Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 47 of 335
Found at i:17032415 original size:238 final size:243
Alignment explanation
Indices: 17031966--17032450 Score: 782
Period size: 238 Copynumber: 2.0 Consensus size: 243
17031956 TGAAGGGATC
*
17031966 CATGAAATGCTACGACTTATGCACGACCACCTTCTACGGCCGAGGTGGGTTACATTAGATGAAAT
1 CATGAAATGCTACGACTTATGCACGACCACCTTCTACGACCGAGGTGGGTTACATTAGATGAAAT
*
17032031 TTGACCACCTAAATGTATCTTTACTCACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGC
66 TTGACCACCTAAATGTACCTTTACT-ACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGC
* * *
17032096 AGTTTTTTTATGTCATCTAGGTTTTGGTTCACACAGCAGTCAAAATTCGCTGACTGTAGGCATCT
130 AGTTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCCGACTGTAGGCATCT
17032161 TGTGATGATCGACAGTGT-AAACTAACTGTCCACAAACTACACATACTT
195 TGTGATGATCGACAGTGTAAAACTAACTGTCCACAAACTACACATACTT
* * *
17032209 CATGAAATGCTACGACTTATGCACTACCACCTTCTACGACTGAGGTGGGTTACGTTAGATGAAA-
1 CATGAAATGCTACGACTTATGCACGACCACCTTCTACGACCGAGGTGGGTTACATTAGATGAAAT
** *
17032273 TTGACCACCTAAATGTACCTTTACT-CGTAGTAGTTGGA-TTGCAAGAAGCTGAAGAAAAATGGA
66 TTGACCACCTAAATGTACCTTTACTACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGCA
*
17032336 G-TTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTGGCCGACTGTAGGCATCTT
131 GTTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCCGACTGTAGGCATCTT
* * * *
17032400 TTGATGGTCGACAGTGTAAAACTAACTGTCCACAAACTACCCATAGTT
196 GTGATGATCGACAGTGTAAAACTAACTGTCCACAAACTACACATACTT
17032448 CAT
1 CAT
17032451 TATATTGCTA
Statistics
Matches: 225, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
238 74 0.33
239 56 0.25
240 11 0.05
242 24 0.11
243 60 0.27
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (243 bp):
CATGAAATGCTACGACTTATGCACGACCACCTTCTACGACCGAGGTGGGTTACATTAGATGAAAT
TTGACCACCTAAATGTACCTTTACTACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGCA
GTTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCCGACTGTAGGCATCTT
GTGATGATCGACAGTGTAAAACTAACTGTCCACAAACTACACATACTT
Found at i:17032807 original size:9 final size:9
Alignment explanation
Indices: 17032792--17032823 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17032782 TTGAATCTCT
17032792 CTTCTTCTG
1 CTTCTTCTG
*
17032801 TTTCTTCTG
1 CTTCTTCTG
17032810 CTTCTTCTG
1 CTTCTTCTG
17032819 CTTCT
1 CTTCT
17032824 CTTTTTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.09, T:0.59
Consensus pattern (9 bp):
CTTCTTCTG
Found at i:17044836 original size:106 final size:108
Alignment explanation
Indices: 17044714--17044920 Score: 364
Period size: 107 Copynumber: 1.9 Consensus size: 108
17044704 TAAATAAAAA
17044714 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAAT-AAGTTTAAATAATAAAATTTCAAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAAGTTTAAATAATAAAATTTCAAACAA
*
17044778 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAATTTTTTT
66 AATTGTATTAAAACTTTTGTTAATTACTCTGATAAATTTTTTT
* * *
17044820 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAATTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAAGTTTAAATAATAAAATTTCAAACAA
17044885 AATTGTATTAAAACTTTTGTTAATTACTCTGATAAA
66 AATTGTATTAAAACTTTTGTTAATTACTCTGATAAA
17044921 ATATTTGACG
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
106 36 0.38
107 54 0.57
108 5 0.05
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAAGTTTAAATAATAAAATTTCAAACAA
AATTGTATTAAAACTTTTGTTAATTACTCTGATAAATTTTTTT
Found at i:17045662 original size:14 final size:15
Alignment explanation
Indices: 17045628--17045664 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
17045618 TAGTTGAGAG
17045628 GAATGAAAATTAAAAT
1 GAAT-AAAATTAAAAT
17045644 G-ATAAAATTAAAA-
1 GAATAAAATTAAAAT
17045657 GAATAAAA
1 GAATAAAA
17045665 ATTTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 16 0.80
15 2 0.10
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (15 bp):
GAATAAAATTAAAAT
Found at i:17045703 original size:22 final size:22
Alignment explanation
Indices: 17045661--17045703 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17045651 TTAAAAGAAT
* *
17045661 AAAAATTTATTATTTACTTTCA
1 AAAAATATATTATATACTTTCA
17045683 AAAAATATATATATATA-TTTC
1 AAAAATATAT-TATATACTTTC
17045704 TTCTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAAATATATTATATACTTTCA
Found at i:17050957 original size:13 final size:13
Alignment explanation
Indices: 17050939--17050964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17050929 TTGAAAATAA
17050939 ATGAAACCAACTT
1 ATGAAACCAACTT
17050952 ATGAAACCAACTT
1 ATGAAACCAACTT
17050965 TGTTATTTAT
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:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
ATGAAACCAACTT
Found at i:17059434 original size:24 final size:25
Alignment explanation
Indices: 17059380--17059436 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
17059370 TTACACAAAT
*
17059380 TAAATTCAAATTAATTAAATTCTAAA
1 TAAA-TCAAATTAATTAAATTATAAA
* *
17059406 AAAATCAAATTAATT-AATTATAGA
1 TAAATCAAATTAATTAAATTATAAA
17059430 TAAATCA
1 TAAATCA
17059437 GATAAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 13 0.48
25 11 0.41
26 3 0.11
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAATCAAATTAATTAAATTATAAA
Found at i:17060172 original size:2 final size:2
Alignment explanation
Indices: 17060161--17060204 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
17060151 GCTGCACTGC
*
17060161 CT CT -T CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT -T
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17060201 CT CT
1 CT CT
17060205 TAGACTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:17068374 original size:26 final size:24
Alignment explanation
Indices: 17068321--17068378 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
17068311 ATTATAAACA
* *
17068321 TTAATTTTTTTTACTTTTCTTTGT
1 TTAATTTTTTTTACTTTTCTTAGG
17068345 TTAATTTTTTGTTGACTTTT-TTAAGG
1 TTAATTTTTT-TT-ACTTTTCTT-AGG
17068371 TTAATTTT
1 TTAATTTT
17068379 AAGTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 10 0.34
25 4 0.14
26 15 0.52
ACGTcount: A:0.17, C:0.05, G:0.09, T:0.69
Consensus pattern (24 bp):
TTAATTTTTTTTACTTTTCTTAGG
Found at i:17071385 original size:44 final size:45
Alignment explanation
Indices: 17071295--17071423 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
17071285 GACAGAACGA
*
17071295 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
17071341 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
17071385 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17071424 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:17074840 original size:21 final size:21
Alignment explanation
Indices: 17074816--17074877 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
17074806 TCATTCGAGT
17074816 TAAAAATTAAAATTTCAAAAA
1 TAAAAATTAAAATTTCAAAAA
* * *
17074837 TAAAAATCAACTATTCCAAAAA
1 TAAAAATTAA-AATTTCAAAAA
* *
17074859 -AAAAA-TAGAATGTCAAAAA
1 TAAAAATTAAAATTTCAAAAA
17074878 ATAGTCAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 8 0.25
20 1 0.03
21 14 0.44
22 9 0.28
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (21 bp):
TAAAAATTAAAATTTCAAAAA
Found at i:17083922 original size:18 final size:17
Alignment explanation
Indices: 17083899--17083948 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
17083889 TTCACTTATG
17083899 TTTTAAAAAATGAATAAA
1 TTTTAAAAAAT-AATAAA
*
17083917 TTTT--AAAATAATATA
1 TTTTAAAAAATAATAAA
17083932 TTTTATAAAAATAATAA
1 TTTTA-AAAAATAATAA
17083949 TTCTTCCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 9 0.33
16 5 0.19
18 13 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTTAAAAAATAATAAA
Found at i:17092106 original size:31 final size:31
Alignment explanation
Indices: 17092059--17092130 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
17092049 AAAACTTATC
* *
17092059 AGTTTAGTGCCTTAAATAAAAAATTTCAAAT
1 AGTTCAGTGACTTAAATAAAAAATTTCAAAT
* * *
17092090 AGTTCAGTGACTTAAATGAAAACTTTCGAAT
