Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 180 of 195
Found at i:30534731 original size:38 final size:40
Alignment explanation
Indices: 30534637--30534734 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 40
30534627 TATAAATTAT
* *
30534637 TTAAATCAAATATAAAATATTTAAATTCAATTTGATGAATAAA
1 TTAAATCAAAT-T-TAA-ATTTAAATTCAATTTAATGAATAAA
* * *
30534680 TT-AA-CTAACTTAAATTTAAATTCTATTTAAT-AAT-AA
1 TTAAATCAAATTTAAATTTAAATTCAATTTAATGAATAAA
30534716 TTAAATCAAATTTAAATTT
1 TTAAATCAAATTTAAATTT
30534735 TATTTATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
36 4 0.09
37 5 0.11
38 27 0.59
39 2 0.04
40 1 0.02
41 3 0.07
42 2 0.04
43 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (40 bp):
TTAAATCAAATTTAAATTTAAATTCAATTTAATGAATAAA
Found at i:30538593 original size:2 final size:2
Alignment explanation
Indices: 30538586--30538614 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30538576 AGCTGTCGGG
30538586 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30538615 TTAAACTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:30539822 original size:19 final size:18
Alignment explanation
Indices: 30539783--30539818 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30539773 TCACTAAGAT
* *
30539783 AAAAAAAACACAAAAAGG
1 AAAAAAAAAAAAAAAAGG
30539801 AAAAAAAAAAAAAAAAGG
1 AAAAAAAAAAAAAAAAGG
30539819 GAAACTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAGG
Found at i:30543863 original size:2 final size:2
Alignment explanation
Indices: 30543856--30543892 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
30543846 TTCAACAAAC
30543856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30543893 GTGCCCCTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:30547863 original size:18 final size:18
Alignment explanation
Indices: 30547820--30547865 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
30547810 ATCTAATTAT
* *
30547820 ATTTTTAAAATTATATCA
1 ATTTTTTAAATTATATAA
**
30547838 ATAATTTAAATTATATAA
1 ATTTTTTAAATTATATAA
30547856 ATTTTTTAAA
1 ATTTTTTAAA
30547866 AAATAATTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTTTAAATTATATAA
Found at i:30551479 original size:18 final size:19
Alignment explanation
Indices: 30551445--30551480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30551435 TTTGAATGAG
*
30551445 AAAATAAAATTAATATATT
1 AAAATAAAATAAATATATT
30551464 AAAATAAAA-AAATATAT
1 AAAATAAAATAAATATAT
30551481 ATTATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAAATAAATATATT
Found at i:30553319 original size:35 final size:35
Alignment explanation
Indices: 30553252--30553324 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
30553242 TGAAATATTC
* * * *
30553252 TCAACCCAAATAAACACATACCCATGTATACCATT
1 TCAACACAAACAAACACATACCCATATATACCAAT
* *
30553287 TCAACACAAACAAACACATACTCATATGTACCAAT
1 TCAACACAAACAAACACATACCCATATATACCAAT
30553322 TCA
1 TCA
30553325 TTATACTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (35 bp):
TCAACACAAACAAACACATACCCATATATACCAAT
Found at i:30559771 original size:14 final size:14
Alignment explanation
Indices: 30559748--30559777 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30559738 AAATTTCTAC
30559748 AAGTGCAAAAAAGG
1 AAGTGCAAAAAAGG
*
30559762 AAGTGTAAAAAAGG
1 AAGTGCAAAAAAGG
30559776 AA
1 AA
30559778 AATAAGGGCC
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:0.60, C:0.03, G:0.27, T:0.10
Consensus pattern (14 bp):
AAGTGCAAAAAAGG
Found at i:30560065 original size:73 final size:72
Alignment explanation
Indices: 30559936--30560122 Score: 232
Period size: 73 Copynumber: 2.6 Consensus size: 72
30559926 ATTTTTAGTA
* * * *
30559936 TTTATAATTTTAATAAATATTGTGTTTTTAAAAT-AAAAAATATAGTGGATATTAAAATTACATT
1 TTTATAATTTTAATAAA-ATTATGTTTTTAAGATAAAAAAATATAGTAGATATTAAAACTACATT
*
30560000 TTTAAAAT
65 TTCAAAAT
* * *
30560008 TTTAAAATTTAAATAGAAATTATGTTTTTAAGATAAAAAAATATAGTAGATATTAAAACTATATT
1 TTTATAATTTTAATA-AAATTATGTTTTTAAGATAAAAAAATATAGTAGATATTAAAACTACATT
30560073 TTCAAAAT
65 TTCAAAAT
* * * *
30560081 TTTGTAATTTTAATAAAAATCATATTTTCAAGATAAAAAAAT
1 TTTATAATTTTAAT-AAAATTATGTTTTTAAGATAAAAAAAT
30560123 GAACGTTATA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
72 27 0.28
73 70 0.71
74 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (72 bp):
TTTATAATTTTAATAAAATTATGTTTTTAAGATAAAAAAATATAGTAGATATTAAAACTACATTT
TCAAAAT
Found at i:30560483 original size:143 final size:144
Alignment explanation
Indices: 30560296--30560590 Score: 504
Period size: 143 Copynumber: 2.1 Consensus size: 144
30560286 AAAATTTAAC
30560296 AAATATTGCATTTTTAAGATAAAAAAAATAGTAAAAATTGAAACTATATTTTGAAACTCTGATTT
1 AAATATTGCATTTTTAAGATAAAAAAAATAGTAAAAATTGAAACTATATTTTGAAACTCTGATTT
* * * *
30560361 AATAGTCTTAGCAGAATTACTAACTTCATTAATTTTTTTATTGATAAAAATATTGATATGATTAT
66 AATAGTCTTAGCACAATTACTAACTTCATTAATTTTATTATTGATAAAAATATTAATATGACTAT
30560426 TGATTTGATGATAT
131 TGATTTGATGATAT
* *
30560440 AAAATATTGTATTTTTAAGAT-AAAAAAAT-GTAAAAATTGAAACTATATTTTGAAATTCTGATT
1 -AAATATTGCATTTTTAAGATAAAAAAAATAGTAAAAATTGAAACTATATTTTGAAACTCTGATT
30560503 TAATAGTCTTAGCACAATTACTAACTTCATTAATTTTATTATTGATAAAAATATTAATATGACTA
65 TAATAGTCTTAGCACAATTACTAACTTCATTAATTTTATTATTGATAAAAATATTAATATGACTA
30560568 TTGATTTGATGATAT
130 TTGATTTGATGATAT
*
30560583 GAATATTG
1 AAATATTG
30560591 ACTTTACTAT
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
142 7 0.05
143 109 0.76
144 8 0.06
145 19 0.13
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (144 bp):
AAATATTGCATTTTTAAGATAAAAAAAATAGTAAAAATTGAAACTATATTTTGAAACTCTGATTT
AATAGTCTTAGCACAATTACTAACTTCATTAATTTTATTATTGATAAAAATATTAATATGACTAT
TGATTTGATGATAT
