Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 64 of 438
Found at i:16688970 original size:17 final size:18
Alignment explanation
Indices: 16688950--16688986 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16688940 CTTTTTGGCA
*
16688950 TTTTTTGTTTTTTTTGTT
1 TTTTTTGTTTGTTTTGTT
16688968 TTTTTTG-TTGTTTTGTT
1 TTTTTTGTTTGTTTTGTT
16688985 TT
1 TT
16688987 CTTCTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (18 bp):
TTTTTTGTTTGTTTTGTT
Found at i:16689022 original size:9 final size:9
Alignment explanation
Indices: 16688950--16689021 Score: 67
Period size: 9 Copynumber: 7.7 Consensus size: 9
16688940 CTTTTTGGCA
16688950 TTTTTTGTT
1 TTTTTTGTT
16688959 TTTTTTGTT
1 TTTTTTGTT
16688968 TTTTTTG-T
1 TTTTTTGTT
*
16688976 TGTTTTGTT
1 TTTTTTGTT
*
16688985 TTCTTCTTCTT
1 TT-TT-TTGTT
16688996 CTTTTTTGTGT
1 -TTTTTTGT-T
16689007 TTTTTT-TT
1 TTTTTTGTT
16689015 ATTTTTT
1 -TTTTTT
16689022 TAAAATTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 8 0.15
9 25 0.47
10 11 0.21
11 7 0.13
12 2 0.04
ACGTcount: A:0.01, C:0.06, G:0.10, T:0.83
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:16693605 original size:2 final size:2
Alignment explanation
Indices: 16693598--16693635 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
16693588 ATAATAATAC
* *
16693598 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16693636 ATAGAAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16693881 original size:12 final size:13
Alignment explanation
Indices: 16693866--16693921 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
16693856 AATAGGGGTG
16693866 ATAATA-ATAATA
1 ATAATACATAATA
*
16693878 ATAATACA-AACA
1 ATAATACATAATA
16693890 ATAATACATATATA
1 ATAATACATA-ATA
*
16693904 TATATATATATAATA
1 -ATA-ATACATAATA
16693919 ATA
1 ATA
16693922 GTAGTCAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.47
13 2 0.06
14 5 0.14
15 6 0.17
16 6 0.17
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATACATAATA
Found at i:16694008 original size:3 final size:3
Alignment explanation
Indices: 16693995--16694069 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
16693985 GAGGGTATAT
16693995 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
16694039 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
16694070 AAAAAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 7 0.12
3 40 0.69
4 9 0.16
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16694021 original size:18 final size:18
Alignment explanation
Indices: 16693991--16694059 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 18
16693981 TGGAGAGGGT
16693991 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
16694009 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
16694028 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
16694048 ATATAAATAATA
1 ATATAAATAATA
16694060 GTAAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 3 0.07
18 20 0.44
19 5 0.11
20 5 0.11
21 12 0.27
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:16694576 original size:30 final size:30
Alignment explanation
Indices: 16694542--16694627 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
16694532 ATTTGATGGT
*
16694542 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
16694572 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
16694602 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
16694628 CTAAGGTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.24, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:16694625 original size:18 final size:18
Alignment explanation
Indices: 16694574--16694626 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
16694564 GTGGTGGAGT
16694574 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
16694592 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
16694604 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
16694622 AGGTG
1 AGGTG
16694627 GCTAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:16695674 original size:18 final size:19
Alignment explanation
Indices: 16695651--16695695 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
16695641 TTGAGATCAT
16695651 TTTTGAAATCGAGGC-CAA
1 TTTTGAAATCGAGGCTCAA
16695669 TTTTGAAATCGAGGCTCAA
1 TTTTGAAATCGAGGCTCAA
*
16695688 ATTTGAAA
1 TTTTGAAA
16695696 GATATTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (19 bp):
TTTTGAAATCGAGGCTCAA
Found at i:16703011 original size:23 final size:24
Alignment explanation
Indices: 16702982--16703031 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
16702972 TAATCACTTT
16702982 AATATTAAATCTAATATAATA-TA
1 AATATTAAATCTAATATAATATTA
* *
16703005 AATATTAAATTTAATTTAATATTA
1 AATATTAAATCTAATATAATATTA
16703029 AAT
1 AAT
16703032 CTTGTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATATTAAATCTAATATAATATTA
Found at i:16710862 original size:2 final size:2
Alignment explanation
Indices: 16710855--16710885 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16710845 AGTTATTTTA
16710855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16710886 AACATACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16713928 original size:5 final size:5
Alignment explanation
Indices: 16713918--16713944 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16713908 TTCTAATATA
16713918 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
16713945 TATATACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:16714929 original size:18 final size:16
Alignment explanation
Indices: 16714875--16714929 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
16714865 AAGACTCGAG
* *
16714875 ATTTTTAAAGTTTGTA
1 ATTTTTATATTTTGTA
*
16714891 ATATTTTATATTTTGTT
1 AT-TTTTATATTTTGTA
16714908 ATTTTTATATATTATGTA
1 ATTTTTATAT-TT-TGTA
16714926 ATTT
1 ATTT
16714930 GTAACGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 10 0.31
17 15 0.47
18 7 0.22
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (16 bp):
ATTTTTATATTTTGTA
Found at i:16715027 original size:17 final size:17
Alignment explanation
Indices: 16715007--16715039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16714997 AGAATTATTA
16715007 AATATTAAAT-TAAAAAT
1 AATA-TAAATATAAAAAT
16715024 AATATAAATATAAAAA
1 AATATAAATATAAAAA
16715040 ATTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATATAAATATAAAAAT
Found at i:16715472 original size:21 final size:22
Alignment explanation
Indices: 16715423--16715464 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16715413 ACAAAAATAA
16715423 AATAAAAGCCCACTGTTAAAAT
1 AATAAAAGCCCACTGTTAAAAT
*
16715445 AATAAAAG-CCAGTGTTAAAA
1 AATAAAAGCCCACTGTTAAAA
16715465 ACTTAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (22 bp):
AATAAAAGCCCACTGTTAAAAT
Found at i:16726886 original size:21 final size:21
Alignment explanation
Indices: 16726843--16726886 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16726833 TTGTTATATA
* * *
16726843 ATTAATATTTTAATAATTCTT
1 ATTAAAATATTAATAATTATT
*
16726864 ATTAAAATATTAATATTTATT
1 ATTAAAATATTAATAATTATT
16726885 AT
1 AT
16726887 GCTTATAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAAAATATTAATAATTATT
Found at i:16731713 original size:2 final size:2
Alignment explanation
Indices: 16731706--16731741 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16731696 TAGTGGAATG
16731706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16731742 TAAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16743410 original size:18 final size:17
Alignment explanation
Indices: 16743351--16743410 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
16743341 AAAAGGTGAG
16743351 AAGTAAAAGTTTAGGGAA
1 AAGTAAAAGTTTAGGG-A
* *
16743369 AAATAAAAAGTTT-TGGA
1 AAGT-AAAAGTTTAGGGA
*
16743386 GAGTAAAAGTTTGAGGGA
1 AAGTAAAAGTTT-AGGGA
16743404 AAGTAAA
1 AAGTAAA
16743411 TAGGGGAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 14 0.42
19 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (17 bp):
AAGTAAAAGTTTAGGGA
Found at i:16745739 original size:17 final size:15
Alignment explanation
Indices: 16745704--16745743 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
16745694 AACTTCATGG
*
16745704 ATTATTTTTTATTTT
1 ATTATTTTTTATTTA
16745719 ATTATTTTTTATATGTA
1 ATTATTTTTTAT-T-TA
16745736 ATTATTTT
1 ATTATTTT
16745744 ATTGAGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 1 0.05
17 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
ATTATTTTTTATTTA
Found at i:16746254 original size:6 final size:6
Alignment explanation
Indices: 16746243--16746271 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16746233 AATTCACCAA
16746243 CTCAAT CTCAAT CTCAAT CTCAAT CTCAA
1 CTCAAT CTCAAT CTCAAT CTCAAT CTCAA
16746272 CCGCCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (6 bp):
CTCAAT
Found at i:16750861 original size:2 final size:2
Alignment explanation
Indices: 16750854--16750882 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16750844 ATTGTAGAAT