1 AGTTCAGTGACTTAAATAAAAAATTTCAAAT
*
17092121 AATTCAGTGA
1 AGTTCAGTGA
17092131 TCATTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (31 bp):
AGTTCAGTGACTTAAATAAAAAATTTCAAAT
Found at i:17092465 original size:15 final size:15
Alignment explanation
Indices: 17092445--17092476 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17092435 CAGAGATGTA
17092445 TTTGGTTCGTTTATC
1 TTTGGTTCGTTTATC
17092460 TTTGGTTCGTTTATC
1 TTTGGTTCGTTTATC
17092475 TT
1 TT
17092477 CACGAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.19, T:0.62
Consensus pattern (15 bp):
TTTGGTTCGTTTATC
Found at i:17098121 original size:18 final size:18
Alignment explanation
Indices: 17098098--17098134 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17098088 AAACAATCAG
17098098 ATAACAACAACAACAATA
1 ATAACAACAACAACAATA
*
17098116 ATAACAACAACAACGATA
1 ATAACAACAACAACAATA
17098134 A
1 A
17098135 AGAAAAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.22, G:0.03, T:0.11
Consensus pattern (18 bp):
ATAACAACAACAACAATA
Found at i:17098134 original size:15 final size:15
Alignment explanation
Indices: 17098098--17098128 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17098088 AAACAATCAG
17098098 ATAACAACAACAACA
1 ATAACAACAACAACA
*
17098113 ATAATAACAACAACA
1 ATAACAACAACAACA
17098128 A
1 A
17098129 CGATAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.23, G:0.00, T:0.10
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:17113087 original size:3 final size:3
Alignment explanation
Indices: 17113079--17113125 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17113069 TTAGTCAAGT
17113079 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17113126 GCATTTTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17139202 original size:2 final size:2
Alignment explanation
Indices: 17139195--17139221 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17139185 TAATTGAATA
17139195 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 A
17139222 AATTTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17153490 original size:9 final size:9
Alignment explanation
Indices: 17153461--17153497 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17153451 TGAATTTTCG
17153461 AATTCGAAT
1 AATTCGAAT
*
17153470 AACTCGAAT
1 AATTCGAAT
17153479 AATTCGAAT
1 AATTCGAAT
*
17153488 AATTCAAAT
1 AATTCGAAT
17153497 A
1 A
17153498 TTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17154740 original size:24 final size:24
Alignment explanation
Indices: 17154708--17154755 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17154698 GAAGTAAGAG
17154708 ACGACAAAGACAATATTATTACAA
1 ACGACAAAGACAATATTATTACAA
17154732 ACGACAAAGACAATATTATTACAA
1 ACGACAAAGACAATATTATTACAA
17154756 GCTTGTTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.08, T:0.21
Consensus pattern (24 bp):
ACGACAAAGACAATATTATTACAA
Found at i:17160179 original size:93 final size:93
Alignment explanation
Indices: 17160067--17160238 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
17160057 GCCCATAAGT
* *
17160067 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17160132 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
17160160 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17160225 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17160239 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17160234 original size:46 final size:46
Alignment explanation
Indices: 17160059--17160234 Score: 230
Period size: 46 Copynumber: 3.8 Consensus size: 46
17160049 TGTAACCCGC
* * * *
17160059 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
* *
17160105 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGTAT
* * *
17160151 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
17160198 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17160235 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
45 2 0.02
46 72 0.65
47 35 0.32
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
Found at i:17160253 original size:46 final size:45
Alignment explanation
Indices: 17160110--17160253 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
17160100 CGCATCCATA
* * *
17160110 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * * *
17160158 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GTATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
17160203 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
17160249 AGTGA
1 AGTGA
17160254 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 37 0.47
47 31 0.40
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:17162630 original size:21 final size:22
Alignment explanation
Indices: 17162578--17162620 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 22
17162568 AGTACTTGAT
17162578 TAAATTAAATTTTATATTATTAGA
1 TAAATT-AA-TTTATATTATTAGA
17162602 TAAATTAATTTA-ATTATTA
1 TAAATTAATTTATATTATTA
17162621 TATTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 2 0.11
24 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAATTAATTTATATTATTAGA
Found at i:17169986 original size:48 final size:48
Alignment explanation
Indices: 17169925--17170054 Score: 233
Period size: 48 Copynumber: 2.7 Consensus size: 48
17169915 TTTCGTCTTT
* *
17169925 ATCAACATAATGAAAGAGTACCCTTTTACCTCAAGGCAATTCTCAGGA
1 ATCAACATCATGAATGAGTACCCTTTTACCTCAAGGCAATTCTCAGGA
17169973 ATCAACATCATGAATGAGTACCCTTTTACCTCAAGGCAATTCTCAGGA
1 ATCAACATCATGAATGAGTACCCTTTTACCTCAAGGCAATTCTCAGGA
*
17170021 ATCAACCTCATGAATGAGTACCCTTTTACCTCAA
1 ATCAACATCATGAATGAGTACCCTTTTACCTCAA
17170055 ATATGAGTAC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (48 bp):
ATCAACATCATGAATGAGTACCCTTTTACCTCAAGGCAATTCTCAGGA
Found at i:17183621 original size:21 final size:21
Alignment explanation
Indices: 17183595--17183646 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
17183585 GCGGTGGCGG
* *
17183595 TGAGATTAGTTACTGTTGCGA
1 TGAGATTAGATACTGTAGCGA
* *
17183616 TGAGATTGGATACTGTAGCGG
1 TGAGATTAGATACTGTAGCGA
17183637 TGAGATTAGA
1 TGAGATTAGA
17183647 AACAGCGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGA
Found at i:17183813 original size:27 final size:28
Alignment explanation
Indices: 17183755--17183813 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
17183745 AATAGAAGTT
* * *
17183755 TTTAAATTATTTTACTTATATAAAATTA
1 TTTAAAATATGTTAATTATATAAAATTA
*
17183783 -TTAAAATATGTTAATT-TATAAATTTA
1 TTTAAAATATGTTAATTATATAAAATTA
17183809 TTTAA
1 TTTAA
17183814 TAAAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTAAAATATGTTAATTATATAAAATTA
Found at i:17189687 original size:3 final size:3
Alignment explanation
Indices: 17189679--17189731 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
17189669 TATACGAACA
*
17189679 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG CAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17189727 AAG AA
1 AAG AA
17189732 ACGAGGCGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17192856 original size:125 final size:126
Alignment explanation
Indices: 17192687--17192931 Score: 438
Period size: 125 Copynumber: 1.9 Consensus size: 126
17192677 AAAAGAAATT
17192687 AAAAGAACTTTAATCAAGCAGCCTTTTATACCTATTGCTTTACAAAAAACTGTGCCTAGGTGCAC
1 AAAAGAACTTTAATCAAGCAGCC-TTTATACCTATTGCTTTACAAAAAACTGTGCCTAGGTGCAC
*
17192752 CAAGAGTGCGCCTGATCAAATGAGTTTGAAGCACTTTTGTTGTCTAGTGCTAAGGAAAACTA
65 CAAGAGTGCGCCTGATCAAATGAGTTTGAAGCACTTTTGTTGCCTAGTGCTAAGGAAAACTA
** *
17192814 AAAAGAACTTTAATCAAGCAGCC-TTATACCTATTGCTTTACAAAAATGTGTGTCTAGGTGCACC
1 AAAAGAACTTTAATCAAGCAGCCTTTATACCTATTGCTTTACAAAAAACTGTGCCTAGGTGCACC
17192878 AAGAGTGCGCCTGATCAAATGAGTTTGAAGCACTTTTGTTGCCTAGTGCTAAGG
66 AAGAGTGCGCCTGATCAAATGAGTTTGAAGCACTTTTGTTGCCTAGTGCTAAGG
17192932 GACAAGCACA
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
125 91 0.80
127 23 0.20
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (126 bp):
AAAAGAACTTTAATCAAGCAGCCTTTATACCTATTGCTTTACAAAAAACTGTGCCTAGGTGCACC