Found at i:30560777 original size:28 final size:30
Alignment explanation
Indices: 30560718--30560780 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 30
30560708 ATATTTTATA
30560718 ATTTTTCTAAAATTTTAAAATTTTAAAATT
1 ATTTTTCTAAAATTTTAAAATTTTAAAATT
* * *
30560748 ATTTTT-TAATATTTT-AATTTTTGAAATT
1 ATTTTTCTAAAATTTTAAAATTTTAAAATT
30560776 ATTTT
1 ATTTT
30560781 GTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 16 0.53
29 8 0.27
30 6 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTTCTAAAATTTTAAAATTTTAAAATT
Found at i:30561111 original size:17 final size:17
Alignment explanation
Indices: 30561089--30561141 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
30561079 TCATTTAAAT
30561089 ATTAAAAAATATAGAAA
1 ATTAAAAAATATAGAAA
*
30561106 ATTAAAAAA-ATA-TAA
1 ATTAAAAAATATAGAAA
*
30561121 ATGAAAATAATATAGAAA
1 ATTAAAA-AATATAGAAA
30561139 ATT
1 ATT
30561142 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.28
16 5 0.17
17 12 0.41
18 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
ATTAAAAAATATAGAAA
Found at i:30561115 original size:18 final size:18
Alignment explanation
Indices: 30561092--30561141 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
30561082 TTTAAATATT
30561092 AAAAAATATAGAAAATTA
1 AAAAAATATAGAAAATTA
*
30561110 AAAAAATAT---AAATGA
1 AAAAAATATAGAAAATTA
*
30561125 AAATAATATAGAAAATT
1 AAAAAATATAGAAAATT
30561142 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 13 0.50
18 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAAAATATAGAAAATTA
Found at i:30561294 original size:22 final size:21
Alignment explanation
Indices: 30561250--30561290 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30561240 TTATGTAAAT
30561250 AATTAAATATTTTAAAAAGTA
1 AATTAAATATTTTAAAAAGTA
*
30561271 AATTCAATATTTTAAAAAGT
1 AATTAAATATTTTAAAAAGT
30561291 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTAAATATTTTAAAAAGTA
Found at i:30561613 original size:9 final size:9
Alignment explanation
Indices: 30561599--30561627 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
30561589 TTAACAATAA
30561599 AAAATTAAT
1 AAAATTAAT
30561608 AAAATTAAT
1 AAAATTAAT
30561617 AAAATTAAT
1 AAAATTAAT
30561626 AA
1 AA
30561628 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTAAT
Found at i:30561640 original size:17 final size:17
Alignment explanation
Indices: 30561600--30561668 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
30561590 TAACAATAAA
*
30561600 AAATTAATAAAATT-AATA
1 AAATTAAT--AATTAAATT
30561618 AAATTAATAATTAAATT
1 AAATTAATAATTAAATT
* * *
30561635 AAATTATTAATCAAAAT
1 AAATTAATAATTAAATT
30561652 -AATATAATAATTAAATT
1 AAAT-TAATAATTAAATT
30561669 TATATGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
16 7 0.17
17 27 0.64
18 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAATAATTAAATT
Found at i:30563182 original size:18 final size:18
Alignment explanation
Indices: 30563161--30563203 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30563151 TTAAAATTTT
30563161 TTTATTATTTTAATAAAA
1 TTTATTATTTTAATAAAA
** *
30563179 TTTAAAATTTTATTAAAA
1 TTTATTATTTTAATAAAA
30563197 TTTATTA
1 TTTATTA
30563204 AAAAAATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTATTTTAATAAAA
Found at i:30572457 original size:20 final size:20
Alignment explanation
Indices: 30572432--30572473 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30572422 ATAATGTATA
30572432 AAATTTTAAATTTTTTTA-AT
1 AAATTTT-AATTTTTTTAGAT
*
30572452 AAATTTTGATTTTTTTAGAT
1 AAATTTTAATTTTTTTAGAT
30572472 AA
1 AA
30572474 TTATTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATTTTAATTTTTTTAGAT
Found at i:30576195 original size:12 final size:13
Alignment explanation
Indices: 30576178--30576218 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
30576168 ACGTAATAAA
30576178 TAAATAATTAT-T
1 TAAATAATTATAT
30576190 TAAAT-ATTATAT
1 TAAATAATTATAT
*
30576202 TAATTAA-TATAT
1 TAAATAATTATAT
30576214 TAAAT
1 TAAAT
30576219 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 5 0.20
12 19 0.76
13 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATAATTATAT
Found at i:30576225 original size:17 final size:16
Alignment explanation
Indices: 30576183--30576248 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 16
30576173 ATAAATAAAT
30576183 AATTATTTAAATATTA
1 AATTATTTAAATATTA
* *
30576199 TATTAATTAATATATTA
1 AATTATTTAA-ATATTA
*
30576216 AATTTTTTAAA-ATTA
1 AATTATTTAAATATTA
30576231 AATATCATATTAAATATT
1 AAT-T-AT-TTAAATATT
30576249 TATATATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 7 0.18
16 10 0.26
17 14 0.36
18 5 0.13
19 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTTAAATATTA
Found at i:30576999 original size:9 final size:9
Alignment explanation
Indices: 30576985--30577041 Score: 69
Period size: 9 Copynumber: 6.3 Consensus size: 9
30576975 GATTTACAAA
30576985 AAAAAAAAG
1 AAAAAAAAG
30576994 AAAAAAAAG
1 AAAAAAAAG
* *
30577003 AATAAATAG
1 AAAAAAAAG
30577012 AAAAAAAAG
1 AAAAAAAAG
*
30577021 AAAAAAGAG
1 AAAAAAAAG
* *
30577030 AATAAACAG
1 AAAAAAAAG
30577039 AAA
1 AAA
30577042 TCTTCAAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:30577023 original size:27 final size:27
Alignment explanation
Indices: 30576985--30577041 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
30576975 GATTTACAAA
*
30576985 AAAAAAAAGAAAAAAAAGAATAAATAG
1 AAAAAAAAGAAAAAAAAGAATAAACAG
*
30577012 AAAAAAAAGAAAAAAGAGAATAAACAG
1 AAAAAAAAGAAAAAAAAGAATAAACAG
30577039 AAA
1 AAA
30577042 TCTTCAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAGAATAAACAG
Found at i:30578004 original size:15 final size:14