16750854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16750883 TAAAATGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16755421 original size:17 final size:17
Alignment explanation
Indices: 16755399--16755443 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
16755389 ATTTTTTAAA
16755399 ATTTTTCTTTATTTTT-C
1 ATTTTT-TTTATTTTTGC
*
16755416 ATTTTTTTTGTTTTTGC
1 ATTTTTTTTATTTTTGC
16755433 ACTTTTTTTTA
1 A-TTTTTTTTA
16755444 ATCACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 8 0.33
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.76
Consensus pattern (17 bp):
ATTTTTTTTATTTTTGC
Found at i:16758535 original size:25 final size:25
Alignment explanation
Indices: 16758493--16758549 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
16758483 GTTACCGATT
* *
16758493 TCAGCTCTTATGAACTTCTCGATAC
1 TCAGCTCGTATGAACTTCCCGATAC
* *
16758518 TCAGCTCGTAT-AAGCTTCCCGTTAT
1 TCAGCTCGTATGAA-CTTCCCGATAC
16758543 TCAGCTC
1 TCAGCTC
16758550 ACTTAAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (25 bp):
TCAGCTCGTATGAACTTCCCGATAC
Found at i:16759383 original size:22 final size:22
Alignment explanation
Indices: 16759358--16759406 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
16759348 AGTGATATTT
*
16759358 CTTGTCT-AAGACTTGATTTTGG
1 CTTGTCTGAAGACTTG-TTATGG
* *
16759380 CTTGTTTGAATACTTGTTATGG
1 CTTGTCTGAAGACTTGTTATGG
16759402 CTTGT
1 CTTGT
16759407 TGATGTGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.49
Consensus pattern (22 bp):
CTTGTCTGAAGACTTGTTATGG
Found at i:16765251 original size:23 final size:23
Alignment explanation
Indices: 16765225--16765271 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16765215 TTGTTTAGTG
16765225 TAAAGGTGGTTGCTCGTTTCGAT
1 TAAAGGTGGTTGCTCGTTTCGAT
16765248 TAAAGGTGGTTGCTCGTTTCGAT
1 TAAAGGTGGTTGCTCGTTTCGAT
16765271 T
1 T
16765272 CAATAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.40
Consensus pattern (23 bp):
TAAAGGTGGTTGCTCGTTTCGAT
Found at i:16766157 original size:14 final size:13
Alignment explanation
Indices: 16766138--16766178 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16766128 CTTGGGCTAG
16766138 TTTGGGATTTTTAA
1 TTTGGGATTTTT-A
*
16766152 TTTGGG-TTTGT-
1 TTTGGGATTTTTA
16766163 TTTGGGATTTTTA
1 TTTGGGATTTTTA
16766176 TTT
1 TTT
16766179 TATTTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 7 0.30
14 6 0.26
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.63
Consensus pattern (13 bp):
TTTGGGATTTTTA
Found at i:16770264 original size:18 final size:19
Alignment explanation
Indices: 16770238--16770273 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16770228 AACAGAAAGG
*
16770238 AAAGGAAGAAAAA-GAAAA
1 AAAGAAAGAAAAACGAAAA
16770256 AAAGAAAGAAAAACGAAA
1 AAAGAAAGAAAAACGAAA
16770274 GACTAAGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAACGAAAA
Found at i:16771184 original size:37 final size:40
Alignment explanation
Indices: 16771143--16771239 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 40
16771133 GACTTCCAAT
* *
16771143 CGATGCGGCACTAGGTGCCAA-T-TTACTTC-GGTTTAAC
1 CGATGAGGCACTAGGTGCCAATTATTACTTCAGATTTAAC
* * *
16771180 CGATGAGACACTGGGTG-CAATTATTACTTCAGATTTATC
1 CGATGAGGCACTAGGTGCCAATTATTACTTCAGATTTAAC
*
16771219 CGATAAGGCACTAGGTGCCAA
1 CGATGAGGCACTAGGTGCCAA
16771240 ACTGGTGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
36 3 0.06
37 15 0.31
38 7 0.15
39 20 0.42
40 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (40 bp):
CGATGAGGCACTAGGTGCCAATTATTACTTCAGATTTAAC
Found at i:16772770 original size:40 final size:40
Alignment explanation
Indices: 16772712--16772793 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
16772702 AATCAAATAT
*
16772712 ATCGAGTATTAGCAGCGTTTTT-AGAAAAGCGCCGCTAAAG
1 ATCGAGAATTAGCAGCGTTTTTAAG-AAAGCGCCGCTAAAG
** *
16772752 ATCGAGAATTAGTGGCGTTTTTAAGGAAGCGCCGCTAAAG
1 ATCGAGAATTAGCAGCGTTTTTAAGAAAGCGCCGCTAAAG
16772792 AT
1 AT
16772794 TAACCTAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCGAGAATTAGCAGCGTTTTTAAGAAAGCGCCGCTAAAG
Found at i:16773051 original size:114 final size:114
Alignment explanation
Indices: 16772806--16773056 Score: 260
Period size: 114 Copynumber: 2.2 Consensus size: 114
16772796 ACCTAGAGCT
* * * *
16772806 GCGCTTTTTTAAAAACGCCGCTAAAGGATTCAAGAGAACGACATCGTTTTTTCTGAGCTTCAGTG
1 GCGCTTTTTGAAAAACGCCGCTAAAAGATTAAAGAGAACGACATCGTTTTTTCTCAGCTTCAGTG
* * * *
16772871 GCATTAGCGGTGCTACCAAAGAAACGCCGCTATAGGTCGATATATAGCG
66 GCATTAGCGGCGCTACCAAAGAAACGCCGCAAGAGGTCGATATATAGCA
* * *
16772920 GCG-TTTTCAGGAAAACGCCGCTAAAAGATTAAACG-GAACGA-GTCGTTTATTT-TCAGCTTCA
1 GCGCTTTT-TGAAAAACGCCGCTAAAAGATTAAA-GAGAACGACATCGTTT-TTTCTCAGCTTCA
* ** * * * *
16772981 GTGGCATTAGCGGCGCTTCCTCAGAAAACGCCGCAAGAGTTTGGGT-TTTAGCA
63 GTGGCATTAGCGGCGCTACCAAAG-AAACGCCGCAAGAG-GTCGATATATAGCA
16773034 GCGCTTTTTGAAAAACGCCGCTA
1 GCGCTTTTTGAAAAACGCCGCTA
16773057 TAGATCTAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
113 38 0.34
114 65 0.59
115 8 0.07
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (114 bp):
GCGCTTTTTGAAAAACGCCGCTAAAAGATTAAAGAGAACGACATCGTTTTTTCTCAGCTTCAGTG
GCATTAGCGGCGCTACCAAAGAAACGCCGCAAGAGGTCGATATATAGCA
Found at i:16773662 original size:21 final size:21
Alignment explanation
Indices: 16773638--16773680 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16773628 TCTATAGTCG
*
16773638 TAAATCATAAACTA-TAAACCT
1 TAAACCATAAA-TATTAAACCT
*
16773659 TAAACCCTAAATATTAAACCT
1 TAAACCATAAATATTAAACCT
16773680 T
1 T
16773681 GGATCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACCATAAATATTAAACCT
Found at i:16773837 original size:21 final size:22
Alignment explanation
Indices: 16773803--16773847 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
16773793 TTATAAAATG
*
16773803 TCTTAAAACTATAAACCCTAAA
1 TCTTAAAACCATAAACCCTAAA
16773825 TCTT-AAACCATAAACCCTAAA
1 TCTTAAAACCATAAACCCTAAA
16773846 TC
1 TC
16773848 CAAAACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
TCTTAAAACCATAAACCCTAAA
Found at i:16773853 original size:21 final size:21
Alignment explanation
Indices: 16773807--16773859 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
16773797 AAAATGTCTT
* *
16773807 AAAACTATAAACCCTAAATCT
1 AAAACAATAAACCCTAAATCC
* *
16773828 TAAACCATAAACCCTAAATCC
1 AAAACAATAAACCCTAAATCC
16773849 AAAACAATAAA
1 AAAACAATAAA
16773860 ACCTTAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAACAATAAACCCTAAATCC
Found at i:16774199 original size:3 final size:3
Alignment explanation
Indices: 16774191--16774240 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
16774181 TTAAATAGTA
16774191 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16774239 AA
1 AA
16774241 AAGAAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16777059 original size:2 final size:2
Alignment explanation
Indices: 16777052--16777093 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16777042 AAGACAATAA
16777052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16777094 TACCTTTCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16778146 original size:28 final size:27
Alignment explanation
Indices: 16778045--16778146 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
16778035 TCAGTGTTAA
* *
16778045 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
* *
16778073 CTGGGCCATAGCCCCT-TACAGTTTCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
16778105 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
16778133 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
16778147 TATTACAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
27 7 0.12
28 26 0.46
30 2 0.04
32 15 0.26
33 7 0.12
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:16778166 original size:60 final size:59
Alignment explanation
Indices: 16778046--16778182 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
16778036 CAGTGTTAAC
* *
16778046 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-TTCAGAGTATAT
* *
16778107 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAG-TCA-AGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTTCAGAG-TATAT
* *
16778167 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
16778183 TAACACAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 2 0.03
60 53 0.79
61 10 0.15
62 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTTCAGAGTATAT
Found at i:16778550 original size:26 final size:27
Alignment explanation
Indices: 16778521--16778584 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
16778511 CAAAATTAAC
* *
16778521 CCTAGGGGTATAACGGTCATTTT-ACA
1 CCTAGGGGTATAACGATAATTTTCACA
* *
16778547 CCTAGGGGTAAAACGATAATTTTCATA
1 CCTAGGGGTATAACGATAATTTTCACA
*
16778574 CTTAGGGGTAT
1 CCTAGGGGTAT
16778585 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (27 bp):
CCTAGGGGTATAACGATAATTTTCACA
Found at i:16780662 original size:19 final size:18
Alignment explanation
