ATCGATACTGTAGCGTAAGACAAAAAGTAAGCTAAACGCACCGTACCGCACTCAATCGCCCATCC
17855890 AAACCCACCCTAAGTTATAAAGCCTAGACGGACCAAGCGTAAAATAATCATTTTTATA
131 AAACCCACCCTAAGTTATAAAGCCTAGACGGACCAAGCGTAAAATAATCATTTTTATA
17855948 GTATAGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGCGGTGAGATTAGATACTGT
1 GTATAGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGCGGTGAGATTAGATACTGT
17856013 ATCGATACTGTAGCGTAAGACAAAAAGTAAGCTAAACGCACCGTACCGCACTCAATCGCCCATCC
66 ATCGATACTGTAGCGTAAGACAAAAAGTAAGCTAAACGCACCGTACCGCACTCAATCGCCCATCC
17856078 AAACCCACCCTAAGTTATAAAGCCTAGACGGACCAAGCGTAAAATAATCATTTTTATA
131 AAACCCACCCTAAGTTATAAAGCCTAGACGGACCAAGCGTAAAATAATCATTTTTATA
17856136 GTATAG
1 GTATAG
17856142 AATTGGTATT
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 194 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (188 bp):
GTATAGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGCGGTGAGATTAGATACTGT
ATCGATACTGTAGCGTAAGACAAAAAGTAAGCTAAACGCACCGTACCGCACTCAATCGCCCATCC
AAACCCACCCTAAGTTATAAAGCCTAGACGGACCAAGCGTAAAATAATCATTTTTATA
Found at i:17861965 original size:21 final size:21
Alignment explanation
Indices: 17861941--17861985 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
17861931 GATCCAAGCT
*
17861941 CCAGATCTGCTTCCATTGATC
1 CCAGACCTGCTTCCATTGATC
17861962 CCAGACCTGCTTCCATTGATC
1 CCAGACCTGCTTCCATTGATC
17861983 CCA
1 CCA
17861986 ACTATAGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.38, G:0.13, T:0.29
Consensus pattern (21 bp):
CCAGACCTGCTTCCATTGATC
Found at i:17862017 original size:66 final size:66
Alignment explanation
Indices: 17861898--17862030 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
17861888 TCCAAGCTCT
* * * *
17861898 AGACCTGCTTCCATCGATCCTAATTATAGAGCAGATCCAAGCTCCAGATCTGCTTCCATTGATCC
1 AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
17861963 C
66 C
* * ** *
17861964 AGACCTGCTTCCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAGCTGCTCCCATTGATCC
1 AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
17862029 C
66 C
17862030 A
1 A
17862031 ATTATAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (66 bp):
AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
C
Found at i:17862023 original size:45 final size:45
Alignment explanation
Indices: 17861968--17862130 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
17861958 GATCCCAGAC
* * *
17861968 CTGCTTCCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAG
1 CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
*
17862013 CTGCTCCCATTGATCCCAATTATAGAGTGGATCCGAGCTCTAGAG
1 CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
* * * * *
17862058 -TGGCTTCCATTGACCCCAATTATAGAGCGGATCCAAGCGCTAGAA
1 CT-GCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
*
17862103 CTGCTCCGATTGATCCCAATTATAGAGC
1 CTGCTCCCATTGATCCCAATTATAGAGC
17862131 TGCTCCAGAG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 101 0.98
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
Found at i:17887336 original size:14 final size:14
Alignment explanation
Indices: 17887317--17887355 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
17887307 TGGGTGGCAC
*
17887317 TTGAAGAAAATTTT
1 TTGAAGAAAAATTT
17887331 TTGAAGAAAAATTT
1 TTGAAGAAAAATTT
17887345 TTGAAGAAAAA
1 TTGAAGAAAAA
17887356 CAGTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
TTGAAGAAAAATTT
Found at i:17889229 original size:21 final size:21
Alignment explanation
Indices: 17889195--17889235 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17889185 AGACGAGCAA
* * *
17889195 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
17889216 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
17889236 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:17907147 original size:6 final size:6
Alignment explanation
Indices: 17907136--17907175 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17907126 AGATAATTTA
17907136 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
17907176 ACATGCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:17923234 original size:6 final size:6
Alignment explanation
Indices: 17923223--17923247 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17923213 AGAACTATGG
17923223 TGGTTC TGGTTC TGGTTC TGGTTC T
1 TGGTTC TGGTTC TGGTTC TGGTTC T
17923248 TGTAGTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.32, T:0.52
Consensus pattern (6 bp):
TGGTTC
Found at i:17930372 original size:46 final size:46
Alignment explanation
Indices: 17930302--17930440 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
17930292 ACAATGCTAT
*
17930302 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
* * *
17930348 AACTCAGTATGGTTTT-TGTTACTGAAATATCATACCTAGGTTTCAC
1 AACTCAGTATGGTTTTCT-TCACTGAAATACCATACCTACGTTTCAC
* *
17930394 AACTCAGTATGGTTTTCTTCACTGAAATACCATAACTACGTTCCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
17930440 A
1 A
17930441 CTTTGTCATG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 80 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
Found at i:17934320 original size:46 final size:46
Alignment explanation
Indices: 17934302--17934458 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
17934292 TGACAAGTGG
* * *
17934302 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
17934348 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
17934394 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
17934446 AAAGTGATAAGTG
1 AAAGTGATAAGTG
17934459 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:17934321 original size:52 final size:51
Alignment explanation
Indices: 17934250--17934458 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
17934240 ATCAAGTGAC
* **
17934250 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
17934302 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
17934348 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
17934399 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
17934452 ATAAGTG
1 A-AAGTG
17934459 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:17934355 original size:98 final size:98
Alignment explanation
Indices: 17934236--17934459 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
17934226 TTTGAGTACT
*
17934236 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
17934301 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17934334 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
17934399 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
17934432 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
17934460 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:17934468 original size:37 final size:37
Alignment explanation
Indices: 17934421--17934567 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
17934411 TGATAGCTTC
* *
17934421 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
17934458 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
17934495 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
* **
17934532 GGCTACACTTATTTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
17934567 G
1 G
17934568 ATCATACGTA
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:17935900 original size:58 final size:57
Alignment explanation
Indices: 17935821--17936023 Score: 231
Period size: 49 Copynumber: 3.8 Consensus size: 57
17935811 CATGTGAACA
17935821 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
17935880 TGTGATATGTGATTCTGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* *
17935936 TGTG--A--T--TTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGAT-T-
1 TGTGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* *
17935985 TGTG--AT-T-A--CGTGTAAGACCATAGTTGGACTATGGCATCG
1 TGTGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCG
17936024 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 3, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
49 72 0.53
50 4 0.03
52 1 0.01
54 1 0.01
56 4 0.03
57 1 0.01
58 49 0.36
59 5 0.04
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (57 bp):
TGTGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:17939231 original size:46 final size:46
Alignment explanation
Indices: 17939213--17939369 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
17939203 TGACAAGTGG
* * *
17939213 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
17939259 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
17939305 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
17939357 AAAGTGATAAGTG
1 AAAGTGATAAGTG
17939370 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:17939232 original size:52 final size:51
Alignment explanation
Indices: 17939161--17939369 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
17939151 ATCAAGTGAC
* **
17939161 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
17939213 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
17939259 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
17939310 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
17939363 ATAAGTG
1 A-AAGTG
17939370 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:17939266 original size:98 final size:98
Alignment explanation
Indices: 17939147--17939370 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
17939137 TTTGAGTACT
*
17939147 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
17939212 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17939245 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
17939310 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
17939343 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
17939371 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:17939379 original size:37 final size:37
Alignment explanation
Indices: 17939332--17939478 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
17939322 TGATAGCTTC
* *
17939332 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
17939369 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
17939406 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
* **
17939443 GGCTACACTTATTTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
17939478 G
1 G
17939479 ATCATACGTA
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:17943749 original size:46 final size:45
Alignment explanation
Indices: 17943679--17943817 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 45
17943669 ACAATGCTAT
* * * * *
17943679 AACTCAGTATGGTTTCCTTCACTGAAATACCATATCTACTTTTCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATA-CTACGTTCCAC
17943725 AACTCAGTATAGTTTT-TGTTACTGAAATACCATACATACGTTCCAC
1 AACTCAGTATAGTTTTCT-TTACTGAAATACCATAC-TACGTTCCAC
* * *
17943771 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTACATTCCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATA-CTACGTTCCAC
17943817 A
1 A
17943818 CTTTTCCATG
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.02
46 77 0.95
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATAGTTTTCTTTACTGAAATACCATACTACGTTCCAC
Found at i:17953787 original size:3 final size:3
Alignment explanation
Indices: 17953779--17953820 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17953769 TCCTTCCATC
17953779 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17953821 AAGTTTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17961553 original size:7 final size:7
Alignment explanation
Indices: 17961535--17961571 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
17961525 CACAAAATGA
17961535 CAAAGA-
1 CAAAGAT
17961541 CAAAGAT
1 CAAAGAT
17961548 CAAAGAT
1 CAAAGAT
17961555 CAAAGAT
1 CAAAGAT
17961562 CAAAGAT
1 CAAAGAT
17961569 CAA
1 CAA
17961572 TTAATGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (7 bp):
CAAAGAT
Found at i:17964456 original size:18 final size:18
Alignment explanation
Indices: 17964433--17964477 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
17964423 TACATGCAAT
*
17964433 ATCTATACATCATTTATC
1 ATCTATAAATCATTTATC
* *
17964451 ATCTATAAATTATTTATA
1 ATCTATAAATCATTTATC
*
17964469 ATATATAAA
1 ATCTATAAA
17964478 AAACGAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
ATCTATAAATCATTTATC
Found at i:17968384 original size:105 final size:105
Alignment explanation
Indices: 17968191--17968385 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 105
17968181 AATGTTTAAA
* * **
17968191 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAAAAAACCATAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCTCAA
**
17968256 ACGTAAGACCATGGTTGGACCATGGTAGTATAGATACATG
66 ACGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
* * * *
17968296 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGATAAGACTATAATTGGGTTATGACA-CTACA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCT-CA
* * *
17968360 AATGTACGACCATGGCAGGGCCATGG
65 AACGTAAGACCATGGCAGGACCATGG
17968386 CAATACATGT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.03
105 74 0.97
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCTCAA
ACGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
Found at i:17969741 original size:14 final size:14
Alignment explanation
Indices: 17969722--17969754 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17969712 TACAGTATCC
17969722 AAATAATAACAATA
1 AAATAATAACAATA
17969736 AAATAATAACAATA
1 AAATAATAACAATA
*
17969750 TAATA
1 AAATA
17969755 GCTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:17983282 original size:6 final size:6
Alignment explanation
Indices: 17983273--17983316 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
17983263 TAATCATAAT
17983273 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
17983317 CAAGGGCTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:17996689 original size:31 final size:32
Alignment explanation
Indices: 17996653--17996712 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
17996643 CAACCAACTA
* *
17996653 AATTAATTTTATTTT-TTAATTAAATAAATTT
1 AATTAATTTAATTTTCTAAATTAAATAAATTT
*
17996684 AATTAATTTAATTTTCTAAATTAATTAAA
1 AATTAATTTAATTTTCTAAATTAAATAAA
17996713 GGAAAATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
AATTAATTTAATTTTCTAAATTAAATAAATTT
Found at i:18007547 original size:28 final size:30
Alignment explanation
Indices: 18007516--18007578 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
18007506 TCATCAATGA
*
18007516 AATATATTAAAATGAT-TTTATATTA-AAT
1 AATATATTAAAATGATAGTTATATTAGAAT
* *
18007544 AATA-ATTAAAATTATAGTTATGTTAGAAT
1 AATATATTAAAATGATAGTTATATTAGAAT
18007573 AATATA
1 AATATA
18007579 ATAATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 10 0.34
28 11 0.38
29 7 0.24
30 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (30 bp):
AATATATTAAAATGATAGTTATATTAGAAT
Found at i:18008563 original size:17 final size:18
Alignment explanation
Indices: 18008537--18008581 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
18008527 CCATTTTTAG
18008537 TATGTAATTTTT-TATAT
1 TATGTAATTTTTATATAT
* *
18008554 TATGTTATTTTTATATGT
1 TATGTAATTTTTATATAT
*
18008572 TATGTGATTT
1 TATGTAATTT
18008582 ATAACCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (18 bp):
TATGTAATTTTTATATAT
Found at i:18020163 original size:44 final size:44
Alignment explanation
Indices: 18020100--18020189 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
18020090 TCAAATGATG
18020100 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
1 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
18020144 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
1 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
18020188 AA
1 AA
18020190 CTCAATTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (44 bp):
AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
Found at i:18031645 original size:42 final size:42
Alignment explanation
Indices: 18031564--18031651 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
18031554 GCGACAGCCT
* *
18031564 TGATGACGATCAACTCCAAGGCAGCGACAGCCGTAATGACGA
1 TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
* * * *
18031606 TGATGACGATCTACTCCAAAGCAGCGACAGGCATGATGACGG
1 TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
18031648 TGAT
1 TGAT
18031652 CATGATTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (42 bp):
TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
Found at i:18034165 original size:26 final size:27
Alignment explanation
Indices: 18034133--18034211 Score: 101
Period size: 26 Copynumber: 3.0 Consensus size: 27
18034123 TAATTAATTC
*
18034133 ATCTCTTTTATCCTTATGATGTATTGT
1 ATCTCTTTTTTCCTTATGATGTATTGT
* *
18034160 CT-TCTTTTTTCTCTTATTAT-TATT-T
1 ATCTCTTTTTTC-CTTATGATGTATTGT
18034185 ATCTCTTTTTTCCTTATGATGTATTGT
1 ATCTCTTTTTTCCTTATGATGTATTGT
18034212 GTACTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 9 0.21
26 25 0.58
27 9 0.21
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (27 bp):
ATCTCTTTTTTCCTTATGATGTATTGT
Found at i:18034218 original size:26 final size:26
Alignment explanation
Indices: 18034136--18034221 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
18034126 TTAATTCATC
* *
18034136 TCTTTTATCCTTATGATGTATTGTCT
1 TCTTTTTTCCTTATGATGTATTGTAT
*
18034162 TCTTTTTTCTCTTATTAT-TATT-TAT
1 TCTTTTTTC-CTTATGATGTATTGTAT
*
18034187 CTCTTTTTTCCTTATGATGTATTGTGT
1 -TCTTTTTTCCTTATGATGTATTGTAT
*
18034214 ACTTTTTT
1 TCTTTTTT
18034222 TCTTGTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 9 0.18
26 32 0.64
27 9 0.18
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (26 bp):
TCTTTTTTCCTTATGATGTATTGTAT
Found at i:18049411 original size:28 final size:29
Alignment explanation
Indices: 18049380--18049435 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
18049370 TATTATTATT
*
18049380 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
18049408 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
18049436 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:18050205 original size:3 final size:3
Alignment explanation
Indices: 18050197--18050241 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
18050187 GTGAGGTAAG
18050197 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18050242 GAGTGGGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18050425 original size:24 final size:27
Alignment explanation
Indices: 18050393--18050451 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18050383 CGGATTAATT
18050393 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
18050416 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
18050443 ATTGAATTG
1 ATTGAATTG
18050452 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:18060797 original size:24 final size:24
Alignment explanation
Indices: 18060770--18060821 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18060760 TTAGTAAGTC
*
18060770 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18060794 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18060818 AAAT
1 AAAT
18060822 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18062765 original size:24 final size:24
Alignment explanation
Indices: 18062738--18062789 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18062728 TTAGTAAGTC
*
18062738 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18062762 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18062786 AAAT
1 AAAT
18062790 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18065081 original size:13 final size:13
Alignment explanation
Indices: 18065063--18065088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18065053 TTAAACTTCT
18065063 ACAAAATCGTGTA
1 ACAAAATCGTGTA
18065076 ACAAAATCGTGTA
1 ACAAAATCGTGTA
18065089 GATTATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ACAAAATCGTGTA
Found at i:18068694 original size:27 final size:28
Alignment explanation
Indices: 18068614--18068695 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
18068604 AAAAATACAT
*
18068614 ATAAAAAATATTTATAAAA-ATTAAAAATC
1 ATAAAAAA-ATTTA-AAAATTTTAAAAATC
* * *
18068643 ATTAAAGATATTTAAAAATTATAAAAA-C
1 A-TAAAAAAATTTAAAAATTTTAAAAATC
18068671 ATAAAAAAATTTAAAAATTTTAAAA
1 ATAAAAAAATTTAAAAATTTTAAAA
18068696 GTTAGTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 21 0.48
28 6 0.14
29 12 0.27
30 5 0.11
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (28 bp):
ATAAAAAAATTTAAAAATTTTAAAAATC
Found at i:18072354 original size:9 final size:9
Alignment explanation
Indices: 18072303--18072476 Score: 79
Period size: 9 Copynumber: 18.9 Consensus size: 9
18072293 ATTTTCTCAT
*
18072303 TAAAAATCA
1 TAAAAATTA
18072312 TAAAAATTTA
1 TAAAAA-TTA
**
18072322 TATAAACCTA
1 TA-AAAATTA
**
18072332 TAAAACCTA
1 TAAAAATTA
18072341 T-AAAATTA
1 TAAAAATTA
18072349 TAAAAACTTA
1 TAAAAA-TTA
18072359 TAATAAATTA
1 TAA-AAATTA
*
18072369 TACAAA-TA
1 TAAAAATTA
*
18072377 GTAAAAAATA
1 -TAAAAATTA
18072387 -AAACATATTA
1 TAAA-A-ATTA
*
18072397 TAAATATT-
1 TAAAAATTA
**
18072405 TATCAATTA
1 TAAAAATTA
*
18072414 TAAATATTA
1 TAAAAATTA
* *
18072423 TAAAAAATC
1 TAAAAATTA
*
18072432 TAAAAA-TC
1 TAAAAATTA
*
18072440 TAATAATTA
1 TAAAAATTA
*
18072449 TCAATAATTA
1 T-AAAAATTA
*
18072459 TAAAACTTA
1 TAAAAATTA
18072468 TTAAAAATT
1 -TAAAAATT
18072477 CGAAACAAGT
Statistics
Matches: 128, Mismatches: 23, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
8 23 0.18
9 56 0.44
10 40 0.31
11 9 0.07
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:18076229 original size:7 final size:7
Alignment explanation
Indices: 18076219--18076247 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18076209 AAAGAAGAGG
18076219 GAGGAGT
1 GAGGAGT
18076226 GAGGAGT
1 GAGGAGT
18076233 GAGGAGT
1 GAGGAGT
18076240 GAGGAGT
1 GAGGAGT
18076247 G
1 G
18076248 TAATAGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.59, T:0.14
Consensus pattern (7 bp):
GAGGAGT
Found at i:18078377 original size:27 final size:27
Alignment explanation
Indices: 18078339--18078403 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
18078329 CAGATGCCAC
* **
18078339 AGGCTGCACCAAAGGTGCCTGTGGCAG
1 AGGCGGCACCAAAGGTGCCTGTCCCAG
* *
18078366 AGGCGGCACCAAATGTGCCTTTCCCAG
1 AGGCGGCACCAAAGGTGCCTGTCCCAG
18078393 AGGCGGCACCA
1 AGGCGGCACCA
18078404 CTCGTGTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.32, T:0.14
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTGTCCCAG
Found at i:18078497 original size:10 final size:10
Alignment explanation
Indices: 18078482--18078519 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
18078472 AGGTGCTGCC
18078482 AGAAAAAGAG
1 AGAAAAAGAG
18078492 AGAAAAAGAG
1 AGAAAAAGAG
*
18078502 AGAAAGAGAAG
1 AGAAAAAG-AG
18078513 AGAAAAA
1 AGAAAAA
18078520 AAAAGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAG
Found at i:18080920 original size:157 final size:154
Alignment explanation
Indices: 18080752--18081528 Score: 869
Period size: 157 Copynumber: 4.9 Consensus size: 154
18080742 AAAAATTAGT
* * *
18080752 AAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTCCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
18080817 TATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATT
66 TAT-ATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATT
18080882 TAGTGTGTTTTTAAATAAATTTGAAAA
130 TAGTGTGTTTTTAAATAAATTT--AAA
* * *
18080909 AAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
* * * *
18080974 TATATTATTTT-TGTATTTTATTATTTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTAT
66 TATA-TATTTTCT-AATTTTATTATTTTACATTATTTCAGTACATTATGTTTG-AA-A-TT-TAT