Alignment explanation
Indices: 30577984--30578100 Score: 103
Period size: 15 Copynumber: 8.1 Consensus size: 14
30577974 AACACTAATT
30577984 CTTAAATCCAAACAC
1 CTTAAATCCAAAC-C
30577999 CTTAAATCCAAATCC
1 CTTAAATCCAAA-CC
*
30578014 CTAAAATCCAAAACC
1 CTTAAATCC-AAACC
*
30578029 CTAAAATCTC-AACC
1 CTTAAATC-CAAACC
* *
30578043 TTTAAATTCAAACC
1 CTTAAATCCAAACC
30578057 C-TAAATCCAAAACCC
1 CTTAAATCC-AAA-CC
*
30578072 CTAAAATCCAAACC
1 CTTAAATCCAAACC
* *
30578086 TTTAAATCAAAACC
1 CTTAAATCCAAACC
30578100 C
1 C
30578101 CAAACCTCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.08
14 29 0.35
15 37 0.44
16 11 0.13
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
CTTAAATCCAAACC
Found at i:30578059 original size:43 final size:44
Alignment explanation
Indices: 30577987--30578096 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 44
30577977 ACTAATTCTT
* *
30577987 AAATCCAAACACCTTAAATCCAAATCCCTAAAATCCAAAA-CCCTA
1 AAATCCAAAC-CTTTAAATTCAAATCCCT-AAATCCAAAACCCCTA
30578032 AAATCTC-AACCTTTAAATTCAAA-CCCTAAATCCAAAACCCCTA
1 AAATC-CAAACCTTTAAATTCAAATCCCTAAATCCAAAACCCCTA
30578075 AAATCCAAACCTTTAAA-TCAAA
1 AAATCCAAACCTTTAAATTCAAA
30578097 ACCCCAAACC
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
42 16 0.27
43 24 0.40
44 11 0.18
45 8 0.13
46 1 0.02
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (44 bp):
AAATCCAAACCTTTAAATTCAAATCCCTAAATCCAAAACCCCTA
Found at i:30578096 original size:29 final size:29
Alignment explanation
Indices: 30577987--30578101 Score: 108
Period size: 29 Copynumber: 3.9 Consensus size: 29
30577977 ACTAATTCTT
* *
30577987 AAATCCAAACACCTTAAATCCAAATCCCTA
1 AAATCCAAAC-CCTTAAATCAAAACCCCTA
* ** * *
30578017 AAATCCAAAACCCTAAAATCTCAA-CCTTT
1 AAATCC-AAACCCTTAAATCAAAACCCCTA
*
30578046 AAATTCAAACCC-TAAATCCAAAACCCCTA
1 AAATCCAAACCCTTAAAT-CAAAACCCCTA
*
30578075 AAATCCAAACCTTTAAATCAAAACCCC
1 AAATCCAAACCCTTAAATCAAAACCCC
30578102 AAACCTCAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
27 4 0.06
28 9 0.13
29 30 0.44
30 21 0.31
31 4 0.06
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (29 bp):
AAATCCAAACCCTTAAATCAAAACCCCTA
Found at i:30578228 original size:30 final size:28
Alignment explanation
Indices: 30578186--30578320 Score: 91
Period size: 29 Copynumber: 4.7 Consensus size: 28
30578176 ACTTCCAAAC
*
30578186 CCTAAAAT-TCAAACCCTAAAAATGAAA
1 CCTAAATTCTCAAACCCTAAAAATGAAA
*
30578213 CTCTAAATTTCTCAAACCCT-AAAATTAAA
1 C-CTAAA-TTCTCAAACCCTAAAAATGAAA
* *
30578242 CCTTAAA-CCTCATAACCTTAAAAATGAAA
1 CC-TAAATTCTCA-AACCCTAAAAATGAAA
* *
30578271 CCCTAAACCTT-TCAAACCCTAAAATTAAAA
1 -CCTAAA--TTCTCAAACCCTAAAAATGAAA
*
30578301 CCTTCATATTC-CAAACCCTA
1 CC-T-AAATTCTCAAACCCTA
30578321 CAATCAAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
27 5 0.06
28 11 0.13
29 39 0.46
30 25 0.29
31 5 0.06
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTAAATTCTCAAACCCTAAAAATGAAA
Found at i:30578266 original size:73 final size:72
Alignment explanation
Indices: 30578114--30578277 Score: 242
Period size: 72 Copynumber: 2.3 Consensus size: 72
30578104 ACCTCAAATT
*
30578114 TTAAAAATCAAAACCCTAAAAACGAAACTCTAAATTTCTCAACCCTAAAATTAAACCTTAAAACT
1 TTAAAAATC-AAACCCTAAAAACGAAACTCTAAATTTCTCAACCCTAAAATTAAACCTTAAAACC
30578179 TCCAAACC
65 TCCAAACC
* * *
30578187 CTAAAATTCAAACCCTAAAAATGAAACTCTAAATTTCTCAAACCCTAAAATTAAACCTT-AAACC
1 TTAAAAATCAAACCCTAAAAACGAAACTCTAAATTTCTC-AACCCTAAAATTAAACCTTAAAACC
30578251 T-CATAACC
65 TCCA-AACC
*
30578259 TTAAAAATGAAACCCTAAA
1 TTAAAAATCAAACCCTAAA
30578278 CCTTTCAAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
71 2 0.02
72 54 0.66
73 26 0.32
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (72 bp):
TTAAAAATCAAACCCTAAAAACGAAACTCTAAATTTCTCAACCCTAAAATTAAACCTTAAAACCT
CCAAACC
Found at i:30578277 original size:14 final size:14
Alignment explanation
Indices: 30578115--30578277 Score: 71
Period size: 14 Copynumber: 11.3 Consensus size: 14
30578105 CCTCAAATTT
30578115 TAAAAATCAAAACCC
1 TAAAAATC-AAACCC
*
30578130 TAAAAA-CGAAACTC
1 TAAAAATC-AAACCC
** *
30578144 TAAATTTCTCAACCC
1 TAAAAATC-AAACCC
* *
30578159 T-AAAATTAAACCT
1 TAAAAATCAAACCC
*
30578172 TAAAACTTCCAAACCC
1 TAAAA-AT-CAAACCC
*
30578188 TAAAATTCAAACCC
1 TAAAAATCAAACCC
* *
30578202 TAAAAATGAAACTC
1 TAAAAATCAAACCC
**
30578216 TAAATTTCTCAAACCC
1 TAAA--AATCAAACCC
* *
30578232 T-AAAATTAAACCT
1 TAAAAATCAAACCC
** *
30578245 TAAACCTCATAACCT
1 TAAAAATCA-AACCC
*
30578260 TAAAAATGAAACCC
1 TAAAAATCAAACCC
30578274 TAAA
1 TAAA
30578278 CCTTTCAAAC
Statistics
Matches: 107, Mismatches: 33, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
13 12 0.11
14 50 0.47
15 28 0.26
16 17 0.16
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAAAATCAAACCC
Found at i:30578437 original size:28 final size:28
Alignment explanation
Indices: 30578406--30578459 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
30578396 CTCTAAACCC
* **
30578406 TAAAACCATAACTTCAAATCTCAAACAT
1 TAAAACCAAAACCCCAAATCTCAAACAT
*
30578434 TAAAATCAAAACCCCAAATCTCAAAC
1 TAAAACCAAAACCCCAAATCTCAAAC
30578460 CCTAAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (28 bp):
TAAAACCAAAACCCCAAATCTCAAACAT
Found at i:30578465 original size:28 final size:28
Alignment explanation
Indices: 30578282--30578472 Score: 116
Period size: 29 Copynumber: 6.7 Consensus size: 28
30578272 CCTAAACCTT
* * *
30578282 TCAAACCCTAAAATTAAAACCTTCATAT-
1 TCAAACCCTAAAATCAAAACC-CCAAATC
* * *
30578310 TCCAAACCCTACAATCAAAACCCCGAAGC
1 T-CAAACCCTAAAATCAAAACCCCAAATC
* * * * *
30578339 TCCAAGCTCTAAAATCTAAACTCCAAACC
1 T-CAAACCCTAAAATCAAAACCCCAAATC
* * * **
30578368 TTTAAACCTTAAAAT-TAAACCATAAATCC