AAGAGTGCGCCTGATCAAATGAGTTTGAAGCACTTTTGTTGCCTAGTGCTAAGGAAAACTA
Found at i:17196403 original size:29 final size:29
Alignment explanation
Indices: 17196336--17196412 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
17196326 TTTTTTTAGA
17196336 TTCAA-AATTTAGT-TGTTATAGTTTTATT
1 TTCAAGAATTTAGTCT-TTATAGTTTTATT
17196364 TTCAAGAATTTAGTCTTTATAGTTTTATGT
1 TTCAAGAATTTAGTCTTTATAGTTTTAT-T
17196394 TT-AATG-ATTTAGTCCTTTA
1 TTCAA-GAATTTAGT-CTTTA
17196413 ATTTTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
28 5 0.11
29 29 0.66
30 10 0.23
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (29 bp):
TTCAAGAATTTAGTCTTTATAGTTTTATT
Found at i:17198705 original size:31 final size:31
Alignment explanation
Indices: 17198670--17198771 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 31
17198660 ATTATTAAGA
*
17198670 AAAATAATTATAAAATTTAAATATAAATTTT
1 AAAATAAATATAAAATTTAAATATAAATTTT
*
17198701 AAAATAAATAT-AAA---AAATAT-AA-TTA
1 AAAATAAATATAAAATTTAAATATAAATTTT
* *
17198726 AAAATAATTATAAATTTTAAATATAAATTTT
1 AAAATAAATATAAAATTTAAATATAAATTTT
17198757 AAAATAAATATAAAA
1 AAAATAAATATAAAA
17198772 AATATAATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 12 0.21
26 4 0.07
27 6 0.10
29 6 0.10
30 5 0.09
31 25 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATAAATATAAAATTTAAATATAAATTTT
Found at i:17198729 original size:25 final size:25
Alignment explanation
Indices: 17198701--17198781 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 25
17198691 TATAAATTTT
17198701 AAAATAAATATAAAAAATATAATTA
1 AAAATAAATATAAAAAATATAATTA
* *
17198726 AAAATAATTATAAATTTTAAATATAAATTTT
1 AAAATAAATATAAA----AAATAT-AA-TTA
17198757 AAAATAAATATAAAAAATATAATTA
1 AAAATAAATATAAAAAATATAATTA
17198782 TAATTAATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
25 15 0.33
26 2 0.04
27 6 0.13
29 6 0.13
30 2 0.04
31 15 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATAAATATAAAAAATATAATTA
Found at i:17198752 original size:13 final size:13
Alignment explanation
Indices: 17198734--17198765 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17198724 TAAAAATAAT
17198734 TATAAATTTTAAA
1 TATAAATTTTAAA
17198747 TATAAATTTTAAA
1 TATAAATTTTAAA
17198760 -ATAAAT
1 TATAAAT
17198766 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAAATTTTAAA
Found at i:17198796 original size:56 final size:56
Alignment explanation
Indices: 17198669--17198796 Score: 220
Period size: 56 Copynumber: 2.3 Consensus size: 56
17198659 TATTATTAAG
*
17198669 AAAAATAATTATAAAATTTAAATATAAATTTTAAAATAAATATAAAAAATATAATT
1 AAAAATAATTATAAATTTTAAATATAAATTTTAAAATAAATATAAAAAATATAATT
17198725 AAAAATAATTATAAATTTTAAATATAAATTTTAAAATAAATATAAAAAATATAATT
1 AAAAATAATTATAAATTTTAAATATAAATTTTAAAATAAATATAAAAAATATAATT
* * *
17198781 ATAATTAATGATAAAT
1 AAAAATAATTATAAAT
17198797 AAATAAAATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (56 bp):
AAAAATAATTATAAATTTTAAATATAAATTTTAAAATAAATATAAAAAATATAATT
Found at i:17203157 original size:5 final size:5
Alignment explanation
Indices: 17203147--17203175 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17203137 TATAATACGG
17203147 TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
17203176 ATAGTCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Found at i:17206278 original size:15 final size:16
Alignment explanation
Indices: 17206260--17206292 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17206250 AGTTTTTAAT
17206260 TTATATTA-CTTTATA
1 TTATATTATCTTTATA
*
17206275 TTATATTATTTTTATA
1 TTATATTATCTTTATA
17206291 TT
1 TT
17206293 TTGTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATTATCTTTATA
Found at i:17209336 original size:17 final size:18
Alignment explanation
Indices: 17209314--17209347 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17209304 TTAACTTAAC
17209314 TAAATTA-ATTTCTCAAA
1 TAAATTATATTTCTCAAA
*
17209331 TAAATTATTTTTCTCAA
1 TAAATTATATTTCTCAA
17209348 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTATATTTCTCAAA
Found at i:17214942 original size:18 final size:17
Alignment explanation
Indices: 17214919--17214952 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
17214909 TCAACAAGTA
17214919 ATTTAAAATTTTAAAAAT
1 ATTTAAAA-TTTAAAAAT
17214937 ATTTAAAATTTAAAAA
1 ATTTAAAATTTAAAAA
17214953 CTATAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTTAAAAAT
Found at i:17236327 original size:2 final size:2
Alignment explanation
Indices: 17236320--17236347 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17236310 AAATGTACAA
17236320 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
17236348 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17240946 original size:46 final size:46
Alignment explanation
Indices: 17240896--17241164 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
17240886 TGGTTGAGCA
17240896 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17240942 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
17240987 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17241035 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17241080 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17241128 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17241165 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 18, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 91 0.49
47 57 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17241052 original size:93 final size:93
Alignment explanation
Indices: 17240893--17241157 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
17240883 GGATGGTTGA
17240893 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
17240958 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
17240986 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
17241051 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
17241079 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
17241144 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17241158 CTTATGGGCG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17246655 original size:46 final size:46
Alignment explanation
Indices: 17246503--17246678 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
17246493 TGGTTGAGCA
*
17246503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA--TGGAACGC
* * *
17246550 TCCGAACTCGTTGAGTTGAGTCCGAG-TC-GTGA--GATGTAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---GC
17246595 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGC
* *
17246643 T-CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17246679 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
41 4 0.04
43 2 0.02
44 1 0.01
45 2 0.02
46 61 0.55
47 29 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
Found at i:17249176 original size:19 final size:18
Alignment explanation
Indices: 17249141--17249181 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
17249131 AATTAATTTT
17249141 TTAAAAAATTTAAAAATA
1 TTAAAAAATTTAAAAATA
17249159 TTAAAAAA-TTAATTAAATA
1 TTAAAAAATTTAA--AAATA
17249178 TTAA
1 TTAA
17249182 TGTATCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAAATTTAAAAATA
Found at i:17249283 original size:21 final size:21
Alignment explanation
Indices: 17249257--17249299 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17249247 ATTTTAGGTG
17249257 ATTTAACAAA-AAAAAATATAA
1 ATTTAA-AAATAAAAAATATAA
*
17249278 ATTTAAAAATATAAAATATAA
1 ATTTAAAAATAAAAAATATAA
17249299 A
1 A
17249300 AAAATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTTAAAAATAAAAAATATAA
Found at i:17249294 original size:15 final size:15
Alignment explanation
Indices: 17249268--17249306 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
17249258 TTTAACAAAA
*
17249268 AAAAATAT-AAATTT
1 AAAAATATAAAATAT
17249282 AAAAATATAAAATAT
1 AAAAATATAAAATAT
*
17249297 AAAAAAATAA
1 AAAAATATAA
17249307 TAGTAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:17249959 original size:20 final size:21
Alignment explanation