* * **
18081038 TAA-TTATTTCTGAATTTTTAAA-AAATTTAGT
125 TAATTTA-GTGTG--TTTTTAAATAAATTTAAA
* * *
18081069 AAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT--A-AAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTC-CCGA-ATTTTATTACTTTCAATAAA
* *
18081130 AATATTATATTTTCTAATTTTATTATTTTACATTATTTCGGTATATTATGTTTGAAATTTATTAA
64 AATA-TATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAA
18081195 TTTAGTGTGTTTTTAAATAAATTTAAAA
128 TTTAGTGTGTTTTTAAATAAATTT-AAA
* * * * *
18081223 AAAAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTTCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
* *
18081288 TATATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTAT
66 TATA-TATTTTC-TAATTTTATTATTTTACATTATTTCAGTACATTATGTTTG-AA-A-TT-TAT
** * * * **
18081352 TAATTATTTTTTAATTTTTAAA-AAAATTAGT
125 TAATT-TAGTGT-GTTTTTAAATAAATTTAAA
* * *
18081383 AAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT--A-AAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTC-CCGA-ATTTTATTACTTTCAATAAA
* *
18081444 AATATTATATTTTCTAATTTTATTATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAA
64 AATA-TATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAA
18081509 TTTAGTGTGTTTTTTAAATA
128 TTTAGTGTG-TTTTTAAATA
18081529 TACCATTTTT
Statistics
Matches: 525, Mismatches: 61, Indels: 71
0.80 0.09 0.11
Matches are distributed among these distances:
152 8 0.02
153 32 0.06
154 53 0.10
155 10 0.02
156 52 0.10
157 111 0.21
158 98 0.19
159 10 0.02
160 82 0.16
161 47 0.09
162 14 0.03
163 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (154 bp):
AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
TATATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTT
AGTGTGTTTTTAAATAAATTTAAA
Found at i:18081384 original size:314 final size:315
Alignment explanation
Indices: 18080740--18081528 Score: 1341
Period size: 314 Copynumber: 2.5 Consensus size: 315
18080730 GCAATTTCAA
* * * * * *
18080740 AAAAAAATTAGTAAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTC-CCGA-ATTTTATT
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATT
*
18080803 ACTTTCAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTT
65 ACTTT--A-AAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTT
18080868 GAAATTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTT
127 GAAATTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTT
*
18080933 GCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTAT
192 GCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTAT
18080998 TTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
257 TTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
* *
18081057 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
* *
18081122 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCGGTATATTATGTTTGAAA
66 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
*
18081187 TTTATTAATTTAGTGTGTTTTTAAATAAATTT-AAAAAAAAAACTCTTATTCCTGCCCTTTGCTC
131 TTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTTGCTC
*
18081251 GTATTATTTTTCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
196 GTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
* * *
18081316 TATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTTTTAATTTTT
261 TATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
18081371 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
* *
18081436 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTTAGTGCATTATGTTTGAAA
66 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
18081501 TTTATTAATTTAGTGTGTTTTTTAAATA
131 TTTATTAATTTAGTGTG-TTTTTAAATA
18081529 TACCATTTTT
Statistics
Matches: 447, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
314 287 0.64
315 99 0.22
316 1 0.00
317 45 0.10
318 15 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (315 bp):
AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
TTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTTGCTC
GTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
TATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:18081816 original size:10 final size:10
Alignment explanation
Indices: 18081803--18081877 Score: 66
Period size: 10 Copynumber: 7.5 Consensus size: 10
18081793 TTTTCTTCTC
18081803 CTTTCCTTTT
1 CTTTCCTTTT
18081813 CTTTCCTTCTT
1 CTTTCCTT-TT
*
18081824 -TTTCTTTCTTT
1 CTTTC-CT-TTT
* *
18081835 CTTTCCTCTC
1 CTTTCCTTTT
18081845 CTTTCCTTTT
1 CTTTCCTTTT
*
18081855 CTTTCTTTTT
1 CTTTCCTTTT
18081865 CTTT-C-TTT
1 CTTTCCTTTT
18081873 CTTTC
1 CTTTC
18081878 TTCTCCTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
8 7 0.13
10 34 0.65
11 6 0.12
12 5 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:18081824 original size:38 final size:38
Alignment explanation
Indices: 18081778--18081888 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 38
18081768 TTCCCTCTTC
18081778 TTCTTCTTTTGTT-TTT-TTTCTTCTCCTTTCCTTTTCT
1 TTCTTCTTTT-TTCTTTCTTTCTTCTCCTTTCCTTTTCT
*
18081815 TTCCTTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCT
1 TT-CTTC--TTT-TTTCTTTCTTTCTTCTCCTTTCCTTTTCT
18081857 TTCTT-TTTCTTTCTTTCTTTCTTCTCCTTTCC
1 TTCTTCTTT-TTTCTTTCTTTCTTCTCCTTTCC
18081889 CTCTCATTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
37 2 0.03
38 30 0.45
40 5 0.08
41 7 0.11
42 22 0.33
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (38 bp):
TTCTTCTTTTTTCTTTCTTTCTTCTCCTTTCCTTTTCT
Found at i:18081831 original size:4 final size:4
Alignment explanation
Indices: 18081810--18081879 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
18081800 CTCCTTTCCT
* *
18081810 TTTC TTTC CTTC -TT- TTTC TTTC TTTC TTTCC TCTCC TTTCC TTTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTT-C -TTTC
18081856 TTTC -TT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
18081880 CTCCTTTCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 8 0.15
4 37 0.67
5 6 0.11
6 4 0.07
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:18081854 original size:42 final size:38
Alignment explanation
Indices: 18081794--18081888 Score: 145
Period size: 38 Copynumber: 2.4 Consensus size: 38
18081784 TTTTGTTTTT
18081794 TTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTC--T--TTCTTTTTCTTTCTTTC
*
18081836 TTTCCTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
18081874 TTTCTTCTCCTTTCC
1 TTTCTTCTCCTTTCC
18081889 CTCTCATTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 31 0.61
40 1 0.02
42 19 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
Found at i:18081886 original size:10 final size:9
Alignment explanation
Indices: 18081803--18081887 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 9
18081793 TTTTCTTCTC
18081803 CTTTCCTTTT
1 CTTTCC-TTT
18081813 CTTTCC-TT
1 CTTTCCTTT
*
18081821 CTTTTTCTTT
1 C-TTTCCTTT
18081831 CTTT-CTTT
1 CTTTCCTTT
*
18081839 CCTCTCCTTT
1 -CTTTCCTTT
*
18081849 CCTTTTCTTT
1 -CTTTCCTTT
*
18081859 CTTTTTCTTT
1 C-TTTCCTTT
18081869 CTTT-CTTT
1 CTTTCCTTT
18081877 CTTCTCCTTT
1 CTT-TCCTTT
18081887 C
1 C
18081888 CCTCTCATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
8 14 0.22
9 15 0.23
10 35 0.55
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (9 bp):
CTTTCCTTT
Found at i:18082426 original size:22 final size:22
Alignment explanation
Indices: 18082382--18082440 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
18082372 ATGAATGTTG
*
18082382 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
18082406 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
18082428 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
18082441 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:18087325 original size:46 final size:46
Alignment explanation
Indices: 18087225--18087499 Score: 412
Period size: 46 Copynumber: 6.0 Consensus size: 46