1 -TCAAACCCTAAAATCAAAACCCCAAAT-C
* * **
30578397 TCTAAACCCTAAAACCATAACTTCAAATC
1 TC-AAACCCTAAAATCAAAACCCCAAATC
**
30578426 TCAAACATTAAAATCAAAACCCCAAATC
1 TCAAACCCTAAAATCAAAACCCCAAATC
30578454 TCAAACCCTAAAATCAAAA
1 TCAAACCCTAAAATCAAAA
30578473 AGCTAAACCC
Statistics
Matches: 120, Mismatches: 37, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
28 49 0.41
29 63 0.52
30 8 0.07
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (28 bp):
TCAAACCCTAAAATCAAAACCCCAAATC
Found at i:30579614 original size:35 final size:35
Alignment explanation
Indices: 30579568--30579638 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
30579558 TGACTCTTCT
30579568 CATTTATTTTGATTTTAAAACTCCTTTACGTCTGG
1 CATTTATTTTGATTTTAAAACTCCTTTACGTCTGG
30579603 CATTTATTTTGATTTTAAAACTCCTTTACGTCTGG
1 CATTTATTTTGATTTTAAAACTCCTTTACGTCTGG
30579638 C
1 C
30579639 GGTCCCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (35 bp):
CATTTATTTTGATTTTAAAACTCCTTTACGTCTGG
Found at i:30582862 original size:11 final size:11
Alignment explanation
Indices: 30582846--30582871 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30582836 GGAGATACGA
30582846 GAAAGAGTGAT
1 GAAAGAGTGAT
30582857 GAAAGAGTGAT
1 GAAAGAGTGAT
30582868 GAAA
1 GAAA
30582872 AGGGCAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (11 bp):
GAAAGAGTGAT
Found at i:30591266 original size:109 final size:109
Alignment explanation
Indices: 30591127--30591773 Score: 642
Period size: 109 Copynumber: 5.9 Consensus size: 109
30591117 TTAGTTACAC
* * * *
30591127 GACTTACGGTTTAATCCCAGTTACTTTTATTTTTCTAACTTACGATTCAGTCCCAATCATTGTTA
1 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGATTCAGTCCCAATCATCGTTA
* * *
30591192 ATCTTTAACTCGTGGTTTAAACTCAATCATTCTTATAGCTTCCT
66 ATCTTTGACTCGTGGTTTAAACCCAATCATTCCTATAGCTTCCT
* * * *
30591236 GACTTGCGGTTTCATCTCAGTCACTTTTATTTTTCTAACTTGC-AGTTCAGTCCCAGTCGTCGTT
1 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGA-TTCAGTCCCAATCATCGTT
* * *
30591300 AATCTTTGACTTGTGGTTTAAACCCAGTCATTCCTATAGCTTTCT
65 AATCTTTGACTCGTGGTTTAAACCCAATCATTCCTATAGCTTCCT
* * * * * * * *
30591345 GACTTGCGATTTAATCCCATTCACTTTTATTTTTTTGACTTGCGGTTCATTCCCAGTCATCATTA
1 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGATTCAGTCCCAATCATCGTTA
* * * * * *
30591410 ATCTTTAACTCGTGGTTCAATCCCAATCATTTCTGTTAG-TTATCT
66 ATCTTTGACTCGTGGTTTAAACCCAATCATTCCT-ATAGCTT-CCT
30591455 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGC-AGTTCAGT-CCAAGTCATCGT
1 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGA-TTCAGTCCCAA-TCATCGT
* * * *
30591518 TAATCTTTGACTCGTAGTTTAATCCCGATCATTCCTATA--TTCTT
64 TAATCTTTGACTCGTGGTTTAAACCCAATCATTCCTATAGCTTCCT
* * * * * ** * * * *
30591562 AACTTGCGATTTAATCCTAGTCACTTTTATTTTTTTTTTACTTAAGGTTTAATCCCAATCATTGT
1 GACTTGCGGTTTAATCCCAGTCACTTTTA--TTTTTCTAACTTGCGATTCAGTCCCAATCATCGT
* ** *
30591627 TAATCTTTGACTCGTGGTTTAAGCCCGGTCATTCCTATAGCTTCCC
64 TAATCTTTGACTCGTGGTTTAAACCCAATCATTCCTATAGCTTCCT
* * * * * * *
30591673 GACTTGCAGTTTAATCACAGTCACTTTTATTTTTCTGACTTG-TAGTTCATTCCCATTCATCATT
1 GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGA-TTCAGTCCCAATCATCGTT
* * * * *
30591737 AATCATTGACTCGTGGTTCAATCCCGATCATTTCTAT
65 AATCTTTGACTCGTGGTTTAAACCCAATCATTCCTAT
30591774 TAGTTACTTG
Statistics
Matches: 442, Mismatches: 83, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
107 27 0.06
108 3 0.01
109 294 0.67
110 91 0.21
111 27 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (109 bp):
GACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGATTCAGTCCCAATCATCGTTA
ATCTTTGACTCGTGGTTTAAACCCAATCATTCCTATAGCTTCCT
Found at i:30591520 original size:219 final size:216
Alignment explanation
Indices: 30591127--30591787 Score: 756
Period size: 218 Copynumber: 3.0 Consensus size: 216
30591117 TTAGTTACAC
* * * * *
30591127 GACTTACGGTTTAATCCCAGTT-ACTTTTATTTTTCTAACTTACGATTCAGTCCCAATCATTGTT
1 GACTTGCGATTTAATCCCA-TTCACTTTTATTTTTTTAACTTACGGTTCAATCCCAATCATTGTT
* * *
30591191 AATCTTTAACTCGTGGTTTAAACTCAATCA-TTCTTATAGCTTCCTGACTTGCGGTTTCATCTCA
65 AATCTTTAACTCGTGGTTTAAACCCAATCATTTCTT-TAGCTTCCTGACTTGCGGTTTAATCACA
* *
30591255 GTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCGTCGTTAATCTTTGACTTGTGGTTTA
129 GTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTA
30591320 AACCC-AGTCATTCCTATAGCTT-TCT
194 AACCCGA-TCATTCCTATA--TTCT-T
* * * * **
30591345 GACTTGCGATTTAATCCCATTCACTTTTATTTTTTTGACTTGCGGTTCATTCCCAGTCATCATTA
1 GACTTGCGATTTAATCCCATTCACTTTTATTTTTTTAACTTACGGTTCAATCCCAATCATTGTTA
* * * *
30591410 ATCTTTAACTCGTGGTTCAATCCCAATCATTTCTGTTAG-TTATCTGACTTGCGGTTTAATCCCA
66 ATCTTTAACTCGTGGTTTAAACCCAATCATTTCT-TTAGCTT-CCTGACTTGCGGTTTAATCACA
* *
30591474 GTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCAAGTCATCGTTAATCTTTGACTCGTAGTTTA
129 GTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTA
*
30591539 ATCCCGATCATTCCTATATTCTT
194 AACCCGATCATTCCTATATTCTT
* * * * * *
30591562 AACTTGCGATTTAATCCTAGTCACTTTTATTTTTTTTTTACTTAAGGTTTAATCCCAATCATTGT
1 GACTTGCGATTTAATCCCATTCACTTTTA--TTTTTTTAACTTACGGTTCAATCCCAATCATTGT
* * ** * * * *
30591627 TAATCTTTGACTCGTGGTTTAAGCCCGGTCATTCCTATAGCTTCCCGACTTGCAGTTTAATCACA
64 TAATCTTTAACTCGTGGTTTAAACCCAATCATTTCTTTAGCTTCCTGACTTGCGGTTTAATCACA
* * * * * * *
30591692 GTCACTTTTATTTTTCTGACTTGTAGTTCATTCCCATTCATCATTAATCATTGACTCGTGGTTCA
129 GTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTA
* *
30591757 ATCCCGATCATTTCTATTAGTTACTT
194 AACCCGATCATTCCTA-TA-TT-CTT
30591783 GACTT
1 GACTT
30591788 ATGGTTTCGT
Statistics
Matches: 377, Mismatches: 54, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
217 31 0.08
218 173 0.46