Indices: 17249934--17249978 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17249924 TTTTATATTT
17249934 TGTTAA-T-AAAATAAATTTAA
1 TGTTAATTGAAAA-AAATTTAA
*
17249954 TGTTAATTGAAAAATATTTAA
1 TGTTAATTGAAAAAAATTTAA
17249975 TGTT
1 TGTT
17249979 GTGTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (21 bp):
TGTTAATTGAAAAAAATTTAA
Found at i:17258678 original size:43 final size:43
Alignment explanation
Indices: 17258630--17258717 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
17258620 GCCCTATTTA
*
17258630 ATCTATTAATCTCCATAGTACGTGAAAGAAAATAATCAAATAC
1 ATCTATTAATCTCCATAGTACGTGAAAGAAAAGAATCAAATAC
17258673 ATCTATTAATCTCCATAGTACGTGAAAGAAAAGAATCAAATAC
1 ATCTATTAATCTCCATAGTACGTGAAAGAAAAGAATCAAATAC
17258716 AT
1 AT
17258718 GGTTTTGAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (43 bp):
ATCTATTAATCTCCATAGTACGTGAAAGAAAAGAATCAAATAC
Found at i:17259449 original size:20 final size:18
Alignment explanation
Indices: 17259424--17259460 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
17259414 ATTGCTAAGT
17259424 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
17259444 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
17259461 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:17263450 original size:40 final size:40
Alignment explanation
Indices: 17263395--17263619 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
17263385 TATTCGGATG
17263395 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
17263435 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
17263478 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
17263518 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
17263558 ATATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
17263598 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
17263620 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:17263538 original size:83 final size:80
Alignment explanation
Indices: 17263399--17263619 Score: 277
Period size: 83 Copynumber: 2.7 Consensus size: 80
17263389 CGGATGATAT
* * *
17263399 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
17263464 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
17263482 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
17263547 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * * *
17263562 CCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
17263620 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 43 0.35
81 3 0.02
83 63 0.51
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:17266491 original size:20 final size:21
Alignment explanation
Indices: 17266466--17266515 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
17266456 TTTATTATAT
17266466 AAATTACTCAATTTTTTTTA-
1 AAATTACTCAATTTTTTTTAC
* * *
17266486 AAATTATTGAGTTTTTTTTAC
1 AAATTACTCAATTTTTTTTAC
17266507 AAAGTTACT
1 AAA-TTACT
17266516 TATAACCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 17 0.71
21 3 0.12
22 4 0.17
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (21 bp):
AAATTACTCAATTTTTTTTAC
Found at i:17270375 original size:17 final size:17
Alignment explanation
Indices: 17270353--17270387 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17270343 GAAAAGAAGA
**
17270353 AAAAGAAGGTAAAGACG
1 AAAAGAAGAAAAAGACG
17270370 AAAAGAAGAAAAAGACG
1 AAAAGAAGAAAAAGACG
17270387 A
1 A
17270388 GGATATTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.26, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAAGACG
Found at i:17272129 original size:18 final size:19
Alignment explanation
Indices: 17272108--17272157 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
17272098 ATGTATTAGA
17272108 TATTAAATAA-ATATTTAT
1 TATTAAATAAGATATTTAT
17272126 TATTTTATAA-AAGATATTTAT
1 TA--TTA-AATAAGATATTTAT
17272147 TAATTAAATAA
1 T-ATTAAATAA
17272158 TTATATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 10 0.38
21 11 0.42
22 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTAAATAAGATATTTAT
Found at i:17272256 original size:19 final size:18
Alignment explanation
Indices: 17272213--17272260 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
17272203 ATGTATGGTT
17272213 ATAAATAAATACAAATGA
1 ATAAATAAATACAAATGA
*
17272231 ACT-AATAATATACACATGA
1 A-TAAATAA-ATACAAATGA
17272250 ATAAATAAATA
1 ATAAATAAATA
17272261 ATACTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (18 bp):
ATAAATAAATACAAATGA
Found at i:17275504 original size:15 final size:15
Alignment explanation
Indices: 17275481--17275524 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
17275471 TATCAAATTT
17275481 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
17275496 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
17275511 ATATTGATTGAAAT
1 ATATTGATTGAAAT
17275525 ATACATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:17276202 original size:19 final size:18
Alignment explanation
Indices: 17276164--17276203 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17276154 ATGAAATGAA
17276164 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
17276182 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
17276201 AAA
1 AAA
17276204 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:17282591 original size:46 final size:46
Alignment explanation
Indices: 17282524--17282698 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
17282514 TGTAACCCGC
17282524 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGCAT
* * *
17282570 CCATAAGTGAACTCGGACTCAACTCAATGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G---AGTTCGCAT
* * * ** *
17282620 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-TAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
*
17282663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
17282699 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 60 0.58
47 23 0.22
48 3 0.03
49 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGCAT
Found at i:17282644 original size:93 final size:93
Alignment explanation
Indices: 17282532--17282702 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
17282522 GCCCATAAGT
* *
17282532 GAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
17282596 ATGAGCTT-GGATGCCTAGTTACATCTCAC
65 ACGAG-TTCGGATGCCTAGTTACATCTCAC
* *
17282625 GAACTCGGACTCAACTCAACGAGTTCTAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17282690 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17282703 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17285515 original size:52 final size:51
Alignment explanation
Indices: 17285401--17285578 Score: 220
Period size: 52 Copynumber: 3.5 Consensus size: 51
17285391 ACTAGTGACT
* *
17285401 CAAGTGTGGTACTATGTAAAGGCCACTTTGAGAAGAA-ATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
17285450 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGGAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTTTGGTCA
* * * * *
17285502 GAAGTGTGGTACTATGTGAATGTCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
*
17285553 CAAGGGTGGTACTATGTGCAA-GCCAC
1 CAAGTGTGGTACTATGTG-AAGGCCAC
17285579 CAGGTATCCG
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 31 0.28
50 5 0.04
51 37 0.33
52 39 0.35
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:17285566 original size:51 final size:51
Alignment explanation
Indices: 17285396--17285578 Score: 205
Period size: 51 Copynumber: 3.6 Consensus size: 51
17285386 TTGTCACTAG
* *
17285396 TGACT-CAAGTGTGGTACTATGTAAAGGCCACTTTGAGAAGAA-ATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * *
17285445 GGTC-ACAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGGAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTT
* * * * *
17285496 TG-GTCAGAAGTGTGGTACTATGTGAATGTCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
*
17285547 TGACTACAAGGGTGGTACTATGTGCAA-GCCAC
1 TGACTACAAGTGTGGTACTATGTG-AAGGCCAC
17285579 CAGGTATCCG
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
49 33 0.30
50 3 0.03
51 41 0.37
52 34 0.31