Indices: 16780625--16780668 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16780615 ATACATGCAG
16780625 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
16780642 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
16780661 TACTAATT
1 TAATAATT
16780669 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:16785848 original size:21 final size:21
Alignment explanation
Indices: 16785819--16785859 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16785809 ACTAAGAGCG
*
16785819 GAGGCAGCAGCGCGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
16785840 GAGGTAGCAGTGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
16785860 GGAGCAGAAC
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:0.24, C:0.17, G:0.54, T:0.05
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:16786227 original size:2 final size:2
Alignment explanation
Indices: 16786220--16786260 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16786210 TGGTTGGTTT
16786220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16786261 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16790003 original size:51 final size:51
Alignment explanation
Indices: 16789908--16790004 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
16789898 TTTTTTAAAT
* * **
16789908 TTTTTTAAAATTAGGATCAAATTGAGACCATTTGTAAATTTTGAGGGTTAA
1 TTTTTTAAAATTAGGATCAAATTGAGACAATATGTAAAAGTTGAGGGTTAA
* * *
16789959 TTTTTTAAAATTATGA-CTAAATTGATATAATATGTAAAAGTTGAGG
1 TTTTTTAAAATTAGGATC-AAATTGAGACAATATGTAAAAGTTGAGG
16790005 AGAGGACTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 37 0.97
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.41
Consensus pattern (51 bp):
TTTTTTAAAATTAGGATCAAATTGAGACAATATGTAAAAGTTGAGGGTTAA
Found at i:16791395 original size:10 final size:10
Alignment explanation
Indices: 16791380--16791440 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
16791370 AAAATTATAC
16791380 ATAATAATAA
1 ATAATAATAA
16791390 ATAATAAATAA
1 ATAAT-AATAA
*
16791401 TTATATAATATA
1 ATA-ATAATA-A
16791413 A-AATAATATA
1 ATAATAATA-A
*
16791423 ATGAATAATAT
1 AT-AATAATAA
16791434 ATAATAA
1 ATAATAA
16791441 AATGATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 19 0.44
11 14 0.33
12 10 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
ATAATAATAA
Found at i:16791408 original size:22 final size:22
Alignment explanation
Indices: 16791383--16791456 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
16791373 ATTATACATA
16791383 ATAATAAATAATAAATAATTAT
1 ATAATAAATAATAAATAATTAT
*
16791405 ATAATATAA-AATAATATAATGA-
1 ATAATA-AATAATAA-ATAATTAT
* *
16791427 ATAATATATAATAAAATGA-TAT
1 ATAATAAATAAT-AAATAATTAT
16791449 ATAATAAA
1 ATAATAAA
16791457 ATGTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 2 0.05
22 30 0.71
23 10 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
ATAATAAATAATAAATAATTAT
Found at i:16791410 original size:15 final size:14
Alignment explanation
Indices: 16791382--16791456 Score: 80
Period size: 15 Copynumber: 5.1 Consensus size: 14
16791372 AATTATACAT
*
16791382 AATAATAAATAATA
1 AATAATATATAATA
16791396 AATAATTATATAATA
1 AATAA-TATATAATA
*
16791411 TAA-AATAATATAATG
1 -AATAAT-ATATAATA
16791426 AATAATATATAATAA
1 AATAATATATAAT-A
*
16791441 AATGATATATAATA
1 AATAATATATAATA
16791455 AA
1 AA
16791457 ATGTATAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 18 0.35
15 32 0.62
16 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATATATAATA
Found at i:16791441 original size:27 final size:28
Alignment explanation
Indices: 16791378--16791478 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 28
16791368 AAAAAATTAT
16791378 ACATAATAATAA-ATAATAAATAATTATATA
1 ACATAA-AATAATATAAT-AATAA-TATATA
*
16791408 ATATAAAATAATATAATGAATAATATAT-
1 ACATAAAATAATATAAT-AATAATATATA
*
16791436 A-ATAAAATGATATATAATAA-AATGTATA
1 ACATAAAAT-A-ATATAATAATAATATATA
16791464 A-ATAAAAT-ATATAAT
1 ACATAAAATAATATAAT
16791479 TAGAGGTGTG
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
25 7 0.11
27 13 0.20
28 12 0.19
29 17 0.27
30 15 0.23
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
ACATAAAATAATATAATAATAATATATA
Found at i:16791449 original size:37 final size:37
Alignment explanation
Indices: 16791383--16791455 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
16791373 ATTATACATA
* *
16791383 ATAATAAATAATAAATAATTATATAATATAAAATAAT
1 ATAATAAATAATAAATAATAAAATAATATAAAATAAT
* * * *
16791420 ATAATGAATAATATATAATAAAATGATATATAATAA
1 ATAATAAATAATAAATAATAAAATAATATAAAATAA
16791456 AATGTATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (37 bp):
ATAATAAATAATAAATAATAAAATAATATAAAATAAT
Found at i:16791452 original size:12 final size:12
Alignment explanation
Indices: 16791370--16791478 Score: 67
Period size: 14 Copynumber: 8.0 Consensus size: 12
16791360 ATTTTTTTAA
16791370 AAAAT-TATACAT
1 AAAATATATA-AT
*
16791382 AATAATAAATAAT
1 AA-AATATATAAT
16791395 AAATAATTATATAATAT
1 -AA-AA-TATAT-A-AT
16791412 AAAATAATATAAT
1 AAAAT-ATATAAT
16791425 GAATAATATATAAT
1 -AA-AATATATAAT
16791439 AAAATGATATATAAT
1 -AAA--ATATATAAT
*
16791454 AAAATGTATAAAT
1 AAAATATAT-AAT
16791467 AAAATATATAAT
1 AAAATATATAAT
16791479 TAGAGGTGTG
Statistics
Matches: 80, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
12 10 0.12
13 19 0.24
14 24 0.30
15 22 0.28
16 3 0.04
17 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:16791457 original size:15 final size:14
Alignment explanation
Indices: 16791383--16791476 Score: 78
Period size: 13 Copynumber: 7.1 Consensus size: 14
16791373 ATTATACATA
16791383 ATAAT-AAATA-AT
1 ATAATAAAATATAT
*
16791395 A-AAT-AATTATAT
1 ATAATAAAATATAT
16791407 A-ATATAAAATA-AT
1 ATA-ATAAAATATAT
*
16791420 ATAAT-GAATAATAT
1 ATAATAAAAT-ATAT
16791434 ATAATAAAATGATAT
1 ATAATAAAAT-ATAT
*
16791449 ATAATAAAATGTAT
1 ATAATAAAATATAT
16791463 A-AATAAAATATAT
1 ATAATAAAATATAT
16791476 A
1 A
16791477 ATTAGAGGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
11 7 0.10
12 8 0.12
13 20 0.29
14 16 0.24
15 17 0.25
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATAAAATATAT
Found at i:16791685 original size:6 final size:6
Alignment explanation
Indices: 16791675--16791716 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
16791665 AATATATTTT
* *
16791675 TTTTAT TTTTAA TTAT-A TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
16791717 ATAATCGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:16791701 original size:23 final size:21
Alignment explanation
Indices: 16791667--16791711 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
16791657 ATATAATAAA
*
16791667 TATATTTTTTTTATTTTTAAT
1 TATATTTTTTTTAATTTTAAT
16791688 TATATTTTAATTTTAATTTTAAT
1 TATATTTT--TTTTAATTTTAAT
16791711 T
1 T
16791712 TTAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
23 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATATTTTTTTTAATTTTAAT
Found at i:16791800 original size:28 final size:28
Alignment explanation
Indices: 16791726--16791792 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
16791716 TATAATCGAT
* *
16791726 TTTTATTATATATTTTCAATTTGTGTATTG
1 TTTTAATATA-ATTTT-TATTTGTGTATTG
* *
16791756 TTTTAATATAATTTTTATTTGTTTCTTG
1 TTTTAATATAATTTTTATTTGTGTATTG
16791784 TTTTAATAT
1 TTTTAATAT
16791793 TTGTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 19 0.58
29 5 0.15
30 9 0.27
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (28 bp):
TTTTAATATAATTTTTATTTGTGTATTG
Found at i:16792179 original size:24 final size:25
Alignment explanation
Indices: 16792120--16792172 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
16792110 ATTTATAGTA
*
16792120 AAAATAAATAATATATAAAATATTT
1 AAAATAAATTATATATAAAATATTT
16792145 AAAATAAATTATATATAAAA-ATTT
1 AAAATAAATTATATATAAAATATTT
16792169 AAAA
1 AAAA
16792173 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAATAAATTATATATAAAATATTT
Found at i:16793797 original size:78 final size:81
Alignment explanation
Indices: 16793668--16794445 Score: 495
Period size: 90 Copynumber: 8.9 Consensus size: 81
16793658 ATGTAACAAC
* *
16793668 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCTGTCTAATACAAAGACGCCAAATCTATCAT
1 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTATCAT
16793733 CTTCGATCTGC-A-T-
66 CTTCGATCTGCGAGTA
*
16793746 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTGTCAT
1 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTATCAT
*
16793811 ATTCGATCTGCTTCGATGTAA
66 CTTCGATCTG---CGA-GT-A
* ** * *
16793832 ACGCACGAATGTCAGATCTGCTATCTTCAATCTGCTTTCCGTCTAATACAGAGACGCCAAATCTA
1 A--CA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTA
16793897 TCATCTTCGATCTGCTTCGATGTAA
62 TCATCTTCGATCTG---CGA-GT-A
* * * * * *
16793922 ACATACGAATATCAGATCTGCTATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 AC--A--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTA
16793987 TCATCTTCGATCTGCTTTGATGTAAA
62 TCATCTTCGATCTGC---GA-GT--A
* * * * * ** * *
16794013 CACACGAATGTCAGATCTGCTGTCTTCGATTTGCTCCCCATCTAATACAGAGACACCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTAT
*
16794078 CATCTTCAATCTGCTTCGATGTAAA
63 CATCTTCGATCTG---CGA-GT--A
* * * * * *
16794103 CACACGAATGTCAGATCTGCTGTCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTAT
16794168 CATCTTCGATCTGCTTCGATGTAAA
63 CATCTTCGATCTG---CGA-GT--A
** * * * *
16794193 CACACGAATGTCAGATCTACTATCTTCGATTTGCTCTCCGTCTAATACAGAGACGCCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTAT
16794258 CATCTTCGATCTGCTTCGATGTAAA
63 CATCTTCGATCTG---CGA-GT--A
* * * * * * *
16794283 CACACGAATGCCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTAT
16794348 CATCTTCGATCTGCTTCGATGTAAA
63 CATCTTCGATCTG---CGA-GT--A
* * * * * *
16794373 CACACGAATGTCAGATCTGATATCTTCGATCTACTCCCTG-CCAATACAGAGATGCCAAATCTA-
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTAT
*
16794436 CTTCTTCGAT
63 CATCTTCGAT
16794446 TTGTTCCCCG
Statistics
Matches: 630, Mismatches: 48, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
78 71 0.11
81 1 0.00
82 1 0.00
84 1 0.00
86 1 0.00
87 1 0.00
88 12 0.02
89 19 0.03
90 518 0.82
91 2 0.00
92 2 0.00
93 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (81 bp):
ACAAATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTATCAT
CTTCGATCTGCGAGTA
Found at i:16793906 original size:90 final size:90
Alignment explanation
Indices: 16793749--16794434 Score: 1068
Period size: 90 Copynumber: 7.6 Consensus size: 90
16793739 TCTGCATACA
* * * * *
16793749 AATGTCAGATCTGTTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTGTCATATT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
*
16793814 CGATCTGCTTCGATGTAAACGCACG
66 CGATCTGCTTCGATGTAAACACACG
* ** *
16793839 AATGTCAGATCTGCTATCTTCAATCTGCTTTCCGTCTAATACAGAGACGCCAAATCTATCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
*
16793904 CGATCTGCTTCGATGTAAACATACG
66 CGATCTGCTTCGATGTAAACACACG
* * *
16793929 AATATCAGATCTGCTATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
*
16793994 CGATCTGCTTTGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * *
16794019 AATGTCAGATCTGCTGTCTTCGATTTGCTCCCCATCTAATACAGAGACACCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
*
16794084 CAATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * *
16794109 AATGTCAGATCTGCTGTCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
16794174 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * *
16794199 AATGTCAGATCTACTATCTTCGATTTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
16794264 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* *
16794289 AATGCCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
16794354 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * * *
16794379 AATGTCAGATCTGATATCTTCGATCTACTCCCTG-CCAATACAGAGATGCCAAATCT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
16794435 ACTTCTTCGA
Statistics
Matches: 549, Mismatches: 47, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
89 19 0.03
90 530 0.97
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (90 bp):
AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
CGATCTGCTTCGATGTAAACACACG
Found at i:16794236 original size:270 final size:270
Alignment explanation
Indices: 16793596--16794445 Score: 1154
Period size: 270 Copynumber: 3.2 Consensus size: 270
16793586 CCATGCTGAA
* * * * * * *
16793596 ATCTTTGATCTGCTCCCCGCCTAATACATAGAAGCCAAATCTATCATCTTCAATTTGTTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
* * ** * * * *
16793661 T-AACAACACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCTGTCTAATACAAAGACGCCAAA
66 TAAAC-ACACGAATATCAGATCTACTATCTTCGACCTGCTCCCCGTCTAATACAGAGACGCCAAA
* * *
16793725 TCTATCATCTTCGATCTG---C-A--T----ACA--AATGTCAGATCTGTTATCTTTGATCTGCT
130 TCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCT
* * * *
16793778 CTCTGTCTAATACAGAGACGCCAAATCTGTCATATTCGATCTGCTTCGATGTAAACGCACGAATG
195 CCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATG
16793843 TCAGATCTGCT
260 TCAGATCTGCT
* **
16793854 ATCTTCAATCTGCTTTCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
* * *
16793919 TAAACATACGAATATCAGATCTGCTATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAAT
66 TAAACACACGAATATCAGATCTACTATCTTCGACCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* * *
16793984 CTGTCATCTTCGATCTGCTTTGATGTAAACACACGAATGTCAGATCTGCTGTCTTCGATTTGCTC
131 CTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTC
* * *
16794049 CCCATCTAATACAGAGACACCAAATCTGTCATCTTCAATCTGCTTCGATGTAAACACACGAATGT
196 CCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGT
16794114 CAGATCTGCT
261 CAGATCTGCT
* *
16794124 GTCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
* ** *
16794189 TAAACACACGAATGTCAGATCTACTATCTTCGATTTGCTCTCCGTCTAATACAGAGACGCCAAAT
66 TAAACACACGAATATCAGATCTACTATCTTCGACCTGCTCCCCGTCTAATACAGAGACGCCAAAT
*
16794254 CTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGCCAGATCTGCTATCTTCGATCTGCTC
131 CTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTC
*
16794319 CCCGTCTAATACGGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGT
196 CCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGT
*
16794384 CAGATCTGAT
261 CAGATCTGCT
* * * * *
16794394 ATCTTCGATCTACTCCCTG-CCAATACAGAGATGCCAAATCTA-CTTCTTCGAT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGAT
16794446 TTGTTCCCCG
Statistics
Matches: 521, Mismatches: 58, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
258 125 0.24
259 3 0.01
262 1 0.00
264 1 0.00
268 12 0.02
269 21 0.04
270 358 0.69
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (270 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
TAAACACACGAATATCAGATCTACTATCTTCGACCTGCTCCCCGTCTAATACAGAGACGCCAAAT
CTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTC
CCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGT
CAGATCTGCT
Found at i:16802459 original size:2 final size:2
Alignment explanation
Indices: 16802442--16802492 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
16802432 AGATTTTCTT
* *
16802442 TC TC TC AC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16802484 TC TC TC TC T
1 TC TC TC TC T
16802493 TTGTAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16806545 original size:27 final size:26
Alignment explanation
Indices: 16806515--16806656 Score: 69
Period size: 27 Copynumber: 5.1 Consensus size: 26
16806505 AAAATTTTTT
16806515 TAAAAAATTATACATAATAATAAATAA
1 TAAAAAATTATA-ATAATAATAAATAA
*
16806542 TAAATAATTAT-ATAAT-ATAAAATAA
1 TAAAAAATTATAATAATAAT-AAATAA
* *
16806567 TATAATGAATAATATATAATAA-AATGATATA
1 TA-AA-AAATTATA-ATAATAATAA--ATA-A
*
16806598 TAATAAAATGTATAAATAA-AATATATAA
1 TAA-AAAAT-TAT-AATAATAATAAATAA
* *
16806626 TAAAATATGAATAATACATAGATAAA-AA
1 TAAAAAAT-TATAATA-ATA-ATAAATAA
16806654 TAA
1 TAA
16806657 TATATATATG
Statistics
Matches: 90, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
24 2 0.02
25 13 0.14
26 6 0.07
27 23 0.26
28 12 0.13
29 12 0.13
30 10 0.11
31 11 0.12
32 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAAAAATTATAATAATAATAAATAA
Found at i:16806548 original size:17 final size:17
Alignment explanation
Indices: 16806528--16806658 Score: 59
Period size: 17 Copynumber: 7.9 Consensus size: 17
16806518 AAAATTATAC
16806528 ATAATAATAAATAATAA
1 ATAATAATAAATAATAA
*
16806545 ATAAT--TATATAATATA
1 ATAATAATAAATAATA-A
16806561 A-AATAATATAATGAAT-A
1 ATAATAATA-AAT-AATAA
* *
16806578 ATATATAATAAAATGATAT
1 ATA-ATAAT-AAATAATAA
*
16806597 ATAAT-A-AAATGTATAA
1 ATAATAATAAAT-AATAA
*
16806613 ATAA-AATATATAAT-A
1 ATAATAATAAATAATAA
* *
16806628 A-AAT-ATGAATAATAC
1 ATAATAATAAATAATAA
16806643 ATAGATAA-AAATAATA
1 ATA-ATAATAAATAATA
16806659 TATATATGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 34
0.65 0.09 0.26
Matches are distributed among these distances:
14 9 0.11
15 18 0.21
16 13 0.15
17 22 0.26
18 8 0.09
19 14 0.16
20 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (17 bp):
ATAATAATAAATAATAA
Found at i:16806558 original size:15 final size:14
Alignment explanation
Indices: 16806530--16806662 Score: 88
Period size: 15 Copynumber: 9.8 Consensus size: 14
16806520 AATTATACAT
*
16806530 AATAATAAATAATA
1 AATAATATATAATA
16806544 AATAATTATATAATA
1 AATAA-TATATAATA
*
16806559 TAA-AATAATATAATG
1 -AATAAT-ATATAATA
16806574 AATAATATATAATAA
1 AATAATATATAAT-A
*
16806589 AATGATATATAAT-
1 AATAATATATAATA
*
16806602 AA-AATGTATAA-A
1 AATAATATATAATA
16806614 TAA-AATATATAAT-
1 -AATAATATATAATA
*
16806627 AA-AATAT-GAAT-
1 AATAATATATAATA
*
16806638 AATACATAGATAA-A
1 AATA-ATATATAATA
16806652 AATAATATATA
1 AATAATATATA
16806663 TATGATAATT
Statistics
Matches: 96, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
11 5 0.05
12 15 0.16
13 21 0.22
14 21 0.22
15 32 0.33
16 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (14 bp):
AATAATATATAATA
Found at i:16806600 original size:12 final size:12
Alignment explanation