219 162 0.43
220 4 0.01
221 7 0.02
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (216 bp):
GACTTGCGATTTAATCCCATTCACTTTTATTTTTTTAACTTACGGTTCAATCCCAATCATTGTTA
ATCTTTAACTCGTGGTTTAAACCCAATCATTTCTTTAGCTTCCTGACTTGCGGTTTAATCACAGT
CACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAAA
CCCGATCATTCCTATATTCTT
Found at i:30591646 original size:328 final size:327
Alignment explanation
Indices: 30591108--30591794 Score: 884
Period size: 328 Copynumber: 2.1 Consensus size: 327
30591098 TCAATTCTGG
* *
30591108 TCATTTCTATTAGTTACACGACTTACGGTTTAATCCCAGTTACTTTTATTTTTCTAACTTACGAT
1 TCATTTCTATTAGTTACATGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTACGAT
* * * * *
30591173 TCAGTCCCAATCATTGTTAATCTTTAACTCGTGGTTTAAACTCAATCATTCTTATAGCTTCCTGA
66 TCAGTCCCAATCATCGTTAATCTTTAACTCGTAGTTTAAACCCAATCATTCCTATA-CTTCCTAA
* * * * * *
30591238 CTTGCGGTTTCATCTCAGTCACTTTTATTTTTCTAACTTGCAGTTCAGTCCCAGTCGTCGTTAAT
130 CTTGCGATTTAATCTCAGTCACTTTTATTTTTCTAACTTGAAGTTCAATCCCAATCATCGTTAAT
* * * * *
30591303 CTTTGACTTGTGGTTTAAACCCAGTCATTCCTATAGCTTTCTGACTTGC-GATTTAATCCCATTC
195 CTTTGACTCGTGGTTTAAACCCAGTCATTCCTATAGCTTCCCGACTTGCAG-TTTAATCACAGTC
* * *
30591367 ACTTTTATTTTTTTGACTTGCGGTTCATTCCCAGTCATCATTAATCTTTAACTCGTGGTTCAATC
259 ACTTTTATTTTTCTGACTTGCAGTTCATTCCCAGTCATCATTAATCATTAACTCGTGGTTCAATC
30591432 CCAA
324 CCAA
* * *
30591436 TCATTTCTGTTAGTTATC-TGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGC-A
1 TCATTTCTATTAGTTA-CATGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTACGA
* * * *
30591499 GTTCAGT-CCAAGTCATCGTTAATCTTTGACTCGTAGTTTAATCCCGATCATTCCTATA-TTCTT
65 -TTCAGTCCCAA-TCATCGTTAATCTTTAACTCGTAGTTTAAACCCAATCATTCCTATACTTCCT
* * * *
30591562 AACTTGCGATTTAATC-CTAGTCACTTTTATTTTTTTTTTACTT-AAGGTTTAATCCCAATCATT
128 AACTTGCGATTTAATCTC-AGTCACTTTTA--TTTTTCTAACTTGAA-GTTCAATCCCAATCATC
* *
30591625 GTTAATCTTTGACTCGTGGTTTAAGCCCGGTCATTCCTATAGCTTCCCGACTTGCAGTTTAATCA
189 GTTAATCTTTGACTCGTGGTTTAAACCCAGTCATTCCTATAGCTTCCCGACTTGCAGTTTAATCA
* * *
30591690 CAGTCACTTTTATTTTTCTGACTTGTAGTTCATTCCCATTCATCATTAATCATTGACTCGTGGTT
254 CAGTCACTTTTATTTTTCTGACTTGCAGTTCATTCCCAGTCATCATTAATCATTAACTCGTGGTT
*
30591755 CAATCCCGA
319 CAATCCCAA
* *
30591764 TCATTTCTATTAGTTACTTGACTTATGGTTT
1 TCATTTCTATTAGTTACATGACTTACGGTTT
30591795 CGTCCCGGTC
Statistics
Matches: 309, Mismatches: 41, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
325 1 0.00
326 28 0.09
327 7 0.02
328 271 0.88
329 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (327 bp):
TCATTTCTATTAGTTACATGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTACGAT
TCAGTCCCAATCATCGTTAATCTTTAACTCGTAGTTTAAACCCAATCATTCCTATACTTCCTAAC
TTGCGATTTAATCTCAGTCACTTTTATTTTTCTAACTTGAAGTTCAATCCCAATCATCGTTAATC
TTTGACTCGTGGTTTAAACCCAGTCATTCCTATAGCTTCCCGACTTGCAGTTTAATCACAGTCAC
TTTTATTTTTCTGACTTGCAGTTCATTCCCAGTCATCATTAATCATTAACTCGTGGTTCAATCCC
AA
Found at i:30591989 original size:35 final size:35
Alignment explanation
Indices: 30591840--30591990 Score: 101
Period size: 35 Copynumber: 4.2 Consensus size: 35
30591830 GTTCAATCTC
*
30591840 GGTCATTGTTAATCTCTGACTTATGCTTTAGT-CT
1 GGTCATTGTTAATCTCTGACTTATGGTTTAGTCCT
* * * ** *
30591874 CGGTTATTCTTATAGCTCCCTGACTCGTGGTTTAGTCCC
1 -GGTCATTGTTA-A--TCTCTGACTTATGGTTTAGTCCT
* * * *
30591913 GATCACT-TTATTCTTTCTGACTTACGGTTTAG-CCTT
1 GGTCATTGTTAATC--TCTGACTTATGGTTTAGTCC-T
* *
30591949 TGTCATTGTTAATCTCTGACTTGTGGTTTAGTCCT
1 GGTCATTGTTAATCTCTGACTTATGGTTTAGTCCT
30591984 GGTCATT
1 GGTCATT
30591991 TCTATAGTTT
Statistics
Matches: 84, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
34 2 0.02
35 33 0.39
36 20 0.24
37 8 0.10
38 20 0.24
39 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (35 bp):
GGTCATTGTTAATCTCTGACTTATGGTTTAGTCCT
Found at i:30592088 original size:36 final size:37
Alignment explanation
Indices: 30592013--30592108 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 37
30592003 AAGCTCACGA
**
30592013 TTTAAT-CTCAGTCACTTTTATTTTCCTAACTTGTAG
1 TTTAATCCTCAGTCACTTTTATTTTCCTAACTTACAG
* * * *
30592049 TTTAATCCT-AGTTACTTTTATTTTTCTCACTTACGG
1 TTTAATCCTCAGTCACTTTTATTTTCCTAACTTACAG
*
30592085 TTTAATCC-CAATCA-TCTTTATTTT
1 TTTAATCCTCAGTCACT-TTTATTTT
30592109 TCAACTCACA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
35 1 0.02
36 46 0.94
37 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (37 bp):
TTTAATCCTCAGTCACTTTTATTTTCCTAACTTACAG
Found at i:30592821 original size:22 final size:22
Alignment explanation
Indices: 30592796--30592838 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30592786 GAACCTACAA
30592796 AAATCATAAA-AAAAAAACAAAT
1 AAAT-ATAAACAAAAAAACAAAT
*
30592818 AAATATAAACAAAAAGACAAA
1 AAATATAAACAAAAAAACAAA
30592839 CACAGTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (22 bp):
AAATATAAACAAAAAAACAAAT
Found at i:30592831 original size:21 final size:23
Alignment explanation
Indices: 30592796--30592838 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
30592786 GAACCTACAA
30592796 AAATCATAAAAAAAAA-ACAAAT
1 AAATCATAAAAAAAAAGACAAAT
*
30592818 AAAT-ATAAACAAAAAGACAAA
1 AAATCATAAAAAAAAAGACAAA
30592839 CACAGTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (23 bp):
AAATCATAAAAAAAAAGACAAAT
Found at i:30593905 original size:15 final size:15
Alignment explanation
Indices: 30593885--30593927 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
30593875 AATAATTCTT
30593885 AAATCCAAACCCCTA
1 AAATCCAAACCCCTA
* *
30593900 AAATCCAAAACCCTT
1 AAATCCAAACCCCTA
*
30593915 AAATCAAAACCCC
1 AAATCCAAACCCC
30593928 AAACCTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATCCAAACCCCTA
Found at i:30594012 original size:29 final size:29