18087215 CATGGCAAAG
* * * *
18087225 TGTGAAACGTAGGTATGATATTTCAGTGAAGAAAA-CATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
18087270 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* *
18087316 TGTTAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
*
18087362 TGTGAAAAGTAGGTATGATGTTTCAGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* *
18087408 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* * *
18087454 TGTGAAAAGTAGGCATG--GTATTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGT-TTCGGTAAAGAAAACCATACTGAGT
18087499 T
1 T
18087500 ATAGCAATGT
Statistics
Matches: 212, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 55 0.26
46 156 0.74
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
Found at i:18087861 original size:3 final size:3
Alignment explanation
Indices: 18087853--18087907 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
18087843 GGTGTTACAG
18087853 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18087901 TTA TTA T
1 TTA TTA T
18087908 ACTTATACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18088042 original size:13 final size:13
Alignment explanation
Indices: 18088024--18088048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18088014 TCTTCTTAGT
18088024 TTTTTATATATAG
1 TTTTTATATATAG
18088037 TTTTTATATATA
1 TTTTTATATATA
18088049 TATATATATA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTATATATAG
Found at i:18088046 original size:15 final size:14
Alignment explanation
Indices: 18088020--18088050 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
18088010 ATTATCTTCT
18088020 TAGTTTTTTATATA
1 TAGTTTTTTATATA
18088034 TAGTTTTTATATATA
1 TAGTTTTT-TATATA
18088049 TA
1 TA
18088051 TATATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TAGTTTTTTATATA
Found at i:18088079 original size:18 final size:19
Alignment explanation
Indices: 18088051--18088088 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18088041 TATATATATA
*
18088051 TATATATACATTTACATTT
1 TATATATACATATACATTT
18088070 TATA-ATACATATACATTT
1 TATATATACATATACATTT
18088088 T
1 T
18088089 TCCATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATACATATACATTT
Found at i:18088113 original size:26 final size:26
Alignment explanation
Indices: 18088065--18088114 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
18088055 TATACATTTA
* *
18088065 CATTTTATAATACATATACATTTTTC
1 CATTTTAAAATACATACACATTTTTC
* *
18088091 CATTTTAAAATTCATACATATTTT
1 CATTTTAAAATACATACACATTTT
18088115 CACATACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (26 bp):
CATTTTAAAATACATACACATTTTTC
Found at i:18090633 original size:23 final size:23
Alignment explanation
Indices: 18090614--18090667 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
18090604 TGTATACGCG
*
18090614 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACGAA
*
18090637 TACATAATAATAATA-ATA-GTAA
1 TACATAATAAAAATATATACG-AA
18090659 TAC-TAATAA
1 TACATAATAA
18090668 TACTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACGAA
Found at i:18090648 original size:3 final size:3
Alignment explanation
Indices: 18090617--18090687 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
18090607 ATACGCGTAC
* * * *
18090617 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
18090664 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
18090688 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18091169 original size:11 final size:12
Alignment explanation
Indices: 18091153--18091189 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
18091143 AGAAAAAAAA
18091153 GGAAGAGAG-AG
1 GGAAGAGAGAAG
18091164 GGAAGAGAGAAG
1 GGAAGAGAGAAG
18091176 GG-AGAGAGAAG
1 GGAAGAGAGAAG
18091187 GGA
1 GGA
18091190 GGGGGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:18092247 original size:40 final size:40
Alignment explanation
Indices: 18092184--18092279 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
18092174 CAAACATGCT
*
18092184 CTTAGAAATTTTGGTAAAACCTTA-AATATTATGATAAATC
1 CTTAGAAATTTTAGTAAAACCTTAGAAT-TTATGATAAATC
* ** * * *
18092224 TTTAGAAATTTTAGTAACTCCTTAGAATTTTTGGTGAATC
1 CTTAGAAATTTTAGTAAAACCTTAGAATTTATGATAAATC
*
18092264 CTTAAAAATTTTAGTA
1 CTTAGAAATTTTAGTA
18092280 TTACCAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (40 bp):
CTTAGAAATTTTAGTAAAACCTTAGAATTTATGATAAATC
Found at i:18092250 original size:20 final size:19
Alignment explanation
Indices: 18092220--18092279 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
18092210 TATTATGATA
*
18092220 AATCTTTAGAAATTTTAGT
1 AATCCTTAGAAATTTTAGT
* *
18092239 AACTCCTTAGAATTTTTGGT
1 AA-TCCTTAGAAATTTTAGT
*
18092259 GAATCCTTAAAAATTTTAGT
1 -AATCCTTAGAAATTTTAGT
18092279 A
1 A
18092280 TTACCAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (19 bp):
AATCCTTAGAAATTTTAGT
Found at i:18097915 original size:6 final size:6
Alignment explanation
Indices: 18097884--18097929 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
18097874 CCAAACACAC
* *
18097884 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAA CAGTAA AAGTAA CA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CA
18097930 ATATTCAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:18098007 original size:46 final size:45
Alignment explanation
Indices: 18097912--18098018 Score: 144
Period size: 46 Copynumber: 2.4 Consensus size: 45
18097902 AACGGTAACA
* *
18097912 GTAACAGTAAAAGTAACAATATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
* * *
18097957 GTAACAGTAACGGTAACAGTATTTCGACACACAAAGTGCCGAAT-T
1 GTAACAGTAACAGTAACAATA-TTCAACACACAAAGTGCCGAATCT
18098002 GGTAACAGTAACAGTAA
1 -GTAACAGTAACAGTAA
18098019 TCAGCACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 19 0.35
46 35 0.65
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
Found at i:18100613 original size:20 final size:19
Alignment explanation
Indices: 18100565--18100614 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
18100555 TAACAGAAAT
*
18100565 TTATCCGTATCAACAGTAA
1 TTATCCATATCAACAGTAA
* *
18100584 CTTATACATATCAATAGTAA
1 -TTATCCATATCAACAGTAA
18100604 TTCATCCATAT
1 TT-ATCCATAT
18100615 AATTACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (19 bp):
TTATCCATATCAACAGTAA
Found at i:18101949 original size:7 final size:7
Alignment explanation
Indices: 18101925--18101989 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
18101915 GCATCTATCT
18101925 TAAACCC
1 TAAACCC
**
18101932 TAAACAT
1 TAAACCC
18101939 TAAACCC
1 TAAACCC
*
18101946 TAAAATCC
1 T-AAACCC
18101954 TAAACCC
1 TAAACCC
*
18101961 TAAACCA
1 TAAACCC
18101968 TAAACCC
1 TAAACCC
*
18101975 TAAACCA
1 TAAACCC
18101982 T-AACCC
1 TAAACCC
18101988 TA
1 TA
18101990 GTGACTTGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
6 5 0.11
7 35 0.76
8 6 0.13
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:18101988 original size:13 final size:14
Alignment explanation
Indices: 18101925--18101989 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
18101915 GCATCTATCT
18101925 TAAACCCTAAA-CA
1 TAAACCCTAAACCA
18101938 TTAAACCCTAAAATCC-
1 -TAAACCCT-AAA-CCA
18101954 TAAACCCTAAACCA
1 TAAACCCTAAACCA
18101968 TAAACCCTAAACCA
1 TAAACCCTAAACCA
18101982 T-AACCCTA
1 TAAACCCTA
18101990 GTGACTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.19
14 26 0.55
15 11 0.23
17 1 0.02
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:18102175 original size:32 final size:31
Alignment explanation
Indices: 18102133--18102197 Score: 121
Period size: 32 Copynumber: 2.1 Consensus size: 31
18102123 TAAATTCACA
18102133 TAACTAAAGTTCGATTCTATTGATACGAACT
1 TAACTAAAGTTCGATTCTATTGATACGAACT
18102164 TAACATAAAGTTCGATTCTATTGATACGAACT
1 TAAC-TAAAGTTCGATTCTATTGATACGAACT
18102196 TA
1 TA
18102198 CCTGGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (31 bp):