Indices: 16806518--16806633 Score: 81
Period size: 14 Copynumber: 8.6 Consensus size: 12
16806508 ATTTTTTTAA
16806518 AAAAT-TATACAT
1 AAAATATATA-AT
*
16806530 AATAATAAATAAT
1 AA-AATATATAAT
16806543 AAATAATTATATAATAT
1 -AA-AA-TATAT-A-AT
16806560 AAAATAATATAAT
1 AAAAT-ATATAAT
16806573 GAATAATATATAAT
1 -AA-AATATATAAT
16806587 AAAATGATATATAAT
1 -AAA--ATATATAAT
*
16806602 AAAATGTATAAAT
1 AAAATATAT-AAT
16806615 AAAATATATAAT
1 AAAATATATAAT
16806627 AAAATAT
1 AAAATAT
16806634 GAATAATACA
Statistics
Matches: 87, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
12 17 0.20
13 19 0.22
14 24 0.28
15 22 0.25
16 3 0.03
17 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:16806650 original size:25 final size:23
Alignment explanation
Indices: 16806551--16806660 Score: 58
Period size: 25 Copynumber: 4.2 Consensus size: 23
16806541 ATAAATAATT
*
16806551 ATATAATATAAAATAATATAATGAATA
1 ATATAA-ATAAAAT-AGATAAT-AA-A
*
16806578 ATATATAATAAAATGATATATAATAAA
1 ATATA-AAT-AAA--ATAGATAATAAA
*
16806605 ATGTATAAATAAAATATATAATAAA
1 A--TATAAATAAAATAGATAATAAA
* *
16806630 ATATGAATAATACATAGATAAAAATA
1 ATATAAATAA-A-ATAGATAATAA-A
16806656 ATATA
1 ATATA
16806661 TATATGATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
23 8 0.11
24 1 0.01
25 22 0.31
26 5 0.07
27 12 0.17
28 9 0.13
29 11 0.16
30 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.32
Consensus pattern (23 bp):
ATATAAATAAAATAGATAATAAA
Found at i:16806655 original size:40 final size:40
Alignment explanation
Indices: 16806577--16806664 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
16806567 TATAATGAAT
*
16806577 AATATATAATAAAATGATATATAATAAAATGTATAAATAA
1 AATATATAATAAAATGATATATAATAAAATGTAAAAATAA
*
16806617 AATATATAATAAAAT-ATGA-ATAAT-ACATAGATAAAAATAA
1 AATATATAATAAAATGAT-ATATAATAAAAT-G-TAAAAATAA
*
16806657 TATATATA
1 AATATATA
16806665 TGATAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.07
39 8 0.19
40 31 0.74
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (40 bp):
AATATATAATAAAATGATATATAATAAAATGTAAAAATAA
Found at i:16806659 original size:38 final size:41
Alignment explanation
Indices: 16806518--16806662 Score: 119
Period size: 42 Copynumber: 3.6 Consensus size: 41
16806508 ATTTTTTTAA
* * *
16806518 AAAAT-TATACATAATAATAAATAAT-AAATAATTATATAATAT
1 AAAATGTATAAATAATAATATATAATAAAATGA-TATAT-A-AT
*
16806560 AAAAT-AATATAATGAATAATATATAATAAAATGATATATAAT
1 AAAATGTATA-AAT-AATAATATATAATAAAATGATATATAAT
16806602 AAAATGTATAAATAA-AATATATAATAAAAT-ATGA-ATAAT
1 AAAATGTATAAATAATAATATATAATAAAATGAT-ATATAAT
*
16806641 -ACATAG-ATAAA-AATAATATATA
1 AAAAT-GTATAAATAATAATATATA
16806663 TATGATAATT
Statistics
Matches: 90, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 8 0.09
40 16 0.18
41 2 0.02
42 18 0.20
43 6 0.07
44 17 0.19
45 5 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (41 bp):
AAAATGTATAAATAATAATATATAATAAAATGATATATAAT
Found at i:16806759 original size:25 final size:25
Alignment explanation
Indices: 16806699--16806752 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
16806689 ATTTATAGTA
* * *
16806699 AAAATAAATAATATTTAAAATATTT
1 AAAATAAATTATATATAAAAAATTT
16806724 AAAATAAATTATATATAAAAAATTT
1 AAAATAAATTATATATAAAAAATTT
16806749 AAAA
1 AAAA
16806753 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATAAATTATATATAAAAAATTT
Found at i:16823844 original size:27 final size:27
Alignment explanation
Indices: 16823806--16823860 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16823796 CCTCTGCACC
16823806 AGACATCATTACTGGTACATTTTCTCT
1 AGACATCATTACTGGTACATTTTCTCT
16823833 AGACATCATTACTGGTACATTTTCTCT
1 AGACATCATTACTGGTACATTTTCTCT
16823860 A
1 A
16823861 CTTGATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
AGACATCATTACTGGTACATTTTCTCT
Found at i:16823978 original size:35 final size:35
Alignment explanation
Indices: 16823932--16824009 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
16823922 ATTTAGTGTT
*
16823932 TGTTAAAAATTTACCTATTGAATTCACTGAATTTC
1 TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
* *
16823967 TGTTAAAAATTTACTTATAGAATTCACTGAATTTG
1 TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
16824002 TGGTTAAA
1 T-GTTAAA
16824010 GTTTTAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 33 0.85
36 6 0.15
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (35 bp):
TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
Found at i:16825749 original size:30 final size:30
Alignment explanation
Indices: 16825713--16825773 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16825703 CATCATGCTC
16825713 ATAGTACTAAAGTAGGCATAAACACAACTT
1 ATAGTACTAAAGTAGGCATAAACACAACTT
16825743 ATAGTACTAAAGTAGGCATAAACACAACTT
1 ATAGTACTAAAGTAGGCATAAACACAACTT
16825773 A
1 A
16825774 CTCATCAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (30 bp):
ATAGTACTAAAGTAGGCATAAACACAACTT
Found at i:16834158 original size:19 final size:19
Alignment explanation
Indices: 16834134--16834171 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16834124 TACAGAATCG
16834134 TATCATATCTAAGATTACA
1 TATCATATCTAAGATTACA
*
16834153 TATCATATCTAAGGTTACA
1 TATCATATCTAAGATTACA
16834172 CATTTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TATCATATCTAAGATTACA
Found at i:16838619 original size:21 final size:21
Alignment explanation
Indices: 16838595--16838634 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16838585 GTAGATTAGT
* *
16838595 TATTGTAGCGATAAGATTAAA
1 TATTGCAGCAATAAGATTAAA
*
16838616 TATTGCAGCAATGAGATTA
1 TATTGCAGCAATAAGATTA
16838635 GAAACAACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (21 bp):
TATTGCAGCAATAAGATTAAA
Found at i:16838905 original size:33 final size:34
Alignment explanation
Indices: 16838868--16838931 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
16838858 AATTAATTAT
16838868 ATAATCAATTTAAAT-TATTTAT-TAGATAAAATG
1 ATAATCAATTTAAATATATTTATATA-ATAAAATG
* * *
16838901 ATAATTATTTTAATTATATTTATATAATAAA
1 ATAATCAATTTAAATATATTTATATAATAAA
16838932 TAAAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 12 0.46
34 12 0.46
35 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (34 bp):
ATAATCAATTTAAATATATTTATATAATAAAATG
Found at i:16838962 original size:54 final size:56
Alignment explanation
Indices: 16838847--16838972 Score: 138
Period size: 56 Copynumber: 2.3 Consensus size: 56
16838837 ATATTTTATT
* * **
16838847 ATAAATATTTTAATTA-A-TTATATAATCAATTTAAATTATTTATTAGATAAAATG
1 ATAATTATTTTAATTATATTTATATAATAAATAAAAATTATTTATTAGATAAAATG
* * *
16838901 ATAATTATTTTAATTATATTTATATAATAAATAAAAATTGTATTGTTA-ATAATATG
1 ATAATTATTTTAATTATATTTATATAATAAATAAAAATTAT-TTATTAGATAAAATG
16838957 -T-ATTATTTT-ATTATAT
1 ATAATTATTTTAATTATAT
16838973 AATAAATACA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
53 7 0.11
54 23 0.37
55 2 0.03
56 25 0.40
57 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (56 bp):
ATAATTATTTTAATTATATTTATATAATAAATAAAAATTATTTATTAGATAAAATG
Found at i:16844453 original size:2 final size:2
Alignment explanation
Indices: 16844446--16844477 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16844436 GAAAGCAAGC
16844446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16844478 CATGGAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16855264 original size:48 final size:47
Alignment explanation
Indices: 16855211--16855532 Score: 189
Period size: 48 Copynumber: 6.8 Consensus size: 47
16855201 TTATGAAAGC
*
16855211 CAGTGTAAGACCATGGCTGGGACATGGCATCGGCATTGAGACGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-GAGAGT
* * ** *
16855258 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGAC-TACAG-GATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGA-GAGT
* *
16855303 CAGTGTAAGACCATGTCTGGGACATAGCATCGGCACGTAT-AGAG-GTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGAGAGAGT
* ** * * ** * *
16855351 CAATGTAAGACCATGTCTATGATATTGCATCGGCACGGATATATGAAAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--AGA-GAGAGT
* * ** *
16855400 CTAGTGTAAGACCATGCCTGGGACATGGCGTCGGC-TTCGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GA--GAGAGAGT
* * *
16855450 CAGTGTAAGACCATGTCTGAGACATGGCATCGAC-TTGATG-GATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAGA-GAGT
* *
16855497 CAGTGTAAGACTATGTCTTGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
16855533 CATACCCTAT
Statistics
Matches: 212, Mismatches: 41, Indels: 43
0.72 0.14 0.15
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 17 0.08
46 16 0.08
47 46 0.22
48 49 0.23
49 40 0.19
50 31 0.15
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGAGAGT
Found at i:16855279 original size:47 final size:46
Alignment explanation
Indices: 16855164--16855336 Score: 138
Period size: 46 Copynumber: 3.7 Consensus size: 46
16855154 TATTTGTGTA
* * *
16855164 CTAGTGTAAGACATGTTTGGGACATGCATCAGCTACATTATGAAAG
1 CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATGACGAAAG
* ** ** *