Alignment explanation
Indices: 30593979--30594139 Score: 100
Period size: 29 Copynumber: 5.5 Consensus size: 29
30593969 AAAATTTTGA
*
30593979 AACCCTAAAATTAAACCTCAAAACTTTCT
1 AACCCTAAAATTAAACCTCTAAACTTTCT
* * * * *
30594008 AACCCTCAAATCCAAAACC-CTAAA-ATCCA
1 AACCCTAAAAT--TAAACCTCTAAACTTTCT
*
30594037 AACCCTAAAAATGAAA-CTCTAAA-TTTCT
1 AACCCT-AAAATTAAACCTCTAAACTTTCT
* * *
30594065 CAAATCCTAAAATTAAACCT-TAAACCTCCT
1 --AACCCTAAAATTAAACCTCTAAACTTTCT
* * *
30594095 AACCTTAAAAATGAAACC-CTAAACTTTCCA
1 AACCCT-AAAATTAAACCTCTAAACTTT-CT
30594125 AACCCTAAAATTAAA
1 AACCCTAAAATTAAA
30594140 ACCTTCACCT
Statistics
Matches: 98, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
27 1 0.01
28 14 0.14
29 54 0.55
30 24 0.24
31 5 0.05
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCTAAAATTAAACCTCTAAACTTTCT
Found at i:30594028 original size:15 final size:14
Alignment explanation
Indices: 30594008--30594308 Score: 87
Period size: 15 Copynumber: 20.9 Consensus size: 14
30593998 AAAACTTTCT
*
30594008 AACCCTCAAATCCAA
1 AACCCTAAAATCC-A
30594023 AACCCTAAAATCCA
1 AACCCTAAAATCCA
*
30594037 AACCCTAAAAAT-GA
1 AACCCT-AAAATCCA
* *
30594051 AACTCTAAATTTCTCA
1 AACCCTAAA-ATC-CA
* *
30594067 AATCCTAAAAT-TA
1 AACCCTAAAATCCA
* * *
30594080 AACCTTAAACCTCCT
1 AACCCTAAA-ATCCA
* *
30594095 AACCTTAAAAAT-GA
1 AACCCT-AAAATCCA
*
30594109 AACCCTAAACTTTCCA
1 AACCCTAAA--ATCCA
**
30594125 AACCCTAAAATTAA
1 AACCCTAAAATCCA
* *** *
30594139 AACCTTCACCTTCTA
1 AACCCT-AAAATCCA
* *
30594154 AACCCTACAATCAA
1 AACCCTAAAATCCA
*
30594168 AACCCTAAAGCTCCA
1 AACCCTAAA-ATCCA
* ** *
30594183 AGCTGTAAAATCAA
1 AACCCTAAAATCCA
* *
30594197 AACTCC-AAACCTTCA
1 AAC-CCTAAA-ATCCA
*
30594212 AACCCTAAAAT-TA
1 AACCCTAAAATCCA
*
30594225 AACCAT-AAATCCTCTA
1 AACCCTAAAAT-C-C-A
30594241 AACCCTAAAA-CCA
1 AACCCTAAAATCCA
* * *
30594254 AAACTTTAAATCTCA
1 AACCCTAAAATC-CA
*
30594269 AACCCTAAAATCAA
1 AACCCTAAAATCCA
30594283 AACCCT-AAATCTCA
1 AACCCTAAAATC-CA
30594297 AACCCTAAAATC
1 AACCCTAAAATC
30594309 AAAAAACTAA
Statistics
Matches: 202, Mismatches: 60, Indels: 48
0.65 0.19 0.15
Matches are distributed among these distances:
12 4 0.02
13 33 0.16
14 67 0.33
15 68 0.34
16 27 0.13
17 3 0.01
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:30594278 original size:28 final size:28
Alignment explanation
Indices: 30594008--30594312 Score: 183
Period size: 29 Copynumber: 10.6 Consensus size: 28
30593998 AAAACTTTCT
*
30594008 AACCCTCAAATCCAAAACCCTAAAATC-CA
1 AACCCTAAAAT-CAAAACCCT-AAATCTCA
* *
30594037 AACCCTAAAAAT-GAAACTCTAAATTTCTCA
1 AACCCT-AAAATCAAAACCCTAAA--TCTCA
* * * * *
30594067 AATCCTAAAAT-TAAACCTTAAACCTCCT
1 AACCCTAAAATCAAAACCCTAAATCT-CA
* * *
30594095 AACCTTAAAAAT-GAAACCCTAAACTTTCCA
1 AACCCT-AAAATCAAAACCCTAAA-TCT-CA
* ** *
30594125 AACCCTAAAATTAAAA-CCTTCACCTTCTA
1 AACCCTAAAATCAAAACCCTAAATC-TC-A
* *
30594154 AACCCTACAATCAAAACCCTAAAGCTCCA
1 AACCCTAAAATCAAAACCCTAAATCT-CA
* ** *
30594183 AGCTGTAAAATCAAAACTCC-AAACCTTCA
1 AACCCTAAAATCAAAAC-CCTAAATC-TCA
* *
30594212 AACCCTAAAAT-TAAACCATAAATCCTCTA
1 AACCCTAAAATCAAAACCCTAAAT-CTC-A
* **
30594241 AACCCTAAAACCAAAACTTTAAATCTCA
1 AACCCTAAAATCAAAACCCTAAATCTCA
30594269 AACCCTAAAATCAAAACCCTAAATCTCA
1 AACCCTAAAATCAAAACCCTAAATCTCA
30594297 AACCCTAAAATCAAAA
1 AACCCTAAAATCAAAA
30594313 AACTAAACCC
Statistics
Matches: 213, Mismatches: 45, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
27 6 0.03
28 63 0.30
29 104 0.49
30 40 0.19
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (28 bp):
AACCCTAAAATCAAAACCCTAAATCTCA
Found at i:30594318 original size:28 final size:28
Alignment explanation
Indices: 30594153--30594319 Score: 147
Period size: 28 Copynumber: 5.9 Consensus size: 28
30594143 TTCACCTTCT
* * *
30594153 AAACCCTACAATCAAAACCCTAAAGCTCC
1 AAACCCTAAAATCAAAACACTAAATCT-C
* ** * * *
30594182 AAGCTGTAAAATCAAAACTCCAAACCTTC
1 AAACCCTAAAATCAAAACACTAAATC-TC
* *
30594211 AAACCCTAAAATTAAACCA-TAAATCCTC
1 AAACCCTAAAATCAAAACACTAAAT-CTC
* **
30594239 TAAACCCTAAAACCAAAACTTTAAATCTC
1 -AAACCCTAAAATCAAAACACTAAATCTC
*
30594268 AAACCCTAAAATCAAAACCCTAAATCTC
1 AAACCCTAAAATCAAAACACTAAATCTC
*
30594296 AAACCCTAAAATCAAAAAACTAAA
1 AAACCCTAAAATCAAAACACTAAA
30594320 CCCTAAAATC
Statistics
Matches: 110, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
28 52 0.47
29 52 0.47
30 6 0.05
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACCCTAAAATCAAAACACTAAATCTC
Found at i:30599507 original size:11 final size:10
Alignment explanation
Indices: 30599482--30599515 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
30599472 AAAATTAATT
30599482 AATTATTTTA
1 AATTATTTTA
30599492 AATTATTTTCA
1 AATTATTTT-A
30599503 AATTA-TTTA
1 AATTATTTTA
30599512 AATT
1 AATT
30599516 TGAATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 12 0.52
11 6 0.26
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATTTTA
Found at i:30609706 original size:20 final size:20
Alignment explanation
Indices: 30609663--30609703 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
30609653 AATACATAAT
**
30609663 AATTTATAATAACCTTTTCA
1 AATTTATAATAACCCGTTCA
30609683 AATTTATAA-AACCCGTTCA
1 AATTTATAATAACCCGTTCA
30609702 AA
1 AA
30609704 ATTGAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTATAATAACCCGTTCA
Found at i:30610801 original size:18 final size:18
Alignment explanation
Indices: 30610776--30610811 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
30610766 ACATATTTTT
30610776 TTAATAAAATTT-TTAAA
1 TTAATAAAATTTATTAAA
30610793 TTAATTAAAATTTATTAAA
1 TTAA-TAAAATTTATTAAA
30610812 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATAAAATTTATTAAA
Found at i:30611423 original size:26 final size:26
Alignment explanation
Indices: 30611375--30611438 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
30611365 GGATAAAAAT
*
30611375 TTTATTTTCTTACATTTTTTATTAGTC
1 TTTATTTT-TTTCATTTTTTATTAGTC
30611402 TTTATTTTTTTCATTTTTTATTAGTC
1 TTTATTTTTTTCATTTTTTATTAGTC
*
30611428 TTTATTATTTT
1 TTTATTTTTTT
30611439 AAAAGATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 27 0.77
27 8 0.23
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTATTTTTTTCATTTTTTATTAGTC
Found at i:30612203 original size:19 final size:18
Alignment explanation
Indices: 30612179--30612223 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
30612169 AAACTATATA
**
30612179 TTTTTTGTATTCTGACTCT
1 TTTTTTGTAAACTGACT-T
*
30612198 TTTTTTTTAAACTGACTT
1 TTTTTTGTAAACTGACTT
30612216 TTTTTTGT
1 TTTTTTGT
30612224 GCAGGAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTTTGTAAACTGACTT
Found at i:30612647 original size:26 final size:26
Alignment explanation
Indices: 30612587--30612647 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
30612577 GATTCTATTT
*
30612587 TTTTTTTTGGTATTTTGTATTTTG-G
1 TTTTTTTTGGTATTTTGTATTTTGAA
*
30612612 TTTTTCTTTTGTATTTTGTATTTAAT-AA
1 TTTTT-TTTGGTATTTTGTATTT--TGAA
30612640 TTTTTTTT
1 TTTTTTTT
30612648 TTTTTACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.17
26 16 0.53
27 3 0.10
28 6 0.20
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.74
Consensus pattern (26 bp):
TTTTTTTTGGTATTTTGTATTTTGAA
Found at i:30612984 original size:96 final size:97
Alignment explanation
Indices: 30612859--30613344 Score: 470
Period size: 96 Copynumber: 5.0 Consensus size: 97
30612849 ATTTAAAATC
* *
30612859 TGAAAAAGATTCCTTTCAACAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAGGGTTCCTC
1 TGAAAAAG-CTCCTCTCAACAAAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAGGGTTCCTC
* * * *
30612924 TCAGTAGAGGTTCAACGACTTTAAAA-ATCATCT
64 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
30612957 TG-AAAAGCTCCTATCGATAAAGGCTCAACAACTTT-AAAA-TCTATCTTGAAAAGGGCTT-CTC
1 TGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTC-ATCTTGAAAAGGG-TTCCTC
* *
30613018 TCAGCAGAAGCTCAACAACTTTAAAATCTCATCC
64 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * * * *
30613052 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATATTGAAAAAAGG-TCTT
1 TGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAA-T-TCATCTTG-AAAAGGGTTCCT
* * * *
30613116 TTTAGCAGATGTTCAACAACTTTAAAATCTCATCT
63 CTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * * * * *
30613151 TGAAAAAGGCTCATCTCAACAGAGGTTCAACGACTTTAAAAA-TCATATTGGAAA--GTTCCTCT
1 TGAAAAA-GCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGTTCCTCT
* * * *
30613213 CAGTAGAGGCTCAATAACTTTAAAATTTTCATAT
65 CAGCAGAGGCTCAACAACTTTAAAA-TCTCATCT
* * * ** * *
30613247 TAAAAAAGACTCCTCTCAACATAGGCTCAACGACTTTAAAAA-TCATCTTGAAAAAAGCTCCTTT
1 TGAAAAAG-CTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGTTCCTCT
*
30613311 CAGCAGAGGCTCAATAACTTTAAAATCTCATCT
65 CAGCAGAGGCTCAACAACTTTAAAATCTCATCT
30613344 T
1 T
30613345 TTTTCAAAAC
Statistics
Matches: 324, Mismatches: 48, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
93 2 0.01
94 39 0.12
95 38 0.12
96 107 0.33
97 24 0.07
98 33 0.10
99 43 0.13
100 38 0.12
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (97 bp):
TGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGTTCCTCTC
AGCAGAGGCTCAACAACTTTAAAATCTCATCT
Found at i:30613041 original size:48 final size:49
Alignment explanation
Indices: 30612881--30613344 Score: 361
Period size: 48 Copynumber: 9.6 Consensus size: 49
30612871 CTTTCAACAA
* * *
30612881 AGGCTCAACAACTTTAAAAATTTCATCTTGAAAAGGGTTCCTCTCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTT-CTCTCAGCAG
* * * * * *
30612931 AGGTTCAACGACTTTAAAAA--TCATCTTGAAAA-GCTCCTATC-GATAA
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTTCTCTCAG-CAG
30612977 AGGCTCAACAACTTT-AAAATCT-ATCTTGAAAAGGGCTTCTCTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAA-GGCTTCTCTCAGCAG
* * * *
30613025 AAGCTCAACAACTTT-AAAATCTCATCCTGAAAAAGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTTCTCTCAGCAG
* *
30613073 AGGCTCAACAACTTTAAAAATTCTCATATTGAAAAAAGGTCTT-T-TTAGCAG
1 AGGCTCAACAACTTTAAAAA-TCTCATCTTG--AAAAGG-CTTCTCTCAGCAG
* * *
30613124 ATGTTCAACAACTTT-AAAATCTCATCTTGAAAAAGGC-TCATCTCAACAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAGGCTTC-TCTCAGCAG
* * * * *
30613173 AGGTTCAACGACTTTAAAAA--TCATATTGGAAA-G-TTCCTCTCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTT-CTCTCAGCAG
* * * * * * * * *
30613219 AGGCTCAATAACTTTAAAATTTTCATATTAAAAAAGACTCCTCTCAACAT
1 AGGCTCAACAACTTTAAAAATCTCATCTT-GAAAAGGCTTCTCTCAGCAG
* * * *
30613269 AGGCTCAACGACTTTAAAAA--TCATCTTGAAAAAAGCTCCTTTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAGGCTTCTCTCAGCAG
*
30613317 AGGCTCAATAACTTT-AAAATCTCATCTT
1 AGGCTCAACAACTTTAAAAATCTCATCTT
30613345 TTTTCAAAAC
Statistics
Matches: 332, Mismatches: 56, Indels: 53
0.75 0.13 0.12
Matches are distributed among these distances:
45 5 0.02
46 55 0.17
47 12 0.04
48 123 0.37
49 51 0.15
50 58 0.17
51 20 0.06
52 6 0.02
53 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (49 bp):
AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTTCTCTCAGCAG
Found at i:30623920 original size:22 final size:21
Alignment explanation
Indices: 30623887--30623942 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
30623877 AAAAAAAATA
*
30623887 TTTTTTAT-TTTTTAGTATTTT
1 TTTTTTATGTTTTAAG-ATTTT
30623908 TTTTTTATGTTTTAAGATTTT
1 TTTTTTATGTTTTAAGATTTT
30623929 TTTGTTT-TGTTTTA