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:17288444 original size:46 final size:45
Alignment explanation
Indices: 17288391--17288566 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
17288381 TATTTGGGCA
17288391 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
17288437 TCCGAACTCGTTAAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
17288484 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
17288530 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17288567 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17288547 original size:93 final size:93
Alignment explanation
Indices: 17288387--17288558 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
17288377 AGGATATTTG
* *
17288387 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
*
17288452 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
17288480 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
17288545 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17288559 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17296268 original size:6 final size:6
Alignment explanation
Indices: 17296257--17296284 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17296247 GTATGTTTGC
17296257 ACATGG ACATGG ACATGG ACATGG ACAT
1 ACATGG ACATGG ACATGG ACATGG ACAT
17296285 CCACCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (6 bp):
ACATGG
Found at i:17304688 original size:30 final size:30
Alignment explanation
Indices: 17304654--17304713 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17304644 CCTTAATACG
17304654 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
17304684 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
17304714 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:17308689 original size:16 final size:16
Alignment explanation
Indices: 17308670--17308700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17308660 ATTTACTTAA
17308670 TATATTATATTAATAT
1 TATATTATATTAATAT
*
17308686 TATATTATGTTAATA
1 TATATTATATTAATA
17308701 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:17308797 original size:12 final size:12
Alignment explanation
Indices: 17308780--17308810 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17308770 GAAGCAGGGG
*
17308780 AGAAAAAGTGAA
1 AGAAAAAGGGAA
17308792 AGAAAAAGGGAA
1 AGAAAAAGGGAA
17308804 AGAAAAA
1 AGAAAAA
17308811 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAAAAGGGAA
Found at i:17312813 original size:21 final size:21
Alignment explanation
Indices: 17312789--17312830 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17312779 TCATCAGATC
*
17312789 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
17312810 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
17312831 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:17315034 original size:30 final size:30
Alignment explanation
Indices: 17315000--17315059 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17314990 CCTTAATACG
17315000 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
17315030 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
17315060 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:17317697 original size:26 final size:27
Alignment explanation
Indices: 17317645--17317699 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
17317635 CTTACCTTTT
*
17317645 AACTTTTCACCTTATTTATTTTCAAAAAAA
1 AACTTTTCACCTTATTTA---TAAAAAAAA
17317675 AACTTTTCACCTTATTTA-AAAAAAA
1 AACTTTTCACCTTATTTATAAAAAAA
17317700 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
30 18 0.75
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (27 bp):
AACTTTTCACCTTATTTATAAAAAAAA
Found at i:17318151 original size:26 final size:26
Alignment explanation
Indices: 17318122--17318176 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
17318112 TACAGTTATG
*
17318122 TAAATATTATTAAA-ATAAAATAATAA
1 TAAA-ATTATGAAATATAAAATAATAA
17318148 TAAAATTATGAAATATAAAATAATAA
1 TAAAATTATGAAATATAAAATAATAA
17318174 TAA
1 TAA
17318177 CTAAATATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAAATTATGAAATATAAAATAATAA
Found at i:17319745 original size:35 final size:35
Alignment explanation
Indices: 17319701--17319867 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
17319691 TCCTCATTGA
** *
17319701 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17319736 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17319776 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17319811 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17319846 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17319868 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17319784 original size:75 final size:73
Alignment explanation
Indices: 17319696--17319867 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
17319686 GGTTTTCCTC
** * * **
17319696 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17319760 TCAGTATGG
65 TCAGTATGG
*
17319769 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17319834 CTCAGTATGG
64 CTCAGTATGG
17319844 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17319868 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17327217 original size:35 final size:35
Alignment explanation
Indices: 17327173--17327339 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
17327163 TCCTCATTGA
** *
17327173 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17327208 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17327248 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17327283 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17327318 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17327340 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17327256 original size:75 final size:73
Alignment explanation
Indices: 17327168--17327339 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
17327158 GGTTTTCCTC
** * * **
17327168 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17327232 TCAGTATGG
65 TCAGTATGG
*
17327241 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17327306 CTCAGTATGG
64 CTCAGTATGG
17327316 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17327340 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17330284 original size:3 final size:3
Alignment explanation
Indices: 17330268--17330309 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
17330258 GGAAGAAGGT
* * *
17330268 GAA GGA GAA G-A GAA GAA GAA GAA GAA AAA GAA GGA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
17330310 GGACTGGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17330965 original size:66 final size:66
Alignment explanation
Indices: 17330885--17331016 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
17330875 TTATTATTTG
17330885 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
17330950 T
66 T
*
17330951 GAGTGCCACTTGTATTTTCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
17331016 T
66 T
17331017 CAGCAACATC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (66 bp):
GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
T
Found at i:17345662 original size:18 final size:18
Alignment explanation
Indices: 17345639--17345674 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17345629 GGTCCTATTA
17345639 GCAAATTTATATACAACC
1 GCAAATTTATATACAACC
17345657 GCAAATTTATATACAACC
1 GCAAATTTATATACAACC
17345675 AAGTCCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (18 bp):
GCAAATTTATATACAACC
Found at i:17351297 original size:15 final size:15
Alignment explanation
Indices: 17351277--17351310 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17351267 AACAATCAAT
17351277 AACTT-AAATTTAATC
1 AACTTAAAATTT-ATC
17351292 AACTTAAAATTTATC
1 AACTTAAAATTTATC
17351307 AACT
1 AACT
17351311 GAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
AACTTAAAATTTATC
Found at i:17352377 original size:7 final size:7
Alignment explanation
Indices: 17352367--17352391 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17352357 ATCAGTAATT