16855210 CCAGTGTAAGACCATGGCTGGGACATGGCATCGGCATTGA-GACGAGAG
1 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TACATGACGAAAG
* * * *
16855258 CTAGTGTAAGACATGTTTGGGACATGCATCGACTACAGGATG--TG
1 CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATGACGAAAG
*
16855302 -TCAGTGTAAGACCATGTCTGGGACATAGCATCGGC
1 CT-AGTGTAAGA-CATGTTTGGGACAT-GCATCGGC
16855337 ACGTATAGAG
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 15 0.15
46 27 0.27
47 24 0.24
48 22 0.22
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACATGACGAAAG
Found at i:16855361 original size:92 final size:93
Alignment explanation
Indices: 16855168--16855337 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 93
16855158 TGTGTACTAG
**
16855168 TGTAAGACATGTTTGGGACATGCATCAGCTACATTATGAAAGCCAGTGTAAGACCATGGCTGGGA
1 TGTAAGACATGTTTGGGACATGCATCAGCTACAGGATG-AAGCCAGTGTAAGACCATGGCTGGGA
* *
16855233 CATGGCATCGGCATTGAGACGAGAGCTAG
65 CATAGCATCGGCATTGAGACGAGAGCTAA
* * *
16855262 TGTAAGACATGTTTGGGACATGCATC-GACTACAGGATG-TGTCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTTTGGGACATGCATCAG-CTACAGGATGAAGCCAGTGTAAGACCATGGCTGGGA
16855325 CATAGCATCGGCA
65 CATAGCATCGGCA
16855338 CGTATAGAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 34 0.49
93 1 0.01
94 34 0.49
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
TGTAAGACATGTTTGGGACATGCATCAGCTACAGGATGAAGCCAGTGTAAGACCATGGCTGGGAC
ATAGCATCGGCATTGAGACGAGAGCTAA
Found at i:16858716 original size:43 final size:43
Alignment explanation
Indices: 16858668--16858753 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
16858658 ATCACATGTA
* **
16858668 TTGCATCCATTATGAACTTGGACCACTCAACAAGCTCGGATGC
1 TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
*
16858711 TTGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
16858754 CACGTATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
Found at i:16865432 original size:21 final size:19
Alignment explanation
Indices: 16865406--16865448 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
16865396 TTTAACTAGT
16865406 TCAAAACAAGATCAAATACAA
1 TCAAAACAAG-TCAAA-ACAA
*
16865427 TCAAAACATGTCAAAACAA
1 TCAAAACAAGTCAAAACAA
16865446 TCA
1 TCA
16865449 TCCTAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (19 bp):
TCAAAACAAGTCAAAACAA
Found at i:16867524 original size:8 final size:8
Alignment explanation
Indices: 16867511--16867555 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
16867501 TTATGTTTAA
16867511 TATATTAT
1 TATATTAT
16867519 TATATTAT
1 TATATTAT
16867527 TATATTAT
1 TATATTAT
*
16867535 TATATGAT
1 TATATTAT
16867543 TATATTAT
1 TATATTAT
16867551 TATAT
1 TATAT
16867556 AATAAAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:16868889 original size:15 final size:15
Alignment explanation
Indices: 16868869--16868925 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
16868859 CGATGAATTT
16868869 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
16868884 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
16868899 ATTGAATTTATATTG
1 ATTGAATTTATATTG
16868914 ATTGAA-TTATAT
1 ATTGAATTTATAT
16868926 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:16869335 original size:23 final size:23
Alignment explanation
Indices: 16869309--16869383 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
16869299 AGACACTTTA
16869309 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
16869332 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
16869353 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
16869374 TGTGTCGTAT
1 TGTGTCGTAT
16869384 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:16870505 original size:12 final size:12
Alignment explanation
Indices: 16870488--16870517 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16870478 ACAGTTCTCA
16870488 TTCTTTTCTTCT
1 TTCTTTTCTTCT
*
16870500 TTCTTTTTTTCT
1 TTCTTTTCTTCT
16870512 TTCTTT
1 TTCTTT
16870518 CTTTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTCTTCT
Found at i:16870517 original size:16 final size:15
Alignment explanation
Indices: 16870491--16870522 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16870481 GTTCTCATTC
16870491 TTTTCTTCTTTCTTT
1 TTTTCTTCTTTCTTT
16870506 TTTTCTTTCTTTCTTT
1 TTTTC-TTCTTTCTTT
16870522 T
1 T
16870523 CTTAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTCTTTCTTT
Found at i:16874659 original size:20 final size:20
Alignment explanation
Indices: 16874634--16874676 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16874624 GTAAATTGAT
16874634 AATCACTCACTAGTAAAGTG
1 AATCACTCACTAGTAAAGTG
16874654 AATCACTCACTAGTAAAGTG
1 AATCACTCACTAGTAAAGTG
16874674 AAT
1 AAT
16874677 AGCTAGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (20 bp):
AATCACTCACTAGTAAAGTG
Found at i:16875141 original size:22 final size:21
Alignment explanation
Indices: 16875116--16875156 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
16875106 TTTATTTTAA
16875116 AAATA-TAAAAAGAATGAAAAAT
1 AAATATTAAAAA-AAT-AAAAAT
16875138 AAATATTAAAAAAATAAAA
1 AAATATTAAAAAAATAAAA
16875157 TTATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATATTAAAAAAATAAAAAT
Found at i:16875159 original size:14 final size:16
Alignment explanation
Indices: 16875132--16875164 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16875122 AAAAAGAATG
16875132 AAAAATAAATATTA-A
1 AAAAATAAATATTATA
16875147 AAAAATAAA-ATTATA
1 AAAAATAAATATTATA
16875162 AAA
1 AAA
16875165 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAATATTATA
Found at i:16875297 original size:23 final size:24
Alignment explanation
Indices: 16875270--16875316 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16875260 TTCATTTTGG
16875270 ATATAAT-TTTAAAATTATAAAAA
1 ATATAATATTTAAAATTATAAAAA
* *
16875293 ATATACTATTTAAAATTGTAAAAA
1 ATATAATATTTAAAATTATAAAAA
16875317 TATTATGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAATATTTAAAATTATAAAAA
Found at i:16876610 original size:15 final size:16
Alignment explanation
Indices: 16876584--16876617 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
16876574 TTTACATATT
16876584 TTTTATATTTTTTTAA
1 TTTTATATTTTTTTAA
16876600 TTTTA-ATTTTTTTAA
1 TTTTATATTTTTTTAA
16876615 TTT
1 TTT
16876618 AATAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATATTTTTTTAA
Found at i:16889650 original size:39 final size:40
Alignment explanation
Indices: 16889572--16889750 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
16889562 TTTGGATGAC
*
16889572 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
16889612 ATCCGGGCTAAGTCCCAAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
16889651 ATCCGGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
16889691 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
16889731 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
16889751 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 52 0.41
40 74 0.58
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:16889703 original size:79 final size:80
Alignment explanation
Indices: 16889572--16889750 Score: 274
Period size: 79 Copynumber: 2.3 Consensus size: 80
16889562 TTTGGATGAC
*
16889572 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCA-T
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATT
*
16889636 TGTGCTAG-TGACTAT
66 TGTGCGAGTTG-CTAT
* * *
16889651 ATCCGGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATT
16889716 TGTGCGAGTTGCTAT
66 TGTGCGAGTTGCTAT
*
16889731 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
16889751 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 73 0.80
80 16 0.18
81 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATT
TGTGCGAGTTGCTAT
Found at i:16891365 original size:36 final size:36
Alignment explanation
Indices: 16891318--16891436 Score: 175
Period size: 36 Copynumber: 3.3 Consensus size: 36
16891308 ATATTCCAAT
*
16891318 CGAAACACACCAGATGCTCATAAAAGCTAATCCATC
1 CGAAACACACCAGATGCTCATAAGAGCTAATCCATC
*
16891354 CGAAACACACCAGATGCTCATAAGAGTTAATCCATC
1 CGAAACACACCAGATGCTCATAAGAGCTAATCCATC
* * * *
16891390 CGAAACACACCAAATGCTCATACGAGCCAGTCCATC
1 CGAAACACACCAGATGCTCATAAGAGCTAATCCATC
16891426 CGATAACACAC
1 CGA-AACACAC
16891437 TAATGGATCT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
36 68 0.91
37 7 0.09
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (36 bp):
CGAAACACACCAGATGCTCATAAGAGCTAATCCATC
Found at i:16892123 original size:20 final size:20
Alignment explanation
Indices: 16892100--16892146 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
16892090 CATATAATTA
16892100 TCATCAAAAACAATCGAAAT
1 TCATCAAAAACAATCGAAAT
16892120 TCATCAAAAACAATCGAAAT
1 TCATCAAAAACAATCGAAAT
16892140 TCATCAA
1 TCATCAA
16892147 TGGTAACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.21
Consensus pattern (20 bp):
TCATCAAAAACAATCGAAAT
Found at i:16897729 original size:21 final size:21
Alignment explanation