1 TTT-TTTATGTTTTA
30623943 TTTTGTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTTTTATGTTTTAAGATTTT
Found at i:30625553 original size:26 final size:26
Alignment explanation
Indices: 30625522--30625572 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30625512 ATTTTCCTAA
30625522 ATTTTTTATTAGTCTTTATTATTTTC
1 ATTTTTTATTAGTCTTTATTATTTTC
*
30625548 ATTTTTTATTAGTCTTTGTTATTTT
1 ATTTTTTATTAGTCTTTATTATTTT
30625573 AAAAGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (26 bp):
ATTTTTTATTAGTCTTTATTATTTTC
Found at i:30625556 original size:13 final size:14
Alignment explanation
Indices: 30625522--30625570 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
30625512 ATTTTCCTAA
30625522 ATTTTTTATTAGTC
1 ATTTTTTATTAGTC
* *
30625536 -TTTATTATT-TTC
1 ATTTTTTATTAGTC
30625548 ATTTTTTATTAGTC
1 ATTTTTTATTAGTC
*
30625562 -TTTGTTATT
1 ATTTTTTATT
30625571 TTAAAAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.07
13 24 0.86
14 2 0.07
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.69
Consensus pattern (14 bp):
ATTTTTTATTAGTC
Found at i:30627328 original size:24 final size:24
Alignment explanation
Indices: 30627301--30627352 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30627291 TATAAAGATT
*
30627301 TTTTGTTATCTGATTAGACATTTA
1 TTTTATTATCTGATTAGACATTTA
* *
30627325 TTTTATTATTTGATTGGACATTTA
1 TTTTATTATCTGATTAGACATTTA
30627349 TTTT
1 TTTT
30627353 TAGCATGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTTATTATCTGATTAGACATTTA
Found at i:30630072 original size:15 final size:15
Alignment explanation
Indices: 30630052--30630083 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30630042 TCATAAAATC
30630052 TAAACACAAACTTCA
1 TAAACACAAACTTCA
*
30630067 TAAACACAAGCTTCA
1 TAAACACAAACTTCA
30630082 TA
1 TA
30630084 CACAGTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAACACAAACTTCA
Found at i:30630203 original size:26 final size:26
Alignment explanation
Indices: 30630174--30630224 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30630164 ACATAGCTTT
*
30630174 ATAAAATCTAAGTCAGTGAGCAATAC
1 ATAAAATCTAAGTCAATGAGCAATAC
**
30630200 ATAAGCTCTAAGTCAATGAGCAATA
1 ATAAAATCTAAGTCAATGAGCAATA
30630225 TACAAGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (26 bp):
ATAAAATCTAAGTCAATGAGCAATAC
Found at i:30630231 original size:26 final size:26
Alignment explanation
Indices: 30630180--30630252 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
30630170 CTTTATAAAA
* *
30630180 TCTAAGTCAGTGAGCAATACATAAGC
1 TCTAAGTCAGTGAGCAATATACAAGC
*
30630206 TCTAAGTCAATGAGCAATATACAAGC
1 TCTAAGTCAGTGAGCAATATACAAGC
* * *
30630232 TTTAAATTAGTGAGCAATATA
1 TCTAAGTCAGTGAGCAATATA
30630253 ATAAATCCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (26 bp):
TCTAAGTCAGTGAGCAATATACAAGC
Found at i:30630449 original size:125 final size:124
Alignment explanation
Indices: 30630297--30630583 Score: 292
Period size: 124 Copynumber: 2.3 Consensus size: 124
30630287 ATATTGAAGG
** * *
30630297 CATCATGAAAA-TTTATGAGAAAATTATTGAAGGCGTTTTTGGCAAGAAACGCCTTCAATAACCC
1 CATCAT-AAAATTTTATGAGGGAATTATTGAAGGCGTTTTTAGCAAGAAACGACTTCAATAACCC
** * * * *
30630361 CATTAAAAATTTTTTTCGAGATTATTGAAAATATTTTTAGT-AAAAACGTCTTTAGTAATTA
65 CATT-AAAATTTTTTTAAAGATTATTCAAAATATTTTT-GTCAAAAACGCCTTGAGTAATCA
* * * * *
30630422 CATCATAAAATTTTATGAGGGGATTATTGAAGG-GATTGTTAGCCAGAAACGACTTTAATAACCT
1 CATCATAAAATTTTATGAGGGAATTATTGAAGGCG-TTTTTAGCAAGAAACGACTTCAATAACCC
* * * * *
30630486 TATTAAATTTTTTTTAAAGATTATTCAAAGTATTTTTGTCAAAAATGCCTTGATTAATCA
65 CATTAAAATTTTTTTAAAGATTATTCAAAATATTTTTGTCAAAAACGCCTTGAGTAATCA
* * * * *
30630546 CCTTATAAATTTTTATGAAGGAATTATTGAAGACGTTT
1 CATCATAAAATTTTATGAGGGAATTATTGAAGGCGTTT
30630584 GTGATCAAAA
Statistics
Matches: 131, Mismatches: 27, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
123 2 0.02
124 77 0.59
125 52 0.40
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (124 bp):
CATCATAAAATTTTATGAGGGAATTATTGAAGGCGTTTTTAGCAAGAAACGACTTCAATAACCCC
ATTAAAATTTTTTTAAAGATTATTCAAAATATTTTTGTCAAAAACGCCTTGAGTAATCA
Found at i:30630946 original size:50 final size:49
Alignment explanation
Indices: 30630892--30630992 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 49
30630882 AAACATAAAA
30630892 AAATAATTTCTAAAAATAAATTTCATGATTTACTAAACAGAGTCTAAGAG
1 AAATAATTTCTAAAAATAAATTTCATGA-TTACTAAACAGAGTCTAAGAG
*
30630942 AAATAATTTCTAAAAATAAATTTCATGATTACTAAATAGAGTCTAAGAG
1 AAATAATTTCTAAAAATAAATTTCATGATTACTAAACAGAGTCTAAGAG
30630991 AA
1 AA
30630993 TTTGACTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 22 0.44
50 28 0.56
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (49 bp):
AAATAATTTCTAAAAATAAATTTCATGATTACTAAACAGAGTCTAAGAG
Found at i:30631314 original size:29 final size:29
Alignment explanation
Indices: 30631250--30631308 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
30631240 AAATATAATT
*
30631250 AAATATTTAATATGATATTTTAATTTTAA
1 AAATATTTAATATGATATTTTAATTATAA
30631279 AAATATTTAATATGATATTTTAATTATAA
1 AAATATTTAATATGATATTTTAATTATAA
30631308 A
1 A
30631309 TGTATTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
AAATATTTAATATGATATTTTAATTATAA
Found at i:30631323 original size:45 final size:44
Alignment explanation
Indices: 30631269--30631411 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 44
30631259 ATATGATATT
*
30631269 TTAATTTTAAAAATATTTAATATGATATTTTAATTATAAATGTA
1 TTAATTTTAAAAATATTTAATATAATATTTTAATTATAAATGTA
* * * * *
30631313 TTAACTTTTAAAAAGTTTTTAA-ATTATA-ATTAAATATTAATGTGA
1 TTAA-TTTTAAAAA-TATTTAATATAATATTTTAATTATAAATGT-A
* * * *
30631358 TTTTTAAATATTAAAAATATTTAATGTAATATTTAAATTