Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 47 of 332
Found at i:14150727 original size:45 final size:45
Alignment explanation
Indices: 14150663--14150751 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
14150653 AAAATATATA
14150663 TATTTAAATCTTATACCAGATTATTATTATGTTAAGAGATTGAAT
1 TATTTAAATCTTATACCAGATTATTATTATGTTAAGAGATTGAAT
14150708 TATTTAAATCTTATACCAGATTATTATTATGTTAAGAGATTGAA
1 TATTTAAATCTTATACCAGATTATTATTATGTTAAGAGATTGAA
14150752 ATTCATCTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (45 bp):
TATTTAAATCTTATACCAGATTATTATTATGTTAAGAGATTGAAT
Found at i:14150733 original size:24 final size:24
Alignment explanation
Indices: 14150663--14150735 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
14150653 AAAATATATA
14150663 TATTTAAATCTTATACCAGATTAT
1 TATTTAAATCTTATACCAGATTAT
* *
14150687 TA-TT--ATGTTA-A-GAGATTGAAT
1 TATTTAAATCTTATACCAGATT--AT
14150708 TATTTAAATCTTATACCAGATTAT
1 TATTTAAATCTTATACCAGATTAT
14150732 TATT
1 TATT
14150736 ATGTTAAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 5 0.13
20 1 0.03
21 9 0.24
22 2 0.05
23 2 0.05
24 13 0.34
25 1 0.03
26 5 0.13
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (24 bp):
TATTTAAATCTTATACCAGATTAT
Found at i:14152085 original size:23 final size:23
Alignment explanation
Indices: 14152057--14152127 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
14152047 TAATTGTCAT
14152057 TCTCTACTTAAGGCATTATTCTC
1 TCTCTACTTAAGGCATTATTCTC
* *
14152080 TCTCTATTTATA---AAT-TTCAT-
1 TCTCTACTTA-AGGCATTATTC-TC
14152100 TCTCTACTTAAGGCATTATTCTC
1 TCTCTACTTAAGGCATTATTCTC
14152123 TCTCT
1 TCTCT
14152128 CTATTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 3 0.08
22 3 0.08
23 17 0.46
24 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.06, T:0.48
Consensus pattern (23 bp):
TCTCTACTTAAGGCATTATTCTC
Found at i:14152101 original size:43 final size:45
Alignment explanation
Indices: 14152048--14152143 Score: 169
Period size: 45 Copynumber: 2.2 Consensus size: 45
14152038 ATCATCCCAT
14152048 AATTGTCATTCTCTACTTAAGGCATTA-T-TCTCTCTCTATTTATA
1 AATT-TCATTCTCTACTTAAGGCATTATTCTCTCTCTCTATTTATA
14152092 AATTTCATTCTCTACTTAAGGCATTATTCTCTCTCTCTATTTATA
1 AATTTCATTCTCTACTTAAGGCATTATTCTCTCTCTCTATTTATA
14152137 AATTTCA
1 AATTTCA
14152144 CTTGTAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 22 0.44
44 5 0.10
45 23 0.46
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (45 bp):
AATTTCATTCTCTACTTAAGGCATTATTCTCTCTCTCTATTTATA
Found at i:14155570 original size:31 final size:30
Alignment explanation
Indices: 14155483--14155570 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
14155473 TTGTATACAT
*
14155483 AAATTTTAA-TTTGATGCAAT-TATACACATG
1 AAATTTTAATTTTGATTCAATATATA-A-ATG
* * *
14155513 AAATTTTGATTGTGATTTGAATATATAAATG
1 AAATTTTAATTTTGA-TTCAATATATAAATG
*
14155544 AAATTTTAATTTTGGTTCAATCATATA
1 AAATTTTAATTTTGATTCAAT-ATATA
14155571 CATTTAAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
30 13 0.28
31 24 0.52
32 5 0.11
33 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
AAATTTTAATTTTGATTCAATATATAAATG
Found at i:14161013 original size:20 final size:20
Alignment explanation
Indices: 14160988--14161027 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14160978 GAAGACTTTG
14160988 AGTTAGCCAAAATTATCATT
1 AGTTAGCCAAAATTATCATT
14161008 AGTTAGCCAAAATTATCATT
1 AGTTAGCCAAAATTATCATT
14161028 TAAAAGAATA
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:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTTAGCCAAAATTATCATT
Found at i:14166058 original size:26 final size:27
Alignment explanation
Indices: 14166029--14166080 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
14166019 AGAACTAAAT
*
14166029 AATTAAGAGAATTGAGAGAAT-GAATG
1 AATTAAGAAAATTGAGAGAATAGAATG
* *
14166055 AATTGAGAAAATTGAGATAATAGAAT
1 AATTAAGAAAATTGAGAGAATAGAAT
14166081 TTGAATGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTAAGAAAATTGAGAGAATAGAATG
Found at i:14167187 original size:19 final size:19
Alignment explanation
Indices: 14167150--14167197 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
14167140 AGAAAGTTAT
**
14167150 AGAGAAAGAAACATGAAAG
1 AGAGAAAGAAACAAAAAAG
*
14167169 AGAGAAAGAAAGAAAAAAG
1 AGAGAAAGAAACAAAAAAG
*
14167188 -GAAAAAGAAA
1 AGAGAAAGAAA
14167198 AAGGGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (19 bp):
AGAGAAAGAAACAAAAAAG
Found at i:14167196 original size:14 final size:14
Alignment explanation
Indices: 14167177--14167206 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14167167 AGAGAGAAAG
14167177 AAAGAAAAAAGGAA
1 AAAGAAAAAAGGAA
*
14167191 AAAGAAAAAGGGAA
1 AAAGAAAAAAGGAA
14167205 AA
1 AA
14167207 TTGAAGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAGGAA
Found at i:14167896 original size:23 final size:24
Alignment explanation
Indices: 14167865--14167919 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
14167855 ATTTGATTGA
14167865 TGAA-TGTATACATG-T-GTGAAAT
1 TGAATTGTATA-ATGATGGTGAAAT
*
14167887 TGAATTGTATAATGATGGTGAATT
1 TGAATTGTATAATGATGGTGAAAT
14167911 TGAGATTGT
1 TGA-ATTGT
14167920 GATTGAATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 9 0.32
25 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (24 bp):
TGAATTGTATAATGATGGTGAAAT
Found at i:14168156 original size:38 final size:37
Alignment explanation
Indices: 14168111--14168188 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
14168101 GTGTGTCATA
* *
14168111 TTTACTTCGG-ATAGATTCGATGAGGCGTTGGTCGCCAC
1 TTTACTTCGGCATAG--CCGATGAGACGTTGGTCGCCAC
* *
14168149 TTTACTTCGGCTTAGCCGATGAGACGTTGGTCGTCAC
1 TTTACTTCGGCATAGCCGATGAGACGTTGGTCGCCAC
14168186 TTT
1 TTT
14168189 TTGGCTTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 22 0.63
38 10 0.29
39 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.35
Consensus pattern (37 bp):
TTTACTTCGGCATAGCCGATGAGACGTTGGTCGCCAC
Found at i:14168594 original size:13 final size:13
Alignment explanation
Indices: 14168558--14168594 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14168548 TGATAGTTTG
*
14168558 GTATGAATTTATAT
1 GTATG-ATTTGTAT
14168572 GTATGATTTGTAT
1 GTATGATTTGTAT
14168585 GTATGATTTG
1 GTATGATTTG
14168595 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:14169154 original size:26 final size:26
Alignment explanation
Indices: 14169133--14169232 Score: 173
Period size: 26 Copynumber: 3.8 Consensus size: 26
14169123 ATTGATTATA
*
14169133 GGTTAGATAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
* *
14169159 AGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
14169185 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
14169211 GGTTAGGTAAATGTTCCATGAT
1 GGTTAGGTAAATGTTCCATGAT
14169233 GGGAATTTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:14170850 original size:27 final size:27
Alignment explanation
Indices: 14170818--14170930 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
14170808 AGGATGCGTC
*
14170818 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
14170845 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
14170872 CTGGTGGCTCTGCGACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
14170900 CTGGTGACTCTGTCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
14170927 CTGG
1 CTGG
14170931 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 50 0.69
28 22 0.31
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:14170923 original size:55 final size:54
Alignment explanation
Indices: 14170818--14170930 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
14170808 AGGATGCGTC
*
14170818 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
14170872 CTGGTGGCTCTGCGACGATTATCTGTATCTGGTGACTCTGTCACA-ATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATA-TATCTGTT
14170927 CTGG
1 CTGG
14170931 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 22 0.43
55 29 0.57
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:14175810 original size:26 final size:25
Alignment explanation
Indices: 14175772--14175878 Score: 160
Period size: 26 Copynumber: 4.2 Consensus size: 25
14175762 TCATACAAAT
14175772 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
* *
14175798 TAATAATGAGTTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTCCA
14175824 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
14175850 TGATAATGGATAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
14175875 TGAT
1 TGAT
14175879 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
25 22 0.30
26 51 0.69
27 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:14177521 original size:27 final size:26
Alignment explanation
Indices: 14177472--14177551 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 26
14177462 AGGAAGCGTC
* *
14177472 CTGGTGGCTATGCCACAAATATCTG-AT
1 CTGGTGGCTCTG-CAC-ATTATCTGTAT
14177499 CTGGTGGCTCTGCGACGATTATCTGTAT
1 CTGGTGGCTCTGC-AC-ATTATCTGTAT