Indices: 16897705--16897745 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16897695 AAAATATTAA
16897705 TTATAGGTTATAATAATTTTT
1 TTATAGGTTATAATAATTTTT
** *
16897726 TTATATTTTATTATAATTTT
1 TTATAGGTTATAATAATTTT
16897746 CATAAATAAT
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:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATAGGTTATAATAATTTTT
Found at i:16921314 original size:68 final size:68
Alignment explanation
Indices: 16921225--16921374 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 68
16921215 TGTTTTAATT
* * ** ***
16921225 TTAAATTAGCTAACCTTTATAATATCAACTGTGAACATAGGTCAGTGAGTTGTTTAGCAGTTGCA
1 TTAAATCAGCTAACCTGTATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCA
16921290 ATC
66 ATC
* * * * * **
16921293 TTAAATCAACTAACCTGTATAATATTAGCTGCAAATATAGGTCAACCAGTTGTTTAGGAGTTGTG
1 TTAAATCAGCTAACCTGTATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCA
16921358 ATC
66 ATC
16921361 TTAAATCAGCTAAC
1 TTAAATCAGCTAAC
16921375 TCAAATAAAC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (68 bp):
TTAAATCAGCTAACCTGTATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCA
ATC
Found at i:16921597 original size:105 final size:105
Alignment explanation
Indices: 16921284--16921674 Score: 509
Period size: 105 Copynumber: 3.8 Consensus size: 105
16921274 TTGTTTAGCA
* * * * * * *
16921284 GTTGCAATCTTAAATCAACTAACCTGTATAATATTAGCTGCAAATATAGGTCAACCAGTTGTTTA
1 GTTGCAATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
*
16921349 GGAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * * * ** *
16921389 GTTACGATCTTAAATCAACTAACCTTTATAATATCAGTTGTGAATGTAGGTTAG--AGCTGTTTA
1 GTTGCAATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
*
16921452 GAAGTTGTGATCTTAAATCAGCTAACTTAAATAAACTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * * * *
16921492 GTTGCAATATTAAATCAACTAACCTTTATAATATCAGCTACGAACGTAGGTTAGCAAGTTGTTTA
1 GTTGCAATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
* *
16921557 GGAGTTGCGATCTTAAATCAGCTAACTCAAATAAACTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * * * *
16921597 GATGCGATCTCAAATCACCTAACCTTTATAATATCAGCTGTGAACATAGGTCA-CAAGCTGTTTA
1 GTTGCAATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
16921661 GAAGTTGTGATCTT
66 GAAGTTGTGATCTT
16921675 CATGTATCAC
Statistics
Matches: 248, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
103 93 0.38
104 22 0.09
105 133 0.54
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (105 bp):
GTTGCAATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
Found at i:16922490 original size:27 final size:27
Alignment explanation
Indices: 16922422--16922500 Score: 108
Period size: 26 Copynumber: 3.0 Consensus size: 27
16922412 ACTAACCTAT
*
16922422 TAATTTAAAATCCTAATTATCTTAACTA
1 TAATTTAAACTCCTAATTATCTTAA-TA
* *
16922450 -AATTAAAACT-CTAATTATCATAATA
1 TAATTTAAACTCCTAATTATCTTAATA
16922475 TAATTTAAACTCCTAATTATCTTAAT
1 TAATTTAAACTCCTAATTATCTTAAT
16922501 CTACACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTTAAACTCCTAATTATCTTAATA
Found at i:16923399 original size:44 final size:44
Alignment explanation
Indices: 16923349--16923439 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
16923339 AACTTTGTTT
* * * *
16923349 TTAGTTTCTCATTTAAACTCTGATTAGTATAAGTTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
* *
16923393 TTAGTTTCCCACTTAAACCCTGATTAGTGTAGGCTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
16923437 TTA
1 TTA
16923440 TTTGATCTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
Found at i:16926271 original size:2 final size:2
Alignment explanation
Indices: 16926264--16926301 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16926254 ATAATTTAGA
16926264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16926302 GAAAGTGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16927240 original size:26 final size:26
Alignment explanation
Indices: 16927211--16927264 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
16927201 ACATTTGGTA
* *
16927211 TTAAATAAAACGATGTGTTTTTATGT
1 TTAAATAAAACGATGCGTTTTAATGT
* *
16927237 TTAAGTAAAACGGTGCGTTTTAATGT
1 TTAAATAAAACGATGCGTTTTAATGT
16927263 TT
1 TT
16927265 TTAAGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (26 bp):
TTAAATAAAACGATGCGTTTTAATGT
Found at i:16931630 original size:263 final size:263
Alignment explanation
Indices: 16931162--16931690 Score: 880
Period size: 263 Copynumber: 2.0 Consensus size: 263
16931152 ACCTGTTTTC
* * *
16931162 ATGGCCATCCTATGTTCACCATCTGAAAGAGTGTTCTGGCTCTAGTACTATATAATAGTCCGGTT
1 ATGGCCATCCTATGCTCACCATCTGAAAGAGCGTTCTGGCTCTAGTAC-ATATAACAGTCCGGTT
* * * * *
16931227 TAGACCCTAGTTGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAATATTTTAATATTATT
65 TAGACCCTAGTTGAAATAGTGGTTTCAAGACAAAAAATCTAAGTCAAAAATATTTTAATATTATT
* * *
16931292 TTTCGTGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTTGTATGAAAATTTAATCGTTTGCG
130 TTCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCG
*
16931357 TGCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTACTGCTTGTTAAAGTG
195 TGCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTACTGCTTGTTAAAGTA
16931422 CTTA
260 CTTA
16931426 ATGGCCATCCTATGCTCACCATCTGAAAGAGCGTTCTGGCTCTAGTAC-TATAACAGTCCGGTTT
1 ATGGCCATCCTATGCTCACCATCTGAAAGAGCGTTCTGGCTCTAGTACATATAACAGTCCGGTTT
*
16931490 AGACCCTAGTTGAAATAGTGGTTTCAAGATAAAAAATCTAAGTCAAAAAATATTTTAATATTATT
66 AGACCCTAGTTGAAATAGTGGTTTCAAGACAAAAAATCTAAGTC-AAAAATATTTTAATATTATT
* *
16931555 TTCCATGCTTATGATATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGTG
130 TTCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCG
* *
16931620 TGCTCAATTTGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTA
195 TGCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTACTGCTTGTTAAAGTA
16931685 CTTA
260 CTTA
16931689 AT
1 AT
16931691 TGATTTGTCT
Statistics
Matches: 247, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
262 53 0.21
263 148 0.60
264 46 0.19
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (263 bp):
ATGGCCATCCTATGCTCACCATCTGAAAGAGCGTTCTGGCTCTAGTACATATAACAGTCCGGTTT
AGACCCTAGTTGAAATAGTGGTTTCAAGACAAAAAATCTAAGTCAAAAATATTTTAATATTATTT
TCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCGT
GCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTACTGCTTGTTAAAGTAC
TTA
Found at i:16932850 original size:43 final size:42
Alignment explanation
Indices: 16932706--16932858 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
16932696 TGTGTTATAG
* * * *
16932706 TGTAAGACCACGTCTGGGACATTGGCATC-TACTTAAGTTTTATA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTA-TT-TG-ATTACA
* * *
16932750 TGTAAGACCACGTCTGGGA-AGTTAGCATCGTACTTGATTTCA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGTATTTGATTACA
* *
16932792 TGTAAGACTC-TGTCTGAGACAGTGGCATCGATATTTGATTACA
1 TGTAAGAC-CACGTCTGGGACAGTGGCATCG-TATTTGATTACA
16932835 TGTAAGACCACGTCTGGGAC-GTGG
1 TGTAAGACCACGTCTGGGACAGTGG
16932859 GCATTGTACG
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 30 0.34
43 31 0.35
44 26 0.29
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:16963914 original size:31 final size:31
Alignment explanation
Indices: 16963879--16963943 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
16963869 CCATTCTGTG
* *
16963879 TATGAACATGAGCTGCATGATGTTCAACTTT
1 TATGAACATGAACTACATGATGTTCAACTTT
16963910 TATGAACATGAACTACATGATGTTCAACTTT
1 TATGAACATGAACTACATGATGTTCAACTTT
16963941 TAT
1 TAT
16963944 CCTAATTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (31 bp):
TATGAACATGAACTACATGATGTTCAACTTT
Found at i:16964564 original size:35 final size:35
Alignment explanation
Indices: 16964523--16964593 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
16964513 TCTTTCCACA
16964523 TTTTACATTTGTAATATATAGATATTCAATATTTT
1 TTTTACATTTGTAATATATAGATATTCAATATTTT
*
16964558 TTTTACATTTGTAATATATAGATATTTAATATTTT
1 TTTTACATTTGTAATATATAGATATTCAATATTTT
16964593 T
1 T
16964594 CTCATTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (35 bp):
TTTTACATTTGTAATATATAGATATTCAATATTTT
Found at i:16967452 original size:11 final size:11
Alignment explanation
Indices: 16967438--16967468 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
16967428 TTAAGTATTT
16967438 TTTAAAAATTA
1 TTTAAAAATTA
16967449 TTTAAAAATTA
1 TTTAAAAATTA
16967460 TTTAAAAAT
1 TTTAAAAAT
16967469 ATTAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:16970021 original size:12 final size:12
Alignment explanation
Indices: 16970004--16970034 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
16969994 TTCAAGAAGA
16970004 TTTTCTCTTTAT
1 TTTTCTCTTTAT
16970016 TTTTCTCTTTAT
1 TTTTCTCTTTAT
16970028 TTTTCTC
1 TTTTCTC
16970035 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTCTTTAT
Found at i:16972561 original size:22 final size:22
Alignment explanation
Indices: 16972523--16972588 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
16972513 TCAACTGTTG
16972523 TTTGTTGTTG-TTTGTTGCCAT
1 TTTGTTGTTGTTTTGTTGCCAT
16972544 TTTGTTGTTGTTTTGTTGCCAT
1 TTTGTTGTTGTTTTGTTGCCAT
* * *
16972566 TGTGCTGTTGTTTTGTTGTCAT
1 TTTGTTGTTGTTTTGTTGCCAT
16972588 T
1 T
16972589 GTTTGGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 10 0.24
22 31 0.76
ACGTcount: A:0.05, C:0.09, G:0.24, T:0.62
Consensus pattern (22 bp):
TTTGTTGTTGTTTTGTTGCCAT
Found at i:16972764 original size:13 final size:12
Alignment explanation
Indices: 16972727--16972768 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
16972717 TTGTTAGAAA
16972727 ATATTTATT-TT
1 ATATTTATTATT
16972738 AATATTT-TTATT
1 -ATATTTATTATT
16972750 ATATTTATGTATT
1 ATATTTAT-TATT
16972763 ATATTT
1 ATATTT
16972769 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.30
12 9 0.33
13 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:16975567 original size:26 final size:28
Alignment explanation
Indices: 16975512--16975570 Score: 104
Period size: 26 Copynumber: 2.2 Consensus size: 28
16975502 GGTTTAACTA
16975512 AAATAATATTGAATTAGAGAAATATATT
1 AAATAATATTGAATTAGAGAAATATATT
16975540 AAATAA-ATTGAATTAGA-AAATATATT
1 AAATAATATTGAATTAGAGAAATATATT
16975566 AAATA
1 AAATA
16975571 TGAATGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 14 0.45
27 11 0.35
28 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (28 bp):
AAATAATATTGAATTAGAGAAATATATT
Found at i:16975593 original size:17 final size:17
Alignment explanation
Indices: 16975567--16975609 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
16975557 AAATATATTA
* *
16975567 AATATGAATGAATGTAC
1 AATATTAATGAATATAC
16975584 AATATTAATGAATATAC
1 AATATTAATGAATATAC
16975601 AATATTAAT
1 AATATTAAT
16975610 TTATCTCTTA
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:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (17 bp):
AATATTAATGAATATAC
Found at i:16975822 original size:2 final size:2
Alignment explanation
Indices: 16975815--16975848 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16975805 CAGGTAATAA
16975815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16975849 TATTTTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16988516 original size:64 final size:64
Alignment explanation
Indices: 16988435--16988618 Score: 169
Period size: 67 Copynumber: 2.8 Consensus size: 64
16988425 AGACATTATG
* * *
16988435 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16988499 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGCAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGAGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
16988563 TAA
62 TAA
* * * *
16988566 AT-TGGCTAGGTCACATGAGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGAGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
16988619 CGAACTCTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16992346 original size:46 final size:46
Alignment explanation
Indices: 16992275--16992443 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
16992265 AACCCGCCCC
* *
16992275 TAAGTGAACTCGGACTCAACACAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
16992321 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
16992369 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
16992414 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
16992444 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.55
47 27 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:16992395 original size:93 final size:93
Alignment explanation
Indices: 16992280--16992450 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16992270 GCCCCTAAGT
* *
16992280 GAACTCGGACTCAACACAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
16992345 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
16992373 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
16992438 CGAGTTTGGATGC
66 CGAGTTCGGATGC
16992451 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:17002570 original size:44 final size:43
Alignment explanation
Indices: 17002488--17002590 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
17002478 TCCTAGATAG
* *
17002488 GGTCTTACACGAAATC-AAATGCGATGCCGATATCCCAGACAA
1 GGTCTTACACGAAAACAAAATGCGATGCCGAAATCCCAGACAA
* * **
17002530 GGTCTTACACGTAAAACAAAATTCGATGCC-AAAGTTCCAGACGT
1 GGTCTTACACG-AAAACAAAATGCGATGCCGAAA-TCCCAGACAA
*
17002574 GGTCTTAAACGAAAACA
1 GGTCTTACACGAAAACA
17002591 CATATCGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 11 0.22
43 12 0.24
44 28 0.55
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (43 bp):
GGTCTTACACGAAAACAAAATGCGATGCCGAAATCCCAGACAA
Found at i:17010482 original size:2 final size:2
Alignment explanation
Indices: 17010475--17010504 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17010465 GCTCTTGCAC
17010475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17010505 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17011368 original size:79 final size:79
Alignment explanation
Indices: 17011214--17011436 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
17011204 TCGAATGATG
* * * * *
17011214 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTCGTGC-GAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
*
17011278 CGTGCGAGTTACTAAT
64 CGTGCGAGTTACTAAA
*
17011294 TCTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTA-ATTCCGGGCTAAGTCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATT
*
17011357 GGTGCGAGTTACTAAA
64 CGTGCGAGTTACTAAA
** * * *
17011373 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATT
17011437 TGAACGAGTA
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.56
80 46 0.37
81 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTCG
TGCGAGTTACTAAA
Found at i:17011437 original size:40 final size:38
Alignment explanation
Indices: 17011214--17011438 Score: 245
Period size: 40 Copynumber: 5.7 Consensus size: 38
17011204 TCGAATGATG
* *
17011214 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
* *
17011254 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* * *
17011293 TTCTGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
*
17011333 TTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AA
*
17011373 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-A
* *
17011413 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
17011439 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 37 0.22
40 122 0.73
41 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:17011457 original size:119 final size:120
Alignment explanation
Indices: 17011214--17011445 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
17011204 TCGAATGATG
* *
17011214 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
* * **
17011279 GTGCGAGTTACTAATTCTGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAT
66 GTGCGAGTTACTAATACCGGACTAAGATCCGAAGGCATTCGAACGAGTTACTAAT
* * **
17011334 TCCGGGCTAAGT-CCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
17011396 TTGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
64 TCGTGCGAGTTACTAAT-ACCGGACTAAGAT-CCGAAGGCATTCGAACGAGT
17011446 AGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
118 4 0.04
119 72 0.77
120 18 0.19
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAATACCGGACTAAGATCCGAAGGCATTCGAACGAGTTACTAAT
Found at i:17011460 original size:79 final size:79
Alignment explanation
Indices: 17011214--17011471 Score: 213
Period size: 79 Copynumber: 3.3 Consensus size: 79
17011204 TCGAATGATG
* * * * * *
17011214 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTCGTGC-GAGTTACTAATA-CCGGGCTAAG-TCCGAAGGCAT
* ** *
17011277 TCGTGCGAGTTACTAAT
63 TGGAACGAGTTACTAAA
* ** *
17011294 TCTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGTCCGAAGGCATTG
1 TCCGGGTTAA-ATCCCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTG
**
17011358 GTGCGAGTTACTAAA
65 GAACGAGTTACTAAA
* * *
17011373 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATT
* *
17011437 TGAACGAG-TAGCTATA
64 GGAACGAGTTA-CTAAA
*
17011453 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
17011472 TACGTGATTC
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.02
79 82 0.55
80 54 0.36
81 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGG
AACGAGTTACTAAA
Found at i:17017334 original size:39 final size:39
Alignment explanation
Indices: 17017244--17017466 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 39
17017234 TCGAATGATG
* *
17017244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
17017284 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
17017323 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
17017362 TTCCGGGCTAAGT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
17017401 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
17017441 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17017467 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
38 25 0.15
39 61 0.37
40 73 0.44
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Done.