TAACTAAAGTTCGATTCTATTGATACGAACT
Found at i:18103134 original size:22 final size:22
Alignment explanation
Indices: 18103109--18103201 Score: 107
Period size: 22 Copynumber: 4.1 Consensus size: 22
18103099 TGCACTAATG
18103109 AACAGAGAGCA-TAGAAGTGCTA
1 AACAGAGAGCACT-GAAGTGCTA
18103131 AACAGAGAGCACTGAAGTGCTAA
1 AACAGAGAGCACTGAAGTGCT-A
* *
18103154 TAATCAGAGAGCACAGATGTGCTA
1 -AA-CAGAGAGCACTGAAGTGCTA
* *
18103178 ACCAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
18103200 AA
1 AA
18103202 TATCAGAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 38 0.62
23 3 0.05
24 3 0.05
25 17 0.28
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:18103162 original size:47 final size:47
Alignment explanation
Indices: 18103103--18103212 Score: 152
Period size: 47 Copynumber: 2.3 Consensus size: 47
18103093 TTATTATGCA
*
18103103 CTAATGAA-CAGAGAGCATAGAAGTGCTAAACAGAGAGCACTGAAGTG
1 CTAAT-AATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
* * *
18103150 CTAATAATCAGAGAGCACAGATGTGCTAACCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
18103197 CTAA-ATATCAGAGAGC
1 CTAATA-ATCAGAGAGC
18103213 GCGCTAGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 3 0.05
47 54 0.95
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (47 bp):
CTAATAATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
Found at i:18103167 original size:25 final size:24
Alignment explanation
Indices: 18103103--18103212 Score: 104
Period size: 22 Copynumber: 4.6 Consensus size: 24
18103093 TTATTATGCA
18103103 CTAATGAACAGAGAGCA-TAGAAGTG
1 CTAAT-AACAGAGAGCACT-GAAGTG
18103128 CT-A-AACAGAGAGCACTGAAGTG
1 CTAATAACAGAGAGCACTGAAGTG
* *
18103150 CTAATAATCAGAGAGCACAGATGTG
1 CTAATAA-CAGAGAGCACTGAAGTG
* *
18103175 CT-A-ACCAGAGAGCACTGACGTG
1 CTAATAACAGAGAGCACTGAAGTG
*
18103197 CTAAATATCAGAGAGC
1 CT-AATAACAGAGAGC
18103213 GCGCTAGAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 36 0.50
23 3 0.04
24 5 0.07
25 28 0.39
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (24 bp):
CTAATAACAGAGAGCACTGAAGTG
Found at i:18104290 original size:5 final size:5
Alignment explanation
Indices: 18104272--18104357 Score: 81
Period size: 5 Copynumber: 17.0 Consensus size: 5
18104262 CTGTTGTTTT
*
18104272 ATATA ATAATA ATATA ATATA ATATA ATATT ATAATA ATATA ATATA ATA-A
1 ATATA AT-ATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
*
18104323 CATACTT AT-TA AT-TA AGTA-A ATATA ATATA ATATA
1 -ATA-TA ATATA ATATA A-TATA ATATA ATATA ATATA
18104358 TATTTTAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
4 9 0.13
5 49 0.71
6 11 0.16
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:18104296 original size:21 final size:22
Alignment explanation
Indices: 18104275--18104322 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
18104265 TTGTTTTATA
18104275 TAATAATAAT-ATAATATAATA
1 TAATAATAATAATAATATAATA
*
18104296 TAAT-ATTATAATAATATAATA
1 TAATAATAATAATAATATAATA
18104317 TAATAA
1 TAATAA
18104323 CATACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 19 0.79
22 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAATAATAATATAATA
Found at i:18104322 original size:8 final size:8
Alignment explanation
Indices: 18104277--18104316 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
18104267 GTTTTATATA
18104277 ATAATAAT
1 ATAATAAT
18104285 ATAATATAAT
1 AT-A-ATAAT
*
18104295 ATAATATT
1 ATAATAAT
18104303 ATAATAAT
1 ATAATAAT
18104311 ATAATA
1 ATAATA
18104317 TAATAACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.68
9 2 0.07
10 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:18105025 original size:11 final size:11
Alignment explanation
Indices: 18105005--18105114 Score: 58
Period size: 11 Copynumber: 10.4 Consensus size: 11
18104995 TAAAAATTAA
18105005 AAAAAGTATTTT
1 AAAAA-TATTTT
18105017 AAAAATATTTT
1 AAAAATATTTT
*
18105028 --AAA-A-TTA
1 AAAAATATTTT
* * *
18105035 AAAAAAAATTA
1 AAAAATATTTT
18105046 AAAAAGTATTTT
1 AAAAA-TATTTT
*
18105058 AAAAAAATTTT
1 AAAAATATTTT
18105069 --AAA-A-TTT
1 AAAAATATTTT
18105076 AAAAA-ATTTT
1 AAAAATATTTT
18105086 AAAAAAAGTATTTT
1 --AAAAA-TATTTT
*
18105100 AAAAGTATTTT
1 AAAAATATTTT
18105111 AAAA
1 AAAA
18105115 TTAAAAAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 13 0.16
10 4 0.05
11 29 0.36
12 22 0.28
14 5 0.06
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18105081 original size:31 final size:30
Alignment explanation
Indices: 18105038--18105103 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
18105028 AAAATTAAAA
*
18105038 AAAAATTAAAAAAGTATTTTAAAAAA-ATTTT
1 AAAAATTAAAAAA-T-TTTAAAAAAAGATTTT
*
18105069 AAAATTTAAAAAATTTTAAAAAAAGTATTTT
1 AAAAATTAAAAAATTTTAAAAAAAG-ATTTT
18105100 AAAA
1 AAAA
18105104 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.29
30 1 0.03
31 21 0.68
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTAAAAAATTTTAAAAAAAGATTTT
Found at i:18105124 original size:42 final size:42
Alignment explanation
Indices: 18104978--18105123 Score: 222
Period size: 42 Copynumber: 3.5 Consensus size: 42
18104968 ACCAAAAATT
18104978 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAAATTAAAAAAAGTATTTTAAAAA
18105022 TATTTTAAAATTAAAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
* * ** *
18105063 AATTTTAAAATTTAAAAAATTTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
18105105 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
18105124 TAAAAAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
41 37 0.39
42 41 0.44
43 10 0.11
44 6 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:18105360 original size:19 final size:20
Alignment explanation
Indices: 18105336--18105392 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
18105326 TTTTTTTTTA
18105336 TTTTTAAATTTTAAAATA-C
1 TTTTTAAATTTTAAAATATC
*
18105355 TTTTTAAATTTTAAAATATT
1 TTTTTAAATTTTAAAATATC
*
18105375 TTTTTAATTTTTAAAATA
1 TTTTTAAATTTTAAAATA
18105393 AATTTTTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAAATTTTAAAATATC
Found at i:18105398 original size:20 final size:20
Alignment explanation
Indices: 18105335--18105399 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
18105325 CTTTTTTTTT
18105335 ATTTTTAAATTTTAAAAT-A
1 ATTTTTAAATTTTAAAATAA
* *
18105354 CTTTTTAAATTTTAAAATAT
1 ATTTTTAAATTTTAAAATAA
* *
18105374 TTTTTTAATTTTTAAAATAA
1 ATTTTTAAATTTTAAAATAA
18105394 ATTTTT
1 ATTTTT
18105400 GGTATTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTTAAATTTTAAAATAA
Found at i:18111406 original size:59 final size:59
Alignment explanation
Indices: 18111343--18111512 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
18111333 TCAAGTTTGT
*
18111343 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
18111402 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
18111461 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
18111513 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:18111548 original size:22 final size:23
Alignment explanation
Indices: 18111513--18111575 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
18111503 ATTAACAATT
*
18111513 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* *
18111537 ATTAATTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
18111560 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
18111576 ATTTTAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.26
23 18 0.53
24 7 0.21
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:18112532 original size:19 final size:18
Alignment explanation
Indices: 18112497--18112535 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18112487 TGTATTTAGG
* *
18112497 AAAAAGAACCAAATTGAA
1 AAAAAAAACAAAATTGAA
18112515 AAAAAAAACAAAAGTTGAA
1 AAAAAAAACAAAA-TTGAA
18112534 AA
1 AA
18112536 TGGTGAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.72, C:0.08, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAAAACAAAATTGAA
Found at i:18112759 original size:48 final size:48
Alignment explanation
Indices: 18112688--18112785 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
18112678 TTGAATTTAG
18112688 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
1 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
18112736 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
1 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
18112784 AA
1 AA
18112786 TTTTATAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (48 bp):
AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
Found at i:18120618 original size:31 final size:31
Alignment explanation
Indices: 18120580--18120658 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 31
18120570 CAAATTTCGT
18120580 TATATATATACATACATACATTTTTATAATA
1 TATATATATACATACATACATTTTTATAATA
* *
18120611 TATATATACACATACAT--ATTTTTATAATT
1 TATATATATACATACATACATTTTTATAATA
* *
18120640 TATTTATATATATACATAC
1 TATATATATACATACATAC
18120659 TTATATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 25 0.61
31 16 0.39
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (31 bp):
TATATATATACATACATACATTTTTATAATA
Found at i:18120665 original size:29 final size:29
Alignment explanation
Indices: 18120579--18120676 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 29
18120569 TCAAATTTCG
18120579 TTATATATATACATACATACATTTTTATAAT
1 TTATATATATACATACATAC--TTTTATAAT
* * *
18120610 ATATATATACACATACATATTTTTATAAT
1 TTATATATATACATACATACTTTTATAAT
* * *
18120639 TTATTTATATATATACATACTTATATATAT
1 TTATATATATACATACATACTTTTATA-AT
*
18120669 TTTTATAT
1 TTATATAT
18120677 TTTATAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
29 30 0.55
30 8 0.15
31 17 0.31
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATATATATACATACATACTTTTATAAT
Found at i:18120703 original size:12 final size:12
Alignment explanation
Indices: 18120686--18120720 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18120676 TTTTATAATT
18120686 TATATACATATC
1 TATATACATATC
*
18120698 TATATATATATC
1 TATATACATATC
*
18120710 TATATGCATAT
1 TATATACATAT
18120721 TTTTTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:18120796 original size:10 final size:10
Alignment explanation
Indices: 18120783--18120817 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
18120773 TATAATTTTT
18120783 TATATACATA
1 TATATACATA
18120793 TATATACATA
1 TATATACATA
18120803 TATATACATA
1 TATATACATA
18120813 TATAT
1 TATAT
18120818 CTTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATACATA
Found at i:18120796 original size:20 final size:20
Alignment explanation
Indices: 18120747--18120827 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
18120737 ATATATATAC
*
18120747 ATACTTATATATATTTTTCTAT
1 ATACATATATATA-TTTT-TAT
*
18120769 ATTC-TATA-AT-TTTTTAT
1 ATACATATATATATTTTTAT
** *
18120786 ATACATATATATACATATAT
1 ATACATATATATATTTTTAT
*
18120806 ATACATATATATCTTTTTAT
1 ATACATATATATATTTTTAT
18120826 AT
1 AT
18120828 TTTTATATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 2 0.04
20 24 0.51
21 4 0.09
22 3 0.06
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATACATATATATATTTTTAT
Found at i:18120881 original size:20 final size:19
Alignment explanation
Indices: 18120825--18120883 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
18120815 TATCTTTTTA
*
18120825 TATTTTTA-TATTTTTATT
1 TATTTTTATTATTATTATT
*
18120843 CATTTTT-TTATTTACTTATT
1 TATTTTTATTA-TTA-TTATT
18120863 TATTTTTATTCATTATTATT
1 TATTTTTATT-ATTATTATT
18120883 T
1 T
18120884 TAAGAGAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.24
19 2 0.06
20 17 0.52
21 5 0.15
22 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTTTTATTATTATTATT
Found at i:18120927 original size:24 final size:23
Alignment explanation
Indices: 18120900--18120944 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18120890 AATGTTTTAT
*
18120900 TTTTATTTGCTTATAGATTTGTTA
1 TTTTATATGC-TATAGATTTGTTA
* *
18120924 TTTTGTATGCTATTGATTTGT
1 TTTTATATGCTATAGATTTGT
18120945 CCTTTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (23 bp):
TTTTATATGCTATAGATTTGTTA
Found at i:18121304 original size:73 final size:73
Alignment explanation
Indices: 18121194--18121337 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
18121184 TCTTTTCAAA
* * *
18121194 CTCAAGTTTTAAACGATCTCGGGAATTGAGAAGAGATCGTGTCCTAACTTATTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
18121259 TTTTTTTT
66 TTTTTTTT
18121267 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
18121332 TTTTTT
66 TTTTTT
18121338 AAATCCGAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (73 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTTTT
Found at i:18123704 original size:766 final size:766
Alignment explanation
Indices: 18122232--18123769 Score: 3022
Period size: 766 Copynumber: 2.0 Consensus size: 766
18122222 AGATGTGTTC
*
18122232 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTGCGGAGGTCACTTTGGC
1 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
*
18122297 CCTAAACGAACTGCTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
66 CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
18122362 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
131 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
18122427 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
196 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
18122492 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
261 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
18122557 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
326 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
18122622 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
391 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
18122687 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
456 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
18122752 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
521 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
*
18122817 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAGGG
586 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
*
18122882 ACCGCTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
651 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
18122947 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
716 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
18122998 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
1 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
*
18123063 CCTAAACGGACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
66 CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
18123128 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
131 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
18123193 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
196 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
18123258 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
261 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
18123323 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
326 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
18123388 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
391 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
18123453 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
456 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
18123518 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
521 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
*
18123583 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAATG
586 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