17352367 AATTTAA
1 AATTTAA
17352374 AATTTAA
1 AATTTAA
17352381 AATTTAA
1 AATTTAA
17352388 AATT
1 AATT
17352392 AATAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:17356460 original size:24 final size:24
Alignment explanation
Indices: 17356413--17356461 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17356403 TTCTGGAAAA
**
17356413 TGAGCATAAATTTTGTTTATGTAT
1 TGAGCATAAATTCGGTTTATGTAT
17356437 TGAGCATAAATTCCGGTTTA-GTAT
1 TGAGCATAAATT-CGGTTTATGTAT
17356461 T
1 T
17356462 TCAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (24 bp):
TGAGCATAAATTCGGTTTATGTAT
Found at i:17356489 original size:18 final size:19
Alignment explanation
Indices: 17356453--17356491 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17356443 TAAATTCCGG
*
17356453 TTTAGTATTTCAATTTAAT
1 TTTAGTATTTCAATATAAT
*
17356472 TTTA-TATTTTAATATAAT
1 TTTAGTATTTCAATATAAT
17356490 TT
1 TT
17356492 ATTTCGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTAGTATTTCAATATAAT
Found at i:17374548 original size:20 final size:20
Alignment explanation
Indices: 17374523--17374562 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17374513 GGCGTCATTA
17374523 ATTAAAGAGGGAGGTAGAAG
1 ATTAAAGAGGGAGGTAGAAG
17374543 ATTAAAGAGGGAGGTAGAAG
1 ATTAAAGAGGGAGGTAGAAG
17374563 GACTGAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.15
Consensus pattern (20 bp):
ATTAAAGAGGGAGGTAGAAG
Found at i:17379907 original size:46 final size:46
Alignment explanation
Indices: 17379855--17380026 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
17379845 TGGGCATCCG
17379855 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * * * *
17379901 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCA
* * * * *
17379948 AACTCGTTAAGTTGAGTTCGAGTTCAATTATGGATGCGAATGCCCGA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-A
*
17379995 GA-TCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17380027 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 53 0.54
47 26 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
Found at i:17380006 original size:93 final size:93
Alignment explanation
Indices: 17379847--17380018 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
17379837 CGGATATTTG
* * *
17379847 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCAAACTCGTTGAG
*
17379912 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
17379940 GGCATCCGAACTCGTTAAGTTGAGTTCGAGTTCAATTATGGATGCGAATGCCCGAGA-TCGTTGA
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCC-AAACTCGTTGA
17380004 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
17380019 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17382663 original size:24 final size:24
Alignment explanation
Indices: 17382613--17382680 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
17382603 GCAGATTTCC
*
17382613 ACCCAAACACA-CCAGAATATCCA
1 ACCCAAACACACCCGGAATATCCA
* *
17382636 ACCCAAACATACCCGGAATATCCG
1 ACCCAAACACACCCGGAATATCCA
17382660 ACCCAAACACACCCGGAATAT
1 ACCCAAACACACCCGGAATAT
17382681 TGTAAATCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 10 0.25
24 30 0.75
ACGTcount: A:0.43, C:0.38, G:0.09, T:0.10
Consensus pattern (24 bp):
ACCCAAACACACCCGGAATATCCA
Found at i:17384217 original size:5 final size:5
Alignment explanation
Indices: 17384207--17384234 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17384197 TATAGATATA
17384207 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
17384235 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:17387222 original size:20 final size:22
Alignment explanation
Indices: 17387174--17387247 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 22
17387164 CCTGATCAGT
** *
17387174 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
17387195 AAACGACACACGAGGTG-CTG-
1 ATACGACACACGAGGTGCCTGA
17387215 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
17387238 ATACGACACA
1 ATACGACACA
17387248 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 18 0.41
21 16 0.36
23 10 0.23
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:17387255 original size:23 final size:23
Alignment explanation
Indices: 17387174--17387259 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
17387164 CCTGATCAGT
*
17387174 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
17387196 A-ACGACACACGAGGTG-CTG--
1 ATACGACACACAAAGTGCCTGAA
* *
17387215 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
17387238 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
17387260 TCATAAAGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.02
20 17 0.32
21 15 0.28
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:17387650 original size:15 final size:15
Alignment explanation
Indices: 17387625--17387682 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
17387615 TCATATATAT
17387625 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
17387641 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
17387656 AATAATTTCAATCAA
1 TATAAATTCAATCAA
17387671 TATAAATTCAAT
1 TATAAATTCAAT
17387683 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:17392749 original size:23 final size:22
Alignment explanation
Indices: 17392722--17392764 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17392712 TGTGCTATTT
*
17392722 ATAAACTCTTTTACATTTAATTA
1 ATAAA-TCTATTACATTTAATTA
*
17392745 ATAAATGTATTACATTTAAT
1 ATAAATCTATTACATTTAAT
17392765 GAACTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATCTATTACATTTAATTA
Found at i:17400709 original size:67 final size:66
Alignment explanation
Indices: 17400547--17400791 Score: 222
Period size: 67 Copynumber: 3.7 Consensus size: 66
17400537 ACGGGCTGTA
* * * *
17400547 ATGGGATATAATGTGTAAGACCATAGCTTAACTATGGTAACATAAAGAAT-TCATCAGGACATTA
1 ATGGG-TATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCT-ATCAGGACATTA
17400611 AAC
64 AAC
* ** * ** * *
17400614 ATGGGGTATAATATGTAAGTTCAAAGCTCGGTTATGGCAAAATAAAGAGTCTATCAAGACATTAA
1 AT-GGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAA
17400679 AC
65 AC
* * ** **
17400681 ATGGGCTATGATGTGTAAGACCATAGCTCAATTAAGGCAACATTGAGAGTCTGCCAGGACATTAA
1 ATGGG-TATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAA
17400746 AC
65 AC
* * * * * *
17400748 ATTGGGTATGATTTGTAAGACTATAGCTCGACTATGACAACATA
1 A-TGGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATA
17400792 TGAAGTCCGT
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
66 3 0.02
67 130 0.92
68 8 0.06
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (66 bp):
ATGGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAAA
C
Found at i:17401858 original size:31 final size:34
Alignment explanation
Indices: 17401800--17401885 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 34
17401790 TTATTATTAT
*
17401800 TATATATATTATAATAACTAAAGTTAATA-T-A-
1 TATATATATTATAATAACTAAACTTAATATTAAG
** **
17401831 TATATATATTATAATATGTTTACTTAATATTTAAG
1 TATATATATTATAATAACTAAACTTAATA-TTAAG
17401866 TATATATATTAT-ATAA-TAAA
1 TATATATATTATAATAACTAAA
17401886 ACAAATGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
31 24 0.56
33 3 0.07
34 4 0.09
35 12 0.28
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (34 bp):
TATATATATTATAATAACTAAACTTAATATTAAG
Found at i:17401920 original size:6 final size:6
Alignment explanation
Indices: 17401909--17401984 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
17401899 TAAATGAAAT
* * * * *
17401909 AAAGAA AAAGAA AGAGAG AAAGTA AAACAA AACAGAA AGGAA-AG AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA A--AAGAA AAAGAA
*
17401959 AAAGAA AAAGAG AAAGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
17401985 CAGATGCGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.04
6 37 0.70
7 12 0.23
8 1 0.02
9 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:17401978 original size:25 final size:25
Alignment explanation
Indices: 17401909--17401984 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
17401899 TAAATGAAAT
*
17401909 AAAG-AAAA-AGAAAGAGAGAAAGTA
1 AAAGAAAAAGAGAAAGA-AGAAAGAA
* *
17401933 AAACAAAACAGA-AAGGAAAGAAAGAA
1 AAAGAAAA-AGAGAAAG-AAGAAAGAA
17401959 AAAGAAAAAGAGAAAGAAGAAAGAA
1 AAAGAAAAAGAGAAAGAAGAAAGAA
17401984 A
1 A
17401985 CAGATGCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.07
25 16 0.38
26 21 0.50
27 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (25 bp):
AAAGAAAAAGAGAAAGAAGAAAGAA
Found at i:17402673 original size:19 final size:19
Alignment explanation
Indices: 17402642--17402681 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
17402632 ACACTTTGAC
17402642 ATTGAATTGGATTAAAGTTG
1 ATTGAATTGGATTAAA-TTG
17402662 ATTGAA-TGGATTAAATTG
1 ATTGAATTGGATTAAATTG
17402680 AT
1 AT
17402682 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (19 bp):
ATTGAATTGGATTAAATTG
Found at i:17402687 original size:2 final size:2
Alignment explanation
Indices: 17402680--17402711 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17402670 GATTAAATTG
17402680 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
17402712 TATGAATGTA
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):
AT
Found at i:17402971 original size:41 final size:39
Alignment explanation
Indices: 17402926--17403027 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 39
17402916 TCGATTTAAC
* * *
17402926 CGATGAGACACTGGGTGTCAATTTATTACTTTAAATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTAATTCAAA-TTA-T
* *
17402967 CGATGGGACAGTGGGTGTCAATTTACTAATTCAAATTAT
1 CGATGAGACACTGGGTGTCAATTTACTAATTCAAATTAT
*
17403006 CTGATGAGGCACTGGGTGTCAA
1 C-GATGAGACACTGGGTGTCAA
17403028 AATTGTGTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.04
40 20 0.38
41 30 0.58
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTACTAATTCAAATTAT
Found at i:17403263 original size:16 final size:16
Alignment explanation
Indices: 17403215--17403264 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
17403205 ATGTACTCAA
* *
17403215 GAATTGAGTATGGTAT
1 GAATTGAGTATTGCAT
*
17403231 GAAATGATGTATT-CAT
1 GAATTGA-GTATTGCAT
17403247 GAATTGAGTATTGCAT
1 GAATTGAGTATTGCAT
17403263 GA
1 GA
17403265 CCAATGCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (16 bp):
GAATTGAGTATTGCAT
Found at i:17405565 original size:46 final size:44
Alignment explanation
Indices: 17405461--17405568 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
17405451 TGTCTTTGAC
** * * *
17405461 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
17405505 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
17405551 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
17405569 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:17407622 original size:25 final size:25
Alignment explanation
Indices: 17407588--17407682 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
17407578 CAAGCATGTA
*
17407588 AACGAGAAGCTCTTCTGAGCTATAT
1 AACGGGAAGCTCTTCTGAGCTATAT
* * *
17407613 AACGGGAAGCTCATGTGAACTA-AGT
1 AACGGGAAGCTCTTCTGAGCTATA-T
* *
17407638 AACGGGAAGCTCATAC-GAGCTGTAT
1 AACGGGAAGCTC-TTCTGAGCTATAT
** *
17407663 ATTGGGAAGCTCTTGTGAGC
1 AACGGGAAGCTCTTCTGAGC
17407683 CAAATATCGA
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
24 2 0.04
25 50 0.94
26 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (25 bp):
AACGGGAAGCTCTTCTGAGCTATAT
Found at i:17407689 original size:25 final size:25
Alignment explanation
Indices: 17407661--17407725 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17407651 TACGAGCTGT
* *
17407661 ATATTGGGAAGCTCTTGTGAGCCAA
1 ATATTGAGAAGCTCATGTGAGCCAA
*
17407686 ATATCGAGAAGCTCATGTGAGCCAA
1 ATATTGAGAAGCTCATGTGAGCCAA
* *
17407711 GTATTGAAAAGCTCA
1 ATATTGAGAAGCTCA
17407726 AGAGAGCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
ATATTGAGAAGCTCATGTGAGCCAA
Found at i:17407697 original size:50 final size:51
Alignment explanation
Indices: 17407588--17407701 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 51
17407578 CAAGCATGTA
* * *
17407588 AACGAGAAGCTC-TTCTGAGCTATATAACGGGAAGCTCATGTGAACTAAGT
1 AACGAGAAGCTCATACTGAGCTATATAACGGGAAGCTCATGTGAACCAAAT
* * ** * *
17407638 AACGGGAAGCTCATAC-GAGCTGTATATTGGGAAGCTCTTGTGAGCCAAAT
1 AACGAGAAGCTCATACTGAGCTATATAACGGGAAGCTCATGTGAACCAAAT
*
17407688 ATCGAGAAGCTCAT
1 AACGAGAAGCTCAT
17407702 GTGAGCCAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (51 bp):
AACGAGAAGCTCATACTGAGCTATATAACGGGAAGCTCATGTGAACCAAAT
Found at i:17407732 original size:25 final size:25
Alignment explanation
Indices: 17407679--17407732 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
17407669 AAGCTCTTGT
* * *
17407679 GAGCCAAATATCGAGAAGCTCATGT
1 GAGCCAAATATCGAAAAGCTCAAGA
* *
17407704 GAGCCAAGTATTGAAAAGCTCAAGA
1 GAGCCAAATATCGAAAAGCTCAAGA
17407729 GAGC
1 GAGC
17407733 TGTGGTGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.17
Consensus pattern (25 bp):
GAGCCAAATATCGAAAAGCTCAAGA
Found at i:17410330 original size:93 final size:94
Alignment explanation
Indices: 17410215--17410385 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
17410205 GCCCATAAGT
* *
17410215 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTT-CGCATCCATAAGTGAACTCGAACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCCACATCCATAAGTGAACTCGAACTCAACTC
17410278 AACGAGTTCGGATGCCTAGTTACATCTCAC
65 AACGAGTTCGGATGCCTAGTTACATCTCAC
* *
17410308 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCACATCCATAAGTGAACTCGAACTCAACTCA
*
17410373 ACGAGTTTGGATG
66 ACGAGTTCGGATG
17410386 TTCAACCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
93 28 0.39
94 43 0.61
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCACATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17410359 original size:47 final size:47
Alignment explanation
Indices: 17410207--17410379 Score: 205
Period size: 47 Copynumber: 3.7 Consensus size: 47
17410197 TGTAACCCGC
* * *
17410207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
*
17410253 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCACAT
* *
17410303 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATT-CACAT
17410347 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
17410380 TGGATGTTCA
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 34 0.31
47 55 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
Found at i:17410839 original size:30 final size:30
Alignment explanation
Indices: 17410805--17410861 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17410795 CCTTAATACG
17410805 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
17410835 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
17410862 TTAGGCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:17416664 original size:47 final size:48
Alignment explanation
Indices: 17416544--17416721 Score: 194
Period size: 47 Copynumber: 3.8 Consensus size: 48
17416534 TGTAACCCGC
* * * *
17416544 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
*
17416589 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-A-TTCACAT
*
17416639 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATT-CACAT
*
17416683 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
17416722 TTCAACCATC
Statistics
Matches: 113, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 34 0.30
46 3 0.03
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
Found at i:17416711 original size:94 final size:92
Alignment explanation
Indices: 17416552--17416721 Score: 295
Period size: 94 Copynumber: 1.8 Consensus size: 92
17416542 GCCCATAAGT
* *
17416552 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
17416617 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
17416644 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATT-CACATCCATAAGTGAACTCGGACTCAACTCA
17416709 ACGAGTTCGGATG
64 ACGAGTTCGGATG
17416722 TTCAACCATC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 27 0.37
93 3 0.04
94 43 0.59
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17417174 original size:30 final size:30