*
14177527 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTG-CACATTATCTGT
14177552 TATGGCAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 29 0.63
28 15 0.33
29 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCACATTATCTGTAT
Found at i:14178631 original size:20 final size:20
Alignment explanation
Indices: 14178574--14178631 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
14178564 TGCCCATGGG
* *
14178574 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCGTGTCC
14178594 CAGGCCACACGGGCGTGTCC
1 CAGGCCACACGGGCGTGTCC
*
14178614 CAGGCCACACGGGTGTGT
1 CAGGCCACACGGGCGTGT
14178632 GCCCCTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGGCGTGTCC
Found at i:14179281 original size:16 final size:17
Alignment explanation
Indices: 14179252--14179285 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14179242 TTTAAGTCTC
*
14179252 TTTATAATTTATAAAAT
1 TTTATAATTAATAAAAT
14179269 TTTA-AATTAATAAAAT
1 TTTATAATTAATAAAAT
14179285 T
1 T
14179286 ACACTTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATAATTAATAAAAT
Found at i:14180050 original size:21 final size:22
Alignment explanation
Indices: 14180022--14180069 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
14180012 TGTATTTTTG
* *
14180022 AAAT-TATTTTTTTA-AATATT
1 AAATATATTTTTTAATAATATA
14180042 AAATATATTTTTTAATAATATA
1 AAATATATTTTTTAATAATATA
14180064 AAATAT
1 AAATAT
14180070 TTAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATATATTTTTTAATAATATA
Found at i:14180196 original size:24 final size:24
Alignment explanation
Indices: 14180161--14180216 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14180151 TTCTAATTTG
*
14180161 TTTTATAATATTTTAAAT-TATGAT
1 TTTTA-AATATTTAAAATATATGAT
*
14180185 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAA-TATTTAAAATATATGAT
14180210 TTTTAAA
1 TTTTAAA
14180217 GATATGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAAATATTTAAAATATATGAT
Found at i:14180265 original size:11 final size:13
Alignment explanation
Indices: 14180168--14180276 Score: 57
Period size: 13 Copynumber: 8.0 Consensus size: 13
14180158 TTGTTTTATA
14180168 ATATTTTAAAT-T
1 ATATTTTAAATAT
*
14180180 ATGATTTTTAA-AT
1 AT-ATTTTAAATAT
*
14180193 -TATTTAAAATAT
1 ATATTTTAAATAT
*
14180205 ATTATTTTTAAAGAT
1 A-TA-TTTTAAATAT
14180220 ATGACCTTTTAAATTTATT
1 AT-A--TTTTAAA--TA-T
*
14180239 ATTATTTT-TATA-
1 A-TATTTTAAATAT
14180251 ATATTTTAAATAT
1 ATATTTTAAATAT
14180264 ATATTTTAAATAT
1 ATATTTTAAATAT
14180277 TAAATATAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 27
0.67 0.08 0.25
Matches are distributed among these distances:
11 12 0.16
12 9 0.12
13 21 0.28
14 5 0.07
15 10 0.14
16 8 0.11
17 4 0.05
18 1 0.01
19 3 0.04
20 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:14180290 original size:20 final size:21
Alignment explanation
Indices: 14180241--14180294 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
14180231 AATTTATTAT
14180241 TATTTTTATAATATTTTAAATA
1 TATTTTTATAATA-TTTAAATA
14180263 TATATTTTA-AATA-TTAAATA
1 TAT-TTTTATAATATTTAAATA
14180283 TAATTTTTATAA
1 T-ATTTTTATAA
14180295 ATTATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 13 0.45
21 4 0.14
22 7 0.24
23 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTTATAATATTTAAATA
Found at i:14180457 original size:22 final size:21
Alignment explanation
Indices: 14180424--14180487 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 21
14180414 TTAAATTTTT
14180424 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
14180446 ATATTTT-AAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
*
14180467 AAATTTTAAAAAATA-ATTTA
1 ATATTTTAAAAAATATATTTA
14180487 A
1 A
14180488 AAATAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 12 0.31
21 16 0.41
22 11 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:14180463 original size:14 final size:13
Alignment explanation
Indices: 14180444--14180502 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
14180434 AAAATATATT
14180444 TAATATTTTAAAAA
1 TAATA-TTTAAAAA
14180458 TAATATTT-AAAA
1 TAATATTTAAAAA
*
14180470 T--T-TTAAAAAA
1 TAATATTTAAAAA
14180480 T-A-ATTTAAAAA
1 TAATATTTAAAAA
14180491 TAATATTTAAAA
1 TAATATTTAAAA
14180503 TTTAACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
9 2 0.05
10 6 0.16
11 8 0.21
12 6 0.16
13 11 0.29
14 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:14180486 original size:12 final size:11
Alignment explanation
Indices: 14180445--14180533 Score: 51
Period size: 12 Copynumber: 7.9 Consensus size: 11
14180435 AAATATATTT
*
14180445 AATATTTTAAA
1 AATAATTTAAA
*
14180456 AATAATATTTAA
1 AATAAT-TTAAA
14180468 AAT--TTTAAAA
1 AATAATTT-AAA
14180478 AATAATTTAAA
1 AATAATTTAAA
*
14180489 AATAATATTTAA
1 AATAAT-TTAAA
*
14180501 AAT--TTAACAA
1 AATAATTTA-AA
14180511 AATAATTTCAAA
1 AATAATTT-AAA
*
14180523 TATATATTTAA
1 AATA-ATTTAA
14180534 TATTCAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
9 3 0.05
10 12 0.20
11 14 0.23
12 26 0.43
13 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:14180488 original size:33 final size:33
Alignment explanation
Indices: 14180445--14180533 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
14180435 AAATATATTT
*
14180445 AATATTTTAAAAATAATATTTAAAATTTTAA-AA
1 AATAATTTAAAAATAATATTTAAAA-TTTAACAA
14180478 AATAATTTAAAAATAATATTTAAAATTTAACAA
1 AATAATTTAAAAATAATATTTAAAATTTAACAA
*
14180511 AATAATTT-CAAATATATATTTAA
1 AATAATTTAAAAATA-ATATTTAA
14180534 TATTCAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 10 0.19
33 42 0.81
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
AATAATTTAAAAATAATATTTAAAATTTAACAA
Found at i:14180523 original size:20 final size:20
Alignment explanation
Indices: 14180433--14180507 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 20
14180423 TATATTATTA
*
14180433 AAAAAT-ATATTTAATATTTT
1 AAAAATAATATTTAA-AATTT
14180453 AAAAATAATATTTAAAATTT
1 AAAAATAATATTTAAAATTT
*
14180473 -TAAA-AA-A--T--AATTT
1 AAAAATAATATTTAAAATTT
14180486 AAAAATAATATTTAAAATTT
1 AAAAATAATATTTAAAATTT
14180506 AA
1 AA
14180508 CAAAATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.11
14 3 0.07
15 3 0.07
16 1 0.02
17 1 0.02
18 3 0.07
19 3 0.07
20 17 0.39
21 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATAATATTTAAAATTT
Found at i:14180541 original size:19 final size:18
Alignment explanation
Indices: 14180513--14180548 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14180503 TTTAACAAAA
*
14180513 TAATTTCAAATATATATT
1 TAATTTCAAAAATATATT
14180531 TAATATTCAAAAATATAT
1 TAAT-TTCAAAAATATAT
14180549 ATATTATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTTCAAAAATATATT
Found at i:14181216 original size:29 final size:29
Alignment explanation
Indices: 14181184--14181240 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
14181174 TATTATCAGT
14181184 CTTTGTCTGTATGTATATGTAGTCTTGTG
1 CTTTGTCTGTATGTATATGTAGTCTTGTG
14181213 CTTTGTCTGTATGTATATGTAGTCTTGT
1 CTTTGTCTGTATGTATATGTAGTCTTGT
14181241 ACAGATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.53
Consensus pattern (29 bp):
CTTTGTCTGTATGTATATGTAGTCTTGTG
Found at i:14182961 original size:35 final size:35
Alignment explanation
Indices: 14182916--14182985 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14182906 ATCCATTGGG
14182916 TTTTTGCAGATTCAGTCAAAGATGCTTAGTAAACT
1 TTTTTGCAGATTCAGTCAAAGATGCTTAGTAAACT
14182951 TTTTTGCAGATTCAGTCAAAGATGCTTAGTAAACT
1 TTTTTGCAGATTCAGTCAAAGATGCTTAGTAAACT
14182986 GAGTTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (35 bp):
TTTTTGCAGATTCAGTCAAAGATGCTTAGTAAACT
Found at i:14185356 original size:26 final size:27
Alignment explanation
Indices: 14185305--14185378 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
14185295 ATGTCAAAAT
14185305 TTAATTAATTTTTTAAATTTTAAATAATA
1 TTAA-TAA-TTTTTAAATTTTAAATAATA
* *
14185334 TTAA-AATTTTTATAGTTTT-AATAATT
1 TTAATAATTTTTA-AATTTTAAATAATA
* *
14185360 TTAATGATTTTTAATTTTT
1 TTAATAATTTTTAAATTTT
14185379 TATTTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 21 0.54
27 14 0.36
29 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
TTAATAATTTTTAAATTTTAAATAATA
Found at i:14185374 original size:10 final size:9
Alignment explanation
Indices: 14185320--14185370 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
14185310 TAATTTTTTA
14185320 AATTTTAAAT
1 AATTTT-AAT
*
14185330 AATATTAA-
1 AATTTTAAT
*
14185338 AATTTTTAT
1 AATTTTAAT
*
14185347 AGTTTTAAT
1 AATTTTAAT
14185356 AATTTTAAT
1 AATTTTAAT
*
14185365 GATTTT
1 AATTTT
14185371 TAATTTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
8 6 0.18
9 22 0.67
10 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (9 bp):
AATTTTAAT
Found at i:14185838 original size:6 final size:6
Alignment explanation
Indices: 14185827--14185865 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
14185817 ACAGCTGTCA
14185827 GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTG
1 GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTG
14185866 CTGTTGCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.67, T:0.18
Consensus pattern (6 bp):
GTGGCG
Found at i:14189096 original size:27 final size:26
Alignment explanation
Indices: 14189064--14189128 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
14189054 TGTCCACAAC
14189064 CCTCTAAAAATTAAGATTACCCACGA
1 CCTCTAAAAATTAAGATTACCCACGA
* * * *
14189090 CCTTCTAGAAATT-GGATTACTCATGA
1 CC-TCTAAAAATTAAGATTACCCACGA
*
14189116 CCTCTGAAAATTA
1 CCTCTAAAAATTA
14189129 GAGCTAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 8 0.26
26 14 0.45
27 9 0.29
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (26 bp):
CCTCTAAAAATTAAGATTACCCACGA
Found at i:14201858 original size:36 final size:36
Alignment explanation
Indices: 14201818--14201936 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 36
14201808 ATTTGTATGG
14201818 TATTTAAAGAAAATATATGTATATTTTTGGGGATAC
1 TATTTAAAGAAAATATATGTATATTTTTGGGGATAC
* * * ** * **
14201854 TATTTAAA-AAATACTTTACTTTCT-TTTATATTTGTATGG
1 TATTTAAAGAAA-A-TATA-TGTATATTT-T-TGGGGATAC
14201893 TATTTAAAGAAAATATATGTATATTTTTGGGGATAC
1 TATTTAAAGAAAATATATGTATATTTTTGGGGATAC
14201929 TATTTAAA
1 TATTTAAA
14201937 AAATACTTTT
Statistics
Matches: 60, Mismatches: 16, Indels: 14
0.67 0.18 0.16
Matches are distributed among these distances:
35 3 0.05
36 21 0.35
37 10 0.17
38 10 0.17
39 13 0.22
40 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (36 bp):
TATTTAAAGAAAATATATGTATATTTTTGGGGATAC
Found at i:14201880 original size:75 final size:75
Alignment explanation
Indices: 14201796--14201945 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
14201786 TAAAAAGATA
14201796 ACTTTCTTTTATATTTGTATGGTATTTAAAGAAAATATATGTATATTTTTGGGGATACTATTTAA
1 ACTTTCTTTTATATTTGTATGGTATTTAAAGAAAATATATGTATATTTTTGGGGATACTATTTAA
14201861 AAAATACTTT
66 AAAATACTTT
14201871 ACTTTCTTTTATATTTGTATGGTATTTAAAGAAAATATATGTATATTTTTGGGGATACTATTTAA
1 ACTTTCTTTTATATTTGTATGGTATTTAAAGAAAATATATGTATATTTTTGGGGATACTATTTAA
14201936 AAAATACTTT
66 AAAATACTTT
14201946 TTTTCCAACT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (75 bp):
ACTTTCTTTTATATTTGTATGGTATTTAAAGAAAATATATGTATATTTTTGGGGATACTATTTAA
AAAATACTTT
Found at i:14207910 original size:15 final size:16
Alignment explanation
Indices: 14207887--14207924 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14207877 TGAATGGAAG
*
14207887 TAAAATTTTG-AAATT
1 TAAATTTTTGAAAATT
14207902 TAAATTTTTGAAAATT
1 TAAATTTTTGAAAATT
14207918 TAAATTT
1 TAAATTT
14207925 GTAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TAAATTTTTGAAAATT
Found at i:14208260 original size:37 final size:36
Alignment explanation
Indices: 14208219--14208353 Score: 108
Period size: 37 Copynumber: 3.6 Consensus size: 36
14208209 ATCTTTACTA
*
14208219 TTCATCTCTATCTTTTCTTTACAGAGAACCACATCTG
1 TTCATCTCTATCTTTTTTTTACAGAGAACCAC-TCTG
* * * *
14208256 TTCATCTTTGTCTTTTTTTTTTTGCAAAGAACCACTCATG
1 TTCATCTCTATC---TTTTTTTTACAGAGAACCACTC-TG
* * * * * *
14208296 TTTATCTCTATCTTTTATTTGCAGAGAATCACTTATA
1 TTCATCTCTATCTTTTTTTTACAGAGAACCAC-TCTG
*
14208333 TTCATCTCTGTCTTTTTTTTA
1 TTCATCTCTATCTTTTTTTTA
14208354 GGGAATCTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
37 45 0.59
38 1 0.01
39 2 0.03
40 28 0.37
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (36 bp):
TTCATCTCTATCTTTTTTTTACAGAGAACCACTCTG
Found at i:14211765 original size:25 final size:26
Alignment explanation
Indices: 14211737--14211799 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
14211727 TATGGCTCTT
14211737 ATGAGCTTCCCGCTATACA-GA-TCAA
1 ATGAGCTTCCCG-TATACATGACTCAA
* *
14211762 ATGAGTTTCCCGT-TACATGACTCAC
1 ATGAGCTTCCCGTATACATGACTCAA
14211787 ATGAGCTTCCCGT
1 ATGAGCTTCCCGT
14211800 TATATGGCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 26 0.79
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (26 bp):
ATGAGCTTCCCGTATACATGACTCAA
Found at i:14217203 original size:25 final size:25
Alignment explanation
Indices: 14217174--14217225 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14217164 AAGAATAATT
*
14217174 TGAATATTTAATATTGCCTAATAAA
1 TGAATATCTAATATTGCCTAATAAA
* * *
14217199 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTAATATTGCCTAATAAA
14217224 TG
1 TG
14217226 TCAACCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (25 bp):
TGAATATCTAATATTGCCTAATAAA
Found at i:14219954 original size:3 final size:3
Alignment explanation
Indices: 14219946--14220010 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
14219936 CTTTATTAAA
* * * *
14219946 TAT TAT TAT TAC TAT T-T CTAT TAT TAT TAA TAT TAT CAA TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14219991 TAT TAT T-T TTT TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
14220011 GTGTATGTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.06
3 42 0.86
4 4 0.08
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14219969 original size:18 final size:20
Alignment explanation
Indices: 14219945--14219995 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
14219935 TCTTTATTAA
*
14219945 ATATTATTATTACTATT-TC
1 ATATTATTATTAATATTATC
14219964 -TATTATTATTAATATTATC
1 ATATTATTATTAATATTATC
14219983 AATATTATTATTA
1 -ATATTATTATTA
14219996 TTTTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 15 0.54
19 2 0.07
21 11 0.39
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATTATTAATATTATC
Found at i:14220097 original size:3 final size:3
Alignment explanation
Indices: 14220084--14220244 Score: 52
Period size: 3 Copynumber: 53.0 Consensus size: 3
14220074 TTTAATTTCA
* * * *
14220084 TAT TGT TAT TAT TAG TAT TA- TAA TAT TA- TAT TCAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* *
14220128 TAG TAT ATAT T-T TAT TAT ATAT GTAT ATAT ATAT T-T TAT ATAG TAT
1 TAT TAT -TAT TAT TAT TAT -TAT -TAT -TAT -TAT TAT TAT -TAT TAT
** * *
14220174 TAT CGT T-T CTAT TAC TA- TATT TAT TAT TA- TATT TAT TAT T-T TCAC
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT T-AT
* *
14220219 TAT TAT TAT T-T TTT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
14220245 ACGTATATAC
Statistics
Matches: 119, Mismatches: 22, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
2 17 0.14
3 75 0.63
4 27 0.23
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:14220122 original size:12 final size:11
Alignment explanation
Indices: 14220089--14220244 Score: 67
Period size: 12 Copynumber: 13.6 Consensus size: 11
14220079 TTTCATATTG
14220089 TTATTATTAGTA
1 TTATTATTA-TA
14220101 TTATAATATTATA
1 TTAT--TATTATA
14220114 TTCATTATTAATA
1 TT-ATTATT-ATA
*
14220127 TTAGTA-TATA
1 TTATTATTATA
14220137 TT-TTATTATA
1 TTATTATTATA
14220147 -TATGTA-TATA
1 TTAT-TATTATA
14220157 TATATT-TTATA
1 T-TATTATTATA
** *
14220168 TAGTATTATCGTT
1 T--TATTATTATA
*
14220181 TCTATTACTATA
1 T-TATTATTATA
14220193 TTTATTATTATA
1 -TTATTATTATA
*
14220205 TTTATTATTTTCA
1 -TTATTATTAT-A
*
14220218 CTATTATTAT-
1 TTATTATTATA
14220228 TT-TT-TTATCA
1 TTATTATTAT-A
14220238 TTATTAT
1 TTATTAT
14220245 ACGTATATAC
Statistics
Matches: 110, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
8 4 0.04
9 5 0.05
10 17 0.15
11 11 0.10
12 52 0.47
13 14 0.13
14 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATTATTATA
Found at i:14220128 original size:26 final size:28
Alignment explanation
Indices: 14220091--14220143 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
14220081 TCATATTGTT
*
14220091 ATTATTAGTATTA-TA-ATATTATATTC
1 ATTATTAATATTAGTATATATTATATTC
*
14220117 ATTATTAATATTAGTATATATTTTATT
1 ATTATTAATATTAGTATATATTATATT
14220144 ATATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 2 0.09
28 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (28 bp):
ATTATTAATATTAGTATATATTATATTC
Found at i:14220160 original size:26 final size:25
Alignment explanation
Indices: 14220083--14220161 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 25
14220073 CTTTAATTTC
14220083 ATATTGTTATTATTA-GTAT-TATA-
1 ATATT-TTATTATTATGTATATATAT
*
14220106 ATATTATATTCATTAT-TAATATTAGTAT
1 ATATTTTATT-ATTATGT-ATA-TA-TAT
14220134 ATATTTTATTATATATGTATATATAT
1 ATATTTTATTAT-TATGTATATATAT
14220160 AT
1 AT
14220162 TTTATATAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.09
23 10 0.22
24 2 0.04
26 7 0.16
27 6 0.13
28 15 0.33
29 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (25 bp):
ATATTTTATTATTATGTATATATAT
Found at i:14220399 original size:15 final size:16
Alignment explanation
Indices: 14220378--14220416 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14220368 TTATATTATG
* *
14220378 TATATTATTTTTTTAA
1 TATATTATATCTTTAA
14220394 -ATATTATATCTTTAA
1 TATATTATATCTTTAA
14220409 TATATTAT
1 TATATTAT
14220417 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTATATCTTTAA
Found at i:14220426 original size:13 final size:13
Alignment explanation
Indices: 14220408--14220499 Score: 58
Period size: 13 Copynumber: 7.6 Consensus size: 13
14220398 TATATCTTTA
14220408 ATATATTATGTAT
1 ATATATTATGTAT
*
14220421 ATATATTATGTAC
1 ATATATTATGTAT
*
14220434 ATA-CTT-T-TA-
1 ATATATTATGTAT
14220443 ATATTATTATGTAT
1 ATA-TATTATGTAT
* * *
14220457 TTATCTT-T-AAT
1 ATATATTATGTAT
14220468 ATATA-TATGTAT
1 ATATATTATGTAT
14220480 ATAT-TTATGTA-
1 ATATATTATGTAT
14220491 ATATTATTA
1 ATA-TATTA
14220500 ATAATTGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
9 3 0.05
10 3 0.05
11 12 0.20
12 17 0.28
13 23 0.38
14 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATATTATGTAT
Found at i:14220453 original size:23 final size:22
Alignment explanation
Indices: 14220419--14220499 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 22
14220409 TATATTATGT
*
14220419 ATATATATTATGTACATACTTTTA
1 ATAT-TATTATGTATATA-TTTTA
*
14220443 ATATTATTATGTATTTATCTTTA
1 ATATTATTATGTATATAT-TTTA
14220466 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATA-TT-T-TA
14220491 ATATTATTA
1 ATATTATTA
14220500 ATAATTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.08
23 28 0.58
24 6 0.12
25 7 0.15
26 3 0.06
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATTATTATGTATATATTTTA
Found at i:14220793 original size:25 final size:25
Alignment explanation
Indices: 14220763--14220844 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
14220753 CTAATATGTA
14220763 TATATTATGTAAATATTTTTAATAT
1 TATATTATGTAAATATTTTTAATAT
* * *
14220788 TATATTATATATACATTTTT-ATA-
1 TATATTATGTAAATATTTTTAATAT
* *
14220811 TATATTACGTATATATATCATTTAATAT
1 TATATTATGTA-A-ATAT-TTTTAATAT
*
14220839 TGTATT
1 TATATT
14220845 TTTATATGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
23 9 0.21
24 3 0.07
25 20 0.47
26 3 0.07
27 3 0.07
28 5 0.12
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTATGTAAATATTTTTAATAT
Found at i:14220823 original size:23 final size:24
Alignment explanation
Indices: 14220761--14220823 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
14220751 CTCTAATATG
* *
14220761 TATATATTATGTAAATATTTTTAA
1 TATATATTATGTATACATTTTTAA
*
14220785 TATTATATTATATATACATTTTT-A
1 TA-TATATTATGTATACATTTTTAA
*
14220809 TATATATTACGTATA
1 TATATATTATGTATA
14220824 TATATCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 11 0.33
24 5 0.15
25 17 0.52
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:14221066 original size:25 final size:25
Alignment explanation
Indices: 14221032--14221080 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14221022 ATGTATACAT
* *
14221032 TTTTTAATACTATATTATATATATA
1 TTTTAAATACCATATTATATATATA
* *
14221057 TTTTAAATACCGTATTATGTATAT
1 TTTTAAATACCATATTATATATAT
14221081 GTTATTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTAAATACCATATTATATATATA
Found at i:14221172 original size:15 final size:17
Alignment explanation
Indices: 14221152--14221190 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14221142 ATTATACGTG
14221152 TATATATA-TACT-TTT
1 TATATATAGTACTATTT
*
14221167 TATATATAGTATTATTT
1 TATATATAGTACTATTT
14221184 TATATAT
1 TATATAT
14221191 CATTATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TATATATAGTACTATTT
Found at i:14224785 original size:37 final size:37
Alignment explanation
Indices: 14224744--14224817 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
14224734 TGCGTGTGCT
14224744 ATGATAGAGTTAAGAAAGAAGAATGCTGAGTATGAAA
1 ATGATAGAGTTAAGAAAGAAGAATGCTGAGTATGAAA
14224781 ATGATAGAGTTAAGAAAGAAGAATGCTGAGTATGAAA
1 ATGATAGAGTTAAGAAAGAAGAATGCTGAGTATGAAA
14224818 CTGTGACTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.27, T:0.22
Consensus pattern (37 bp):
ATGATAGAGTTAAGAAAGAAGAATGCTGAGTATGAAA
Found at i:14224811 original size:21 final size:21
Alignment explanation
Indices: 14224750--14224811 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
14224740 TGCTATGATA
14224750 GAGTTAAGAAAGAAGAATGCT
1 GAGTTAAGAAAGAAGAATGCT
* * *
14224771 GAG-TATGAAA-ATG-AT--A
1 GAGTTAAGAAAGAAGAATGCT
14224787 GAGTTAAGAAAGAAGAATGCT
1 GAGTTAAGAAAGAAGAATGCT
14224808 GAGT
1 GAGT
14224812 ATGAAACTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 3 0.10
17 6 0.20
18 4 0.13
19 4 0.13
20 6 0.20
21 7 0.23
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (21 bp):
GAGTTAAGAAAGAAGAATGCT
Found at i:14225323 original size:22 final size:22
Alignment explanation
Indices: 14225298--14225352 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14225288 ATTCATGACT
*
14225298 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
14225320 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
14225342 ATTCATTCATT
1 A-ACATTCATT
14225353 GCATGTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:14233839 original size:75 final size:75
Alignment explanation
Indices: 14233659--14233877 Score: 357
Period size: 75 Copynumber: 2.9 Consensus size: 75
14233649 TTTTGTTTTC
* * *
14233659 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT-AATTT
14233724 CTGTTCATCAA
65 CTGTTCATCAA
*
14233735 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTC
14233800 TGTTCATCAA
66 TGTTCATCAA
* *
14233810 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACACACTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTTAATT
14233875 TCT
64 TCT
14233878 ATTTTTTTCA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
75 56 0.42
76 55 0.41
77 23 0.17
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTC
TGTTCATCAA
Found at i:14234027 original size:87 final size:88
Alignment explanation
Indices: 14233810--14234027 Score: 257
Period size: 91 Copynumber: 2.5 Consensus size: 88
14233800 TGTTCATCAA
*
14233810 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACACACTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTACACACTGAGGTATTTTTAA--
* * *
14233875 TCTATTTTTTTCAATTTATGTTTTTC
64 TATATGTTTTTCAATTCATG-TTTTC
* * *
14233901 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGG-T-CATATTTCGAGGTATTTTTAG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTACACA-CT-GAGGTATTTTTA-
14233964 A-ATATGTTTTTCAAATTCA-G-TTTC
63 ATATATGTTTTTC-AATTCATGTTTTC
* *
14233988 AAAAATCAACTGATATCGCGAGAGGTGAGTTGAGCCTTGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
14234028 CTCACGTGCT
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
87 41 0.36
89 13 0.12
90 7 0.06
91 51 0.45
92 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTACACACTGAGGTATTTTTAATA
TATGTTTTTCAATTCATGTTTTC
Found at i:14235895 original size:23 final size:24
Alignment explanation
Indices: 14235869--14235964 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 24
14235859 CTTTAATTTC
14235869 ATATTGTTATTAT-TAGTATTATA-
1 ATATT-TTATTATATAGTATTATAT
* *
14235892 ATATTATATTCATTATTAATATTAGTAT
1 ATATTTTATT-A-TA-TAGTATTA-TAT
14235920 ATATTTTATTATATATGTA-TATAT
1 ATATTTTATTATATA-GTATTATAT
*
14235944 ATATTTT-TTATAGAGTATTAT
1 ATATTTTATTATATAGTATTAT
14235965 CGTTTCTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
22 7 0.12
23 15 0.25
24 11 0.18
25 4 0.07
26 11 0.18
27 3 0.05
28 9 0.15
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (24 bp):
ATATTTTATTATATAGTATTATAT
Found at i:14235908 original size:12 final size:11
Alignment explanation
Indices: 14235875--14236032 Score: 51
Period size: 12 Copynumber: 13.6 Consensus size: 11
14235865 TTTCATATTG
14235875 TTATTATTAGTA
1 TTATTATTA-TA
14235887 TTATAATATTATA
1 TTAT--TATTATA
14235900 TTCATTATTAATA
1 TT-ATTATT-ATA
*
14235913 TTAGTA-TATA
1 TTATTATTATA
14235923 TT-TTATTATA
1 TTATTATTATA
14235933 -TATGTA-TATA
1 TTAT-TATTATA
*
14235943 TATATTTTTTATAGA
1 T-TA-TTATTAT--A
* ** *
14235958 GTATTATCGTT
1 TTATTATTATA
*
14235969 TCTATTACTATA
1 T-TATTATTATA
14235981 TTTATTATTATA
1 -TTATTATTATA
14235993 TTTATTATT-T-
1 -TTATTATTATA
*
14236003 TTACTATTATTA
1 TTATTATTA-TA
*
14236015 TT-TTTTTATCA
1 TTATTATTAT-A
14236026 TTATTAT
1 TTATTAT
14236033 ACGTATATAC
Statistics
Matches: 108, Mismatches: 18, Indels: 40
0.65 0.11 0.24
Matches are distributed among these distances:
9 10 0.09
10 15 0.14
11 12 0.11
12 43 0.40
13 18 0.17
14 9 0.08
15 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (11 bp):
TTATTATTATA
Found at i:14235914 original size:26 final size:28
Alignment explanation
Indices: 14235877--14235929 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
14235867 TCATATTGTT
*
14235877 ATTATTAGTATTA-TA-ATATTATATTC
1 ATTATTAATATTAGTATATATTATATTC
*
14235903 ATTATTAATATTAGTATATATTTTATT
1 ATTATTAATATTAGTATATATTATATT
14235930 ATATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 2 0.09
28 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (28 bp):
ATTATTAATATTAGTATATATTATATTC
Found at i:14235946 original size:26 final size:25
Alignment explanation
Indices: 14235869--14235954 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 25
14235859 CTTTAATTTC
14235869 ATATTGTTATTATTA-GTAT-TATA-
1 ATATT-TTATTATTATGTATATATAT
*
14235892 ATATTATATTCATTAT-TAATATTAGTAT
1 ATATTTTATT-ATTATGT-ATA-TA-TAT
14235920 ATATTTTATTATATATGTATATATAT
1 ATATTTTATTAT-TATGTATATATAT
*
14235946 ATTTTTTAT
1 ATATTTTAT
14235955 AGAGTATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
22 4 0.08
23 10 0.20
24 2 0.04
26 13 0.25
27 6 0.12
28 15 0.29
29 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (25 bp):
ATATTTTATTATTATGTATATATAT
Found at i:14235961 original size:22 final size:24
Alignment explanation
Indices: 14235917--14235961 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14235907 TTAATATTAG
*
14235917 TATATATTTTATTATATATGTATA
1 TATATATTTTATTATAGATGTATA
14235941 TATATATTTT-TTATAGA-GTAT
1 TATATATTTTATTATAGATGTAT
14235962 TATCGTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (24 bp):
TATATATTTTATTATAGATGTATA
Found at i:14236022 original size:17 final size:18
Alignment explanation
Indices: 14235994--14236032 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
14235984 ATTATTATAT
14235994 TTATTATTTTTA-CTATTA
1 TTATTATTTTTATC-ATTA
14236012 TTATT-TTTTTATCATTA
1 TTATTATTTTTATCATTA
14236029 TTAT
1 TTAT
14236033 ACGTATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATTTTTATCATTA
Found at i:14236188 original size:15 final size:16
Alignment explanation
Indices: 14236167--14236205 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14236157 TTATATTATG
* *
14236167 TATATTATTTTTTTAA
1 TATATTATATCTTTAA
14236183 -ATATTATATCTTTAA
1 TATATTATATCTTTAA
14236198 TATATTAT
1 TATATTAT
14236206 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTATATCTTTAA
Found at i:14236215 original size:13 final size:13
Alignment explanation
Indices: 14236197--14236288 Score: 58
Period size: 13 Copynumber: 7.6 Consensus size: 13
14236187 TATATCTTTA
14236197 ATATATTATGTAT
1 ATATATTATGTAT
*
14236210 ATATATTATGTAC
1 ATATATTATGTAT
*
14236223 ATA-CTT-T-TA-
1 ATATATTATGTAT
14236232 ATATTATTATGTAT
1 ATA-TATTATGTAT
* * *
14236246 TTATCTT-T-AAT
1 ATATATTATGTAT
14236257 ATATA-TATGTAT
1 ATATATTATGTAT
14236269 ATAT-TTATGTA-
1 ATATATTATGTAT
14236280 ATATTATTA
1 ATA-TATTA
14236289 ATAATTGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
9 3 0.05
10 3 0.05
11 12 0.20
12 17 0.28
13 23 0.38
14 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATATTATGTAT
Found at i:14236242 original size:23 final size:22
Alignment explanation
Indices: 14236208--14236288 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 22
14236198 TATATTATGT
*
14236208 ATATATATTATGTACATACTTTTA
1 ATAT-TATTATGTATATA-TTTTA
*
14236232 ATATTATTATGTATTTATCTTTA
1 ATATTATTATGTATATAT-TTTA
14236255 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATA-TT-T-TA
14236280 ATATTATTA
1 ATATTATTA
14236289 ATAATTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.08
23 28 0.58
24 6 0.12
25 7 0.15
26 3 0.06
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATTATTATGTATATATTTTA
Found at i:14236560 original size:11 final size:11
Alignment explanation
Indices: 14236548--14236613 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
14236538 CTCTAATATG
*
14236548 TATATATTATG
1 TATATATTATA
* *
14236559 TAAATATTTTTAA
1 TATATA-TTAT-A
14236572 TATATATTATA
1 TATATATTATA
* *
14236583 TATACATTTTA
1 TATATATTATA
14236594 TATATATTACGTA
1 TATATATTA--TA
14236607 TATATAT
1 TATATAT
14236614 CATTTAATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
11 22 0.52
12 6 0.14
13 14 0.33
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
TATATATTATA
Found at i:14236577 original size:24 final size:23
Alignment explanation
Indices: 14236548--14236611 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
14236538 CTCTAATATG
*
14236548 TATATATTATGTAAATATTTTTAA
1 TATATATTATGTATATATTTTT-A
* *
14236572 TATATATTATATATACA-TTTTA
1 TATATATTATGTATATATTTTTA
*
14236594 TATATATTACGTATATAT
1 TATATATTATGTATATAT
14236612 ATCATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.45
23 4 0.12
24 14 0.42
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (23 bp):
TATATATTATGTATATATTTTTA
Found at i:14236844 original size:25 final size:26
Alignment explanation
Indices: 14236811--14236868 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
14236801 ATATACTATG
14236811 TATACATTTTTTT-AATACTATATTA
1 TATACATTTTTTTAAATACTATATTA
* *
14236836 TATATATTTTTTTAAATACTGTATTA
1 TATACATTTTTTTAAATACTATATTA
*
14236862 TGTACAT
1 TATACAT
14236869 GTTATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (26 bp):
TATACATTTTTTTAAATACTATATTA
Found at i:14237974 original size:12 final size:13
Alignment explanation
Indices: 14237942--14237977 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14237932 CATTCTCCTT
*
14237942 CCCTTTCCCCTAC
1 CCCTTTCCCTTAC
14237955 CCCTTTCCCTTAC
1 CCCTTTCCCTTAC
14237968 CCC-TTCCCTT
1 CCCTTTCCCTT
14237978 TCCCGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.06, C:0.58, G:0.00, T:0.36
Consensus pattern (13 bp):
CCCTTTCCCTTAC
Found at i:14240505 original size:20 final size:20
Alignment explanation
Indices: 14240480--14240519 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14240470 AATATTTTTC
*
14240480 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
14240500 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
14240520 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:14240575 original size:34 final size:34
Alignment explanation
Indices: 14240537--14240606 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
14240527 ACGGCAATCA
14240537 AACAGACCCTAAATGACTTTTAATTTTGGGAATT
1 AACAGACCCTAAATGACTTTTAATTTTGGGAATT
14240571 AACAGACCCTAAATGACTTTTAATTTTGGGAATT
1 AACAGACCCTAAATGACTTTTAATTTTGGGAATT
14240605 AA
1 AA
14240607 ATGAAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (34 bp):
AACAGACCCTAAATGACTTTTAATTTTGGGAATT
Found at i:14241610 original size:12 final size:12
Alignment explanation
Indices: 14241589--14241615 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14241579 CAAAATTTTT
14241589 TATACATATATA
1 TATACATATATA
14241601 TATACATATATA
1 TATACATATATA
14241613 TAT
1 TAT
14241616 TTCAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:14242021 original size:21 final size:21
Alignment explanation
Indices: 14241975--14242025 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
14241965 TTTATTGTTA
14241975 TTTATTTTAGACCTTTCATATG
1 TTTATTTTAGA-CTTTCATATG
*
14241997 -TTATTTTAGA-TTGTTATATG
1 TTTATTTTAGACTT-TCATATG
14242017 TTTATTTTA
1 TTTATTTTA
14242026 ATTTACTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.23
21 18 0.69
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (21 bp):
TTTATTTTAGACTTTCATATG
Found at i:14242182 original size:22 final size:22
Alignment explanation
Indices: 14242140--14242182 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14242130 TTTATGTATT
**
14242140 ATTTATTTTAAATTGTCTCATC
1 ATTTATTTTAAAGGGTCTCATC
*
14242162 ATTTATTTTAAAGGGTTTCAT
1 ATTTATTTTAAAGGGTCTCAT
14242183 GTTGTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (22 bp):
ATTTATTTTAAAGGGTCTCATC
Found at i:14243463 original size:25 final size:24
Alignment explanation
Indices: 14243355--14243509 Score: 59
Period size: 24 Copynumber: 6.6 Consensus size: 24
14243345 ATATGTATAC
*
14243355 ATTATGTAAATA-TTTTACTACTA-T
1 ATTATGTATATATTTTTA-TA-TATT
14243379 ATTATGTATATATTTTTCATATA-T
1 ATTATGTATATATTTTT-ATATATT
* * *
14243403 GTTATGTACATACATTTTTCA-AT-GT
1 ATTATGT--ATATATTTTT-ATATATT
14243428 -TTAT-T-T-T-TTTTATATATATT
1 ATTATGTATATATTTT-TATATATT
*
14243448 ATTATGTATATA-TTTTA-ACATT
1 ATTATGTATATATTTTTATATATT
* *
14243470 ACTA-GTTATATATTTTTTTTACTATT
1 ATTATG-TATATA-TTTTTATA-TATT
14243496 -TTATGTATATATTT
1 ATTATGTATATATTT
14243510 CAAATACTAT
Statistics
Matches: 102, Mismatches: 10, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
18 5 0.05
19 3 0.03
20 2 0.02
21 5 0.05
22 14 0.14
23 4 0.04
24 35 0.34
25 18 0.18
26 16 0.16
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (24 bp):
ATTATGTATATATTTTTATATATT
Found at i:14244740 original size:24 final size:25
Alignment explanation
Indices: 14244706--14244754 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
14244696 ACAATGCAAA
14244706 TGAGACAAAATT-TTGTAGACAGAAT
1 TGAGACAAAATTATTGTAG-CAGAAT
*
14244731 TGAGA-AAAATTATTTTAGCAGAAT
1 TGAGACAAAATTATTGTAGCAGAAT
14244755 ATCCATTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (25 bp):
TGAGACAAAATTATTGTAGCAGAAT
Found at i:14259751 original size:37 final size:37
Alignment explanation
Indices: 14259700--14259780 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
14259690 GAGTGATTCT
*
14259700 TACAAAGAAAAGATGAAGATGAATAGTAAAGATTTTC
1 TACAAAGAAAAGATGAAGATGAACAGTAAAGATTTTC
** *
14259737 TACAAAGATGAGATGGAGATGAACAGTAAAGATTTTC
1 TACAAAGAAAAGATGAAGATGAACAGTAAAGATTTTC
14259774 TGACAAA
1 T-ACAAA
14259781 ATTCTCTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.23
Consensus pattern (37 bp):
TACAAAGAAAAGATGAAGATGAACAGTAAAGATTTTC
Found at i:14264125 original size:13 final size:13
Alignment explanation
Indices: 14264107--14264222 Score: 88
Period size: 13 Copynumber: 9.2 Consensus size: 13
14264097 AAATATCTTT
14264107 ACTCCACTAAACC
1 ACTCCACTAAACC
14264120 ACT-C-C--AACC
1 ACTCCACTAAACC
*
14264129 ACTCCACTAAACT
1 ACTCCACTAAACC
*
14264142 ACTCCAACCACTCTAACC
1 ACT----CCACT-AAACC
14264160 ACTCCACTAAACC
1 ACTCCACTAAACC
*
14264173 ACTACACTAAACC
1 ACTCCACTAAACC
14264186 AC-CC-C--AACC
1 ACTCCACTAAACC
14264195 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
14264208 ACTCCACTAAACC
1 ACTCCACTAAACC
14264221 AC
1 AC
14264223 CCCAACCACT
Statistics
Matches: 83, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
9 15 0.18
10 1 0.01
11 4 0.05
12 2 0.02
13 43 0.52
14 7 0.08
17 5 0.06
18 6 0.07
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:14264132 original size:22 final size:22
Alignment explanation
Indices: 14264107--14264213 Score: 110
Period size: 22 Copynumber: 4.9 Consensus size: 22
14264097 AAATATCTTT
14264107 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
14264129 ACTCCACTAAACTACTCCAACC
1 ACTCCACTAAACCACTCCAACC
* * ** *
14264151 ACTCTAACCACTCCACT-AAACC
1 ACTC-CACTAAACCACTCCAACC
* *
14264173 ACTACACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
14264195 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
14264214 CTAAACCACC
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
21 8 0.12
22 51 0.77
23 7 0.11
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:14264195 original size:35 final size:34
Alignment explanation
Indices: 14264111--14264235 Score: 159
Period size: 35 Copynumber: 3.7 Consensus size: 34
14264101 ATCTTTACTC
* *
14264111 CACTAAACCACTCCAACCACTCCACTAAACTACT
1 CACTAAACCACCCCAACCACTCCACTAAACCACT
* *
14264145 C-C--AACCACTCTAACCACTCCACTAAACCACT
1 CACTAAACCACCCCAACCACTCCACTAAACCACT
14264176 ACACTAAACCACCCCAACCAC-CCTACTAAACCACT
1 -CACTAAACCACCCCAACCACTCC-ACTAAACCACT
14264211 CCACTAAACCACCCCAACCACTCCA
1 -CACTAAACCACCCCAACCACTCCA
14264236 TTTGCCTGCA
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
31 27 0.34
32 1 0.01
33 2 0.03
34 3 0.04
35 45 0.56
36 2 0.03
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.14
Consensus pattern (34 bp):
CACTAAACCACCCCAACCACTCCACTAAACCACT
Found at i:14264687 original size:12 final size:12
Alignment explanation
Indices: 14264632--14264699 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
14264622 TATTTTTTTT
* *
14264632 TTATTTTTACTA
1 TTATTTATATTA
14264644 TTATTTATATTA
1 TTATTTATATTA
*
14264656 TTATTTCTCA-T-
1 TTATTTAT-ATTA
*
14264667 GTA--TATATTA
1 TTATTTATATTA
14264677 TTATTTATATTA
1 TTATTTATATTA
14264689 TTA-TTATATTA
1 TTATTTATATTA
14264700 CATATGCCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 1 0.02
9 3 0.07
10 2 0.04
11 10 0.22
12 28 0.62
13 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:14267533 original size:19 final size:19
Alignment explanation
Indices: 14267511--14267554 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
14267501 CCTTTCTTTG
14267511 GCATT-CATTCCATACATTT
1 GCATTACATTCCA-ACATTT
*
14267530 GCATTACATTGCAACATTT
1 GCATTACATTCCAACATTT
14267549 GCATTA
1 GCATTA
14267555 AACTTTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (19 bp):
GCATTACATTCCAACATTT
Found at i:14276960 original size:46 final size:46
Alignment explanation
Indices: 14276910--14277085 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14276900 TGGTTGAGCA
14276910 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14276956 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14277001 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14277049 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14277086 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14277066 original size:93 final size:93
Alignment explanation
Indices: 14276907--14277078 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14276897 GGATGGTTGA
* *
14276907 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14276972 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
14277000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14277065 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
14277079 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:14278621 original size:132 final size:132
Alignment explanation
Indices: 14278384--14279260 Score: 1506
Period size: 132 Copynumber: 6.6 Consensus size: 132
14278374 GGGCATTACA
14278384 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
14278449 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
14278514 TG
131 TG
* * *
14278516 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGAATATTTGGCATCCCTGTGCTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
14278581 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
14278646 TG
131 TG
* *
14278648 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGACATCCCTGTGCTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
*
14278713 ACAGATCGAAGATAGCAGATCTGACATTTCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
14278778 TG
131 TG
*
14278780 GCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
14278845 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC-GATGAAGCAGATCGAAGATTTCAGC
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCGAAGATTTCAGC
14278909 ATG
130 ATG
* * * *
14278912 GCATCCCTGTGCTTATAGGGAACAAATTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAAGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
14278977 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
*
14279042 CG
131 TG
*
14279044 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCATGTGCTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
* * *
14279109 ATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCAAAGATTTCAGCA
66 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
14279174 TG
131 TG
* * * * * *
14279176 GAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAAATTTGGCATTCCTGTGTTTATAGGGA
1 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
* *
14279241 ACA-AGTTGAAGACAGCAGAT
66 ACAGA-TCGAAGATAGCAGAT
14279261 TTGGCATCTT
Statistics
Matches: 705, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
131 2 0.00
132 702 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
TG
Found at i:14279296 original size:44 final size:43
Alignment explanation
Indices: 14278384--14279303 Score: 199
Period size: 44 Copynumber: 20.9 Consensus size: 43
14278374 GGGCATTACA
* * * * *
14278384 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* * * *
14278428 GCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTG
1 GCATTCCTGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * ** *
14278472 ACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--TG
1 GCATTCCTGTGTTTATAGGGAA-CAAG-TCGAAGA-AGCA-AATTTG
* * * *
14278516 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAG-AATATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAA-ATTTG
* * * *
14278560 GCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTG
1 GCATTCCTGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * ** *
14278604 ACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--TG
1 GCATTCCTGTGTTTATAGGGAA-CAAG-TCGAAGA-AGCA-AATTTG
* * * * * *
14278648 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* * * * *
14278692 ACATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTG
1 GCATTCCTGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * * ** *
14278736 ACATTTCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--TG
1 GCATTCCTGTGTTTATAGGGAA-CAAG-TCGAAGA-AGCA-AATTTG
* * ** * *
14278780 GCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* * * *
14278824 GCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTG
1 GCATTCCTGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * ** *
14278868 ACATTCCTGTGCTTA-CGATGAAGC-AGATCGAAGATTTCAGCA--TG
1 GCATTCCTGTGTTTATAG-GGAA-CAAG-TCGAAGA-AGCA-AATTTG
* * * * *
14278912 GCATCCCTGTGCTTATAGGGAACAAATTGAAGATAGCAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* * * * *
14278956 GCATCCCTGTGCTTATAAGGAAC-AGATCGAAGATAGCAGATCTG
1 GCATTCCTGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * ** * *
14279000 ACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--CG
1 GCATTCCTGTGTTTATAGGGAA-CAAG-TCGAAGA-AGCA-AATTTG
* * * * *
14279044 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* * * *
14279088 GCA-TCCATGTGCTTATAGGGAA-TAGATCGAAGATAGCAGATCTG
1 GCATTCC-TGTGTTTATAGGGAACAAG-TCGAAGA-AGCAAATTTG
* * * * ** *
14279132 ACATTCCTGTGCTTA-CGGTGAAGC-AGATCAAAGATTTCAGCA--TG
1 GCATTCCTGTGTTTATAGG-GAA-CAAG-TCGAAGA-AGCA-AATTTG
* * * *
14279176 GAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAAATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* *
14279220 GCATTCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTG
1 GCATTCCTGTGTTTATAGGGAACAAGTCGAAGA-AGCAAATTTG
* *
14279264 GCA-TCTTTGTGTTTATGGGGAAC-AGATCGAAGAAGCAAAT
1 GCATTC-CTGTGTTTATAGGGAACAAG-TCGAAGAAGCAAAT
14279304 CAAGAACTCA
Statistics
Matches: 687, Mismatches: 142, Indels: 95
0.74 0.15 0.10
Matches are distributed among these distances:
42 7 0.01
43 74 0.11
44 511 0.74
45 89 0.13
46 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GCATTCCTGTGTTTATAGGGAACAAGTCGAAGAAGCAAATTTG
Found at i:14279589 original size:22 final size:22
Alignment explanation
Indices: 14279564--14279642 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
14279554 ATCTTTACTT
14279564 CACTAAACCACTCCAACCACTC
1 CACTAAACCACTCCAACCACTC
*
14279586 CACTAAACTACTCCAACCACTC
1 CACTAAACCACTCCAACCACTC
* * ** * *
14279608 TAACCACTCCACT-AAACCACTA
1 -CACTAAACCACTCCAACCACTC
14279630 CACTAAACCACTC
1 CACTAAACCACTC
14279643 TACTAAACCA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 8 0.19
22 28 0.65
23 7 0.16
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (22 bp):
CACTAAACCACTCCAACCACTC
Found at i:14279627 original size:13 final size:13
Alignment explanation
Indices: 14279609--14279688 Score: 98
Period size: 13 Copynumber: 6.5 Consensus size: 13
14279599 CAACCACTCT
14279609 AACCACTCCACTA
1 AACCACTCCACTA
*
14279622 AACCACTACACTA
1 AACCACTCCACTA
*
14279635 AACCACTCTACTA
1 AACCACTCCACTA
14279648 AACCAC-CC-C--
1 AACCACTCCACTA
14279657 AACCAC-CCTACTA
1 AACCACTCC-ACTA
14279670 AACCACTCCACTA
1 AACCACTCCACTA
14279683 AACCAC
1 AACCAC
14279689 CCCAACCAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
9 8 0.14
11 2 0.03
12 1 0.02
13 45 0.78
14 2 0.03
ACGTcount: A:0.40, C:0.46, G:0.00, T:0.14
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:14279661 original size:35 final size:35
Alignment explanation
Indices: 14279622--14279696 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 35
14279612 CACTCCACTA
*
14279622 AACCACTAC-ACTAAACCACTCTACTAAACCACCCC
1 AACCAC-ACTACTAAACCACTCCACTAAACCACCCC
*
14279657 AACCACCCTACTAAACCACTCCACTAAACCACCCC
1 AACCACACTACTAAACCACTCCACTAAACCACCCC
14279692 AACCA
1 AACCA
14279697 GTCCATTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 36 0.97
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (35 bp):
AACCACACTACTAAACCACTCCACTAAACCACCCC
Found at i:14280162 original size:12 final size:12
Alignment explanation
Indices: 14280107--14280174 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
14280097 TTTTATTTTT
* *
14280107 TTATTTTTACTA
1 TTATTTATATTA
14280119 TTATTTATATTA
1 TTATTTATATTA
*
14280131 TTATTTCTCA-T-
1 TTATTTAT-ATTA
*
14280142 GTA--TATATTA
1 TTATTTATATTA
14280152 TTATTTATATTA
1 TTATTTATATTA
14280164 TTA-TTATATTA
1 TTATTTATATTA
14280175 CATATGCCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 1 0.02
9 3 0.07
10 2 0.04
11 10 0.22
12 28 0.62
13 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:14283285 original size:81 final size:76
Alignment explanation
Indices: 14283133--14283278 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 76
14283123 AAAAAAAAAT
*
14283133 CTTAACTTTAAAATATTTAAGTTTTTTTTAAAAATTTAAAATGAAAAAAAATCAAATTTAAGTTT
1 CTTAACTTTAAAATATTTAAGTTTTTTTTAAAAATTTAAAATGAAAAAAAATCAAATTTAAATTT
14283198 CCAAAAAGTTC
66 CCAAAAAGTTC
* *
14283209 CTTAACTTTTAAAA-ATTTAAGTTTTTGTTTTTAAAAAGTTTAAATTTGAAAATAAATCAAATTT
1 CTTAAC-TTTAAAATATTTAAG--TTT-TTTTTAAAAA-TTTAAA-ATGAAAAAAAATCAAATTT
14283273 AAATTT
60 AAATTT
14283279 TTAAAAATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
76 13 0.21
77 7 0.11
78 3 0.05
79 10 0.16
80 6 0.10
81 22 0.36
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (76 bp):
CTTAACTTTAAAATATTTAAGTTTTTTTTAAAAATTTAAAATGAAAAAAAATCAAATTTAAATTT
CCAAAAAGTTC
Found at i:14283655 original size:18 final size:15
Alignment explanation
Indices: 14283633--14283675 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 15
14283623 TTCAAAAGAA
14283633 TTTAAAAATTAAATAT
1 TTTAAAAATT-AATAT
14283649 ATATTAAAAAATTAATAT
1 -T-TT-AAAAATTAATAT
14283667 TTTAAAAAT
1 TTTAAAAAT
14283676 ATTTTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 2 0.08
18 7 0.29
19 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAAAAATTAATAT
Found at i:14283671 original size:16 final size:19
Alignment explanation
Indices: 14283636--14283674 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
14283626 AAAAGAATTT
14283636 AAAAATTAAATATATATTA
1 AAAAATTAAATATATATTA
14283655 AAAAATT-AATAT-T-TTA
1 AAAAATTAAATATATATTA
14283671 AAAA
1 AAAA
14283675 TATTTTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 5 0.25
19 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTAAATATATATTA
Found at i:14290712 original size:21 final size:22
Alignment explanation
Indices: 14290686--14290732 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14290676 CTCTGCTCAA
*
14290686 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
14290707 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
14290729 ACTC
1 ACTC
14290733 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:14295047 original size:42 final size:42
Alignment explanation
Indices: 14294988--14295140 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 42
14294978 CATGCTTTTT
* *
14294988 ACTAAGTACTATCGTTCATGCATCAGACATGCCATACATTAA
1 ACTAAGTACTATTGTTCATGCATCACACATGCCATACATTAA
* *
14295030 ACTGAGTACTATTGTTCATGTATCATACATCATGCATGGCATACATTAA
1 ACTAAGTACTATTGTTCATG---CAT-CA-CA--CATGCCATACATTAA
* *
14295079 ACTAAGTACTATTGTTCATGAATCATACATGCCATACATTAA
1 ACTAAGTACTATTGTTCATGCATCACACATGCCATACATTAA
* * *
14295121 GCCAAGTACTATTGTCCATG
1 ACTAAGTACTATTGTTCATG
14295141 AATTATACGT
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
42 49 0.53
44 1 0.01
45 5 0.05
46 4 0.04
47 1 0.01
49 33 0.35
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
ACTAAGTACTATTGTTCATGCATCACACATGCCATACATTAA
Found at i:14295073 original size:49 final size:49
Alignment explanation
Indices: 14295015--14295259 Score: 162
Period size: 49 Copynumber: 4.9 Consensus size: 49
14295005 ATGCATCAGA
* *
14295015 CATGCCATACATTAAACTGAGTACTATTGTTCATGTATCATACATCATG
1 CATGCCATACATTAAACTAAGTACTATTGTTCATGAATCATACATCATG
*
14295064 CATGGCATACATTAAACTAAGTACTATTGTTCATG-A--AT-CAT-A--
1 CATGCCATACATTAAACTAAGTACTATTGTTCATGAATCATACATCATG
* * * * *
14295106 CATGCCATACATTAAGCCAAGTACTATTGTCCATGAATTATACGTTCTTTTTGCATCATC
1 CATGCCATACATTAAACTAAGTACTATTGTTCATGAATCATA-----------CATCATG
* * * * * * *
14295166 CATGCCATGCATACTTTAACTAAATACTACTGTTTATGCATCATACATCATA
1 CATGCCATACA---TTAAACTAAGTACTATTGTTCATGAATCATACATCATG
* *
14295218 CGTGCCATACATTAAACTAAGTACTATTGTTCATGCATCATA
1 CATGCCATACATTAAACTAAGTACTATTGTTCATGAATCATA
14295260 ATACATTCTT
Statistics
Matches: 152, Mismatches: 23, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
42 31 0.20
43 1 0.01
44 1 0.01
45 5 0.03
46 2 0.01
48 1 0.01
49 60 0.39
52 15 0.10
57 3 0.02
58 1 0.01
60 10 0.07
63 22 0.14
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (49 bp):
CATGCCATACATTAAACTAAGTACTATTGTTCATGAATCATACATCATG
Found at i:14298533 original size:11 final size:11
Alignment explanation
Indices: 14298519--14298563 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
14298509 AGATAAATAT
14298519 TATTTTATTAA
1 TATTTTATTAA
*
14298530 TATTTTAATAATA
1 TATTTT-ATTA-A
*
14298543 TATTTTATTAT
1 TATTTTATTAA
14298554 TATTTTATTA
1 TATTTTATTA
14298564 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:14298546 original size:24 final size:24
Alignment explanation
Indices: 14298514--14298569 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14298504 TAATTAGATA
14298514 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
14298539 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
14298563 AGTATAT
1 AATATAT
14298570 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:14300692 original size:46 final size:45
Alignment explanation
Indices: 14300640--14300866 Score: 278
Period size: 46 Copynumber: 4.9 Consensus size: 45
14300630 GTGTGGTCTC
14300640 TGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
14300686 TGATATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACG
1 TGATATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
14300732 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
14300778 TGACATGAAA-AGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
14300824 TGATA-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAAT-AGTAAGACCATGGTTGAAAGATACCATGGCA
14300867 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 155 0.97
47 1 0.01
48 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (45 bp):
TGATATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:14300802 original size:92 final size:92
Alignment explanation
Indices: 14300640--14300866 Score: 323
Period size: 92 Copynumber: 2.5 Consensus size: 92
14300630 GTGTGGTCTC
* *
14300640 TGATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 TGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
* *
14300704 ACCATGGTCGAAAGATACCATGGAAACG
65 AACATGGTCGAAAGATACCATGGAAACA
*
14300732 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
* *
14300797 ACATGGTTGAAAGATACCATGGCAACA
66 ACATGGTCGAAAGATACCATGGAAACA
* * * *
14300824 TGATA-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
14300867 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
91 1 0.01
92 119 0.98
93 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
ACATGGTCGAAAGATACCATGGAAACA
Found at i:14302933 original size:47 final size:47
Alignment explanation
Indices: 14302825--14302915 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
14302815 TAATCAGCTC
* * * * *
14302825 TCACATGTTCATTATAATCTCAAACGATTTCATTGAACAATTATTCT
1 TCACATATTCATCATAATCCCAAACGATTTCATTAAACAATGATTCT
*
14302872 TCACATATTGATCATAATCCCAAACGATTTCATTAAACAATGAT
1 TCACATATTCATCATAATCCCAAACGATTTCATTAAACAATGAT
14302916 CTTGTCTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (47 bp):
TCACATATTCATCATAATCCCAAACGATTTCATTAAACAATGATTCT
Found at i:14305111 original size:28 final size:29
Alignment explanation
Indices: 14305052--14305114 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
14305042 CAACGTAAGG
* *
14305052 AAATTGCAGGTGACGCCCCAATTTTGGTA
1 AAATTGCAGGTAACGCCCCAAATTTGGTA
*
14305081 AAATTGCA-GTAACGCCCTCAAATTTGGAA
1 AAATTGCAGGTAACGCCC-CAAATTTGGTA
14305110 AAATT
1 AAATT
14305115 ATAATGATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (29 bp):
AAATTGCAGGTAACGCCCCAAATTTGGTA
Found at i:14305574 original size:16 final size:17
Alignment explanation
Indices: 14305546--14305579 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14305536 TTTTAACTCT
*
14305546 TCATTTAAAATTTTAAA
1 TCATTTAAAATTTGAAA
14305563 TCATTT-AAATTTGAAA
1 TCATTTAAAATTTGAAA
14305579 T
1 T
14305580 AAAAATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TCATTTAAAATTTGAAA
Found at i:14311927 original size:21 final size:21
Alignment explanation
Indices: 14311895--14311935 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14311885 AGGCTCGAGG
14311895 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
14311916 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
14311936 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:14317039 original size:29 final size:28
Alignment explanation
Indices: 14316993--14317071 Score: 68
Period size: 30 Copynumber: 2.7 Consensus size: 28
14316983 AACATGAGAG
* * * *
14316993 TTATTAGTAATTATATATAATAATTATAA
1 TTATTAATATTTA-ATATAATAAATAAAA
*
14317022 TTAATTAATATTTAATATATTTAAATAAAA
1 TT-ATTAATATTTAATATA-ATAAATAAAA
*
14317052 TTATTAGTATTTAATTATAA
1 TTATTAATATTTAA-TATAA
14317072 ATTTATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
29 18 0.45
30 22 0.55
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TTATTAATATTTAATATAATAAATAAAA
Found at i:14317077 original size:22 final size:21
Alignment explanation
Indices: 14317015--14317078 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
14317005 ATATATAATA
* *
14317015 ATTATAATTAATTA-ATATTT
1 ATTATATTTAATTATAAATTT
* *
14317035 AATATATTTAA--ATAAAATT
1 ATTATATTTAATTATAAATTT
14317054 ATTAGTATTTAATTATAAATTT
1 ATTA-TATTTAATTATAAATTT
14317076 ATT
1 ATT
14317079 TTTTATTCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 16 0.47
22 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTATATTTAATTATAAATTT
Found at i:14317179 original size:16 final size:17
Alignment explanation
Indices: 14317154--14317190 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
14317144 CATTATTCAA
*
14317154 ATTTTAATTTATATATT
1 ATTTTAATTTATAAATT
14317171 ATTTT-ATTTATAAATT
1 ATTTTAATTTATAAATT
14317187 ATTT
1 ATTT
14317191 AGGTTAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTAATTTATAAATT
Found at i:14323891 original size:26 final size:26
Alignment explanation
Indices: 14323862--14323914 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14323852 TTTACAGTTT
14323862 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
14323888 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
14323914 T
1 T
14323915 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:14326594 original size:24 final size:22
Alignment explanation
Indices: 14326542--14326597 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
14326532 TGCACAAACG
14326542 AACAGAGAGCACAGATGTGCTA
1 AACAGAGAGCACAGATGTGCTA
14326564 AACAGAGAGCACAGATGTGCTA
1 AACAGAGAGCACAGATGTGCTA
14326586 AACAGAGAGCAC
1 AACAGAGAGCAC
14326598 TTAACGTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.43, C:0.20, G:0.27, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACAGATGTGCTA
Found at i:14326622 original size:30 final size:29
Alignment explanation
Indices: 14326586--14326642 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
14326576 AGATGTGCTA
14326586 AACAGAGAGCACTTAACGTGCTAATAATAG
1 AACAGAGAGCAC-TAACGTGCTAATAATAG
*
14326616 AACAGAGAGCACTAATGTGCTAATAAT
1 AACAGAGAGCACTAACGTGCTAATAAT
14326643 CAGAGAGCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (29 bp):
AACAGAGAGCACTAACGTGCTAATAATAG
Found at i:14327767 original size:21 final size:21
Alignment explanation
Indices: 14327726--14327769 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14327716 TTCGTCCCTG
* **
14327726 CTATTCTGTTTGTTTTTTTTT
1 CTATTCTGTTTCTTTACTTTT
14327747 CTATTCTGTTTCTTTACTTTT
1 CTATTCTGTTTCTTTACTTTT
14327768 CT
1 CT
14327770 TATGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.70
Consensus pattern (21 bp):
CTATTCTGTTTCTTTACTTTT
Found at i:14327786 original size:7 final size:7
Alignment explanation
Indices: 14327776--14327869 Score: 52
Period size: 7 Copynumber: 13.3 Consensus size: 7
14327766 TTCTTATGTT
14327776 TTATATA
1 TTATATA
14327783 TTATATTATA
1 -T-TAT-ATA
14327793 TTATATA
1 TTATATA
*
14327800 TAATATA
1 TTATATA
*
14327807 ATA-ATA
1 TTATATA
*
14327813 TAATATA
1 TTATATA
14327820 TTATATA
1 TTATATA
14327827 TTA-ATA
1 TTATATA
*
14327833 CTTAAATA
1 -TTATATA
14327841 TTA-AGT-
1 TTATA-TA
*
14327847 TAATATA
1 TTATATA
*
14327854 ATATATA
1 TTATATA
*
14327861 ATATATA
1 TTATATA
14327868 TT
1 TT
14327870 TTTATATAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
6 11 0.16
7 43 0.63
8 7 0.10
9 4 0.06
10 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:14327791 original size:19 final size:19
Alignment explanation
Indices: 14327777--14327829 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
14327767 TCTTATGTTT
*
14327777 TATATATTATATTATATTA
1 TATATAATATATTATATTA
* *
14327796 TATATAATATAATAATATAA
1 TATATAATAT-ATTATATTA
*
14327816 TATATTATATATTA
1 TATATAATATATTA
14327830 ATACTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATAATATATTATATTA
Found at i:14332986 original size:32 final size:32
Alignment explanation
Indices: 14332950--14333014 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14332940 TGTATGCATT
14332950 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
14332982 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
14333014 T
1 T
14333015 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:14337634 original size:2 final size:2
Alignment explanation
Indices: 14337627--14337651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14337617 AGTGCATGTT
14337627 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 T
14337652 TCGGAGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14339846 original size:30 final size:30
Alignment explanation
Indices: 14339811--14339875 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
14339801 CTTCATTTGG
14339811 CATTAC-CCCTCT-AAAATTTTGGGAAAATAT
1 CATTACACCCTCTAAAAATTTT--GAAAATAT
*
14339841 CATTACACCCTTTAAAAATTTTGAAAATAT
1 CATTACACCCTCTAAAAATTTTGAAAATAT
14339871 CATTA
1 CATTA
14339876 GACAAATATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 19 0.59
31 5 0.16
32 8 0.25
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.35
Consensus pattern (30 bp):
CATTACACCCTCTAAAAATTTTGAAAATAT
Found at i:14340043 original size:47 final size:46
Alignment explanation
Indices: 14339988--14340083 Score: 113
Period size: 47 Copynumber: 2.1 Consensus size: 46
14339978 TGTTAATCAG
* * * * *
14339988 TTCTCACATATTCAAT-ATAATCTCAAACGATTTCATTGAACAATTA
1 TTCTCACATACT-AATCATAATCCCAAACAATCTCATTGAACAATGA
*
14340034 TTCTACACATACTGATCATAATCCCAAACAATCTCATTGAACAATGA
1 TTCT-CACATACTAATCATAATCCCAAACAATCTCATTGAACAATGA
14340081 TTC
1 TTC
14340084 GCCTTATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 6 0.14
47 36 0.86
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (46 bp):
TTCTCACATACTAATCATAATCCCAAACAATCTCATTGAACAATGA
Done.