18123648 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
651 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
18123713 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
716 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
18123764 CAGAAA
1 CAGAAA
18123770 AGGCAAGGAA
Statistics
Matches: 766, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
766 766 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (766 bp):
CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
Found at i:18124209 original size:10 final size:10
Alignment explanation
Indices: 18124184--18124221 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
18124174 AGGTAACCCA
18124184 ATTTTATTTTT
1 ATTTT-TTTTT
18124195 A-TTTTTTTT
1 ATTTTTTTTT
*
18124204 GTTTTTTTTT
1 ATTTTTTTTT
18124214 ATTTTTTT
1 ATTTTTTT
18124222 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.21
10 18 0.75
11 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:18124218 original size:8 final size:8
Alignment explanation
Indices: 18124185--18124233 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
18124175 GGTAACCCAA
18124185 TTTTATTT
1 TTTTATTT
18124193 TTATT-TTT
1 TT-TTATTT
*
18124201 TTTGTTTTT
1 TTT-TATTT
18124210 TTTTATTT
1 TTTTATTT
18124218 TTTTATTT
1 TTTTATTT
*
18124226 TATTATTT
1 TTTTATTT
18124234 ATTAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 1 0.03
8 27 0.75
9 8 0.22
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:18124237 original size:7 final size:6
Alignment explanation
Indices: 18124185--18124236 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
18124175 GGTAACCCAA
* * *
18124185 TTTTAT TTTTAT TTTTTT TGTTTTT TTTTAT TTTTTT ATTTTAT TATTTAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT -TTTTAT T-TTTAT
18124236 T
1 T
18124237 AATTATTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 22 0.56
7 17 0.44
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:18125558 original size:7 final size:7
Alignment explanation
Indices: 18125546--18125611 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
18125536 TTCCTAAAGC
18125546 ATAATAA
1 ATAATAA
18125553 ATAATAA
1 ATAATAA
18125560 ATAATAA
1 ATAATAA
*
18125567 ATAAATCA
1 AT-AATAA
*
18125575 A-AATCA
1 ATAATAA
18125581 A-AATAA
1 ATAATAA
18125587 ATAA-AA
1 ATAATAA
18125593 A-AA-AA
1 ATAATAA
* *
18125598 AGAAAAA
1 ATAATAA
18125605 ATAATAA
1 ATAATAA
18125612 TTTGGGGACT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.10
6 16 0.31
7 25 0.49
8 5 0.10
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.20
Consensus pattern (7 bp):
ATAATAA
Found at i:18126186 original size:15 final size:15
Alignment explanation
Indices: 18126161--18126195 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18126151 GACTCTATTT
*
18126161 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
18126175 TAATTAATATTAAGA
1 TAATTAATATTAAGA
18126190 TAATTA
1 TAATTA
18126196 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:18130761 original size:5 final size:5
Alignment explanation
Indices: 18130698--18130752 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
18130688 TTTTTATGTT
*
18130698 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
18130747 TTATA T
1 TTATA T
18130753 AAATTAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
4 5 0.11
5 40 0.87
6 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:18140585 original size:24 final size:24
Alignment explanation
Indices: 18140570--18140621 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18140560 AATCAATGTC
18140570 AAATATATTACGCTAATAAATGCT
1 AAATATATTACGCTAATAAATGCT
*** *
18140594 AAATATATTATATTAATAAATACT
1 AAATATATTACGCTAATAAATGCT
18140618 AAAT
1 AAAT
18140622 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTACGCTAATAAATGCT
Found at i:18141798 original size:51 final size:51
Alignment explanation
Indices: 18141738--18141842 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
18141728 CCTGTGTGAA
* * *
18141738 GAGGCTTCAATCTAAAGTTGAATTTCATATAGTCCAAAACATTCATAATTT
1 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
18141789 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
1 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
18141840 GAG
1 GAG
18141843 TCTATGCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (51 bp):
GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
Found at i:18147056 original size:2 final size:2
Alignment explanation
Indices: 18147049--18147082 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18147039 TTCTGATAAA
18147049 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18147083 TGCTGCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18163632 original size:61 final size:61
Alignment explanation
Indices: 18163537--18163658 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
18163527 TTTGAGGAGC
18163537 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
1 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
18163598 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
1 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
18163659 GTTAAAGGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (61 bp):
ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
Found at i:18167128 original size:30 final size:32
Alignment explanation
Indices: 18167068--18167131 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
18167058 CACTTATTTT
18167068 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
18167101 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
18167132 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:18179057 original size:63 final size:63
Alignment explanation
Indices: 18178980--18179154 Score: 180
Period size: 66 Copynumber: 2.8 Consensus size: 63
18178970 AGACATTATG
* *
18178980 TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAAGCTACGGGATATA-
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAGCTACGAGATA-AC
* * * * *
18179043 TGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAAGCTACGAGATAA
1 TGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAAGCTACGAGATAA
18179108 C
63 C
* * *
18179109 TG--GCTAGGTCACAT-GGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGA
18179155 GAGCCAAAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
59 1 0.01
60 15 0.16
61 1 0.01
63 30 0.33
64 11 0.12
65 3 0.03
66 31 0.34
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (63 bp):
TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAGCTACGAGATAAC
Found at i:18182879 original size:132 final size:132
Alignment explanation
Indices: 18182638--18183035 Score: 546
Period size: 132 Copynumber: 3.0 Consensus size: 132
18182628 ATCATTCGTT
* * * *
18182638 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* * * *
18182703 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTTATGTTT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
18182768 TC
131 TC
* * * *
18182770 TAAAAACTCTTTAAAATGAAGGAAATGTTCGATGTTTGGCAATTTGGGGAGTCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* * *
18182835 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCACGTCT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
18182900 T-
131 TC
* * * * *
18182901 TAAAAACTCTTTAAAGCAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
*** * * * *
18182966 GCTGGGTTTTGATTTCACGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTCGTGTTT
66 GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
18183031 TC
131 TC
18183033 TAA
1 TAA
18183036 GGCGAGGCAA
Statistics
Matches: 232, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 112 0.48
132 120 0.52
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (132 bp):
TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
TC
Done.