Alignment explanation
Indices: 17417140--17417199 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17417130 CCTTAATACG
17417140 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
17417170 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
17417200 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:17420369 original size:21 final size:23
Alignment explanation
Indices: 17420310--17420375 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
17420300 GCTTTACTAA
17420310 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* ** *
17420333 TCAGGCACCTCGTGTGTTGT-TT
1 TCAGGCACTTTATGTGTCGTATT
17420355 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
17420376 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 14 0.41
22 4 0.12
23 16 0.47
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:17422078 original size:23 final size:24
Alignment explanation
Indices: 17421998--17422186 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
17421988 GCTTTATCAT
*
17421998 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
17422023 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
17422047 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
17422070 ATAATTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17422094 ATAACTGGGGCAT-AGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17422117 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17422141 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17422164 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17422187 TCACTTCCTC
Statistics
Matches: 149, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
23 65 0.44
24 72 0.48
25 12 0.08
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17422079 original size:47 final size:47
Alignment explanation
Indices: 17421997--17422187 Score: 269
Period size: 47 Copynumber: 4.0 Consensus size: 47
17421987 TGCTTTATCA
* *
17421997 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
17422046 TATAACTGGGGCATAAGCCC-TTTAATAATTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCAT-AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
17422093 GATAACTGGGGCATAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
17422140 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCAT-AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
17422187 T
1 T
17422188 CACTTCCTCC
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
46 5 0.04
47 101 0.78
48 10 0.08
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TATAACTGGGGCATAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:17422259 original size:9 final size:9
Alignment explanation
Indices: 17422245--17422301 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17422235 ATCTCGTGTG
17422245 CATATCATA
1 CATATCATA
*
17422254 CATATCATGTG
1 CATATCA--TA
17422265 CATATCATA
1 CATATCATA
* *
17422274 CATGTCACGTG
1 CATATCA--TA
17422285 CATATCATA
1 CATATCATA
17422294 CATATCAT
1 CATATCAT
17422302 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:17422264 original size:20 final size:20
Alignment explanation
Indices: 17422241--17422303 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
17422231 GAACATCTCG
17422241 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
17422261 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
17422281 CGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
17422301 TGT
1 TGT
17422304 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:17422386 original size:25 final size:25
Alignment explanation
Indices: 17422340--17422387 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17422330 ATACATAAAC
* * * *
17422340 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17422365 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17422388 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17423571 original size:27 final size:26
Alignment explanation
Indices: 17423541--17423618 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
17423531 AGGCATATTC
17423541 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
17423568 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
17423595 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
17423619 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:17423695 original size:27 final size:27
Alignment explanation
Indices: 17423674--17423988 Score: 366
Period size: 27 Copynumber: 11.7 Consensus size: 27
17423664 AAGGGTATTT
*
17423674 CAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
17423701 CAGTAATTCTGTAAATCAAGGGTGAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
17423728 CAGTAATTCTATAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
17423755 TGGCAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
17423782 CGGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
17423809 C-GATAATAATGTAAATCGGGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAA
* * * *
17423836 CGGTAATTATGTAAATTGGGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
17423863 TGGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
17423890 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 CAGTAATTCTGTAAATC-GAGGGTAAAA
*
17423917 CGGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
17423944 CGGTAATTCTAT-AACCTGAGGGTAAAA
1 CAGTAATTCTGTAAATC-GAGGGTAAAA
*
17423971 CGGTAATTCTGTAAATCG
1 CAGTAATTCTGTAAATCG
17423989 GGAATACTTT
Statistics
Matches: 254, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.02
27 245 0.96
28 5 0.02
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:17423773 original size:81 final size:81
Alignment explanation
Indices: 17423676--17423988 Score: 407
Period size: 81 Copynumber: 3.9 Consensus size: 81
17423666 GGGTATTTCA
* * * * *
17423676 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
*
17423741 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* **
17423757 GCAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATAATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
*
17423821 AAATCGGGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * * * *
17423838 GTAATTATGTAAATTGGGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
17423903 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
* * *
17423919 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGT
17423983 AAATCG
65 AAATCG
17423989 GGAATACTTT
Statistics
Matches: 198, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.02
81 192 0.97
82 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:17427109 original size:24 final size:24
Alignment explanation
Indices: 17427055--17427244 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
17427045 GCTTTATCAA
* *
17427055 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * *
17427080 AAAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
17427104 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
17427127 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
17427151 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
17427175 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
17427199 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
17427222 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17427245 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.28
24 97 0.64
25 11 0.07
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:17427133 original size:47 final size:47
Alignment explanation
Indices: 17427076--17427244 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
17427066 CCTAGCCTCT
* * *
17427076 TTTAAAAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
17427123 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
17427170 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
17427218 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
17427245 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 69 0.61
48 45 0.39
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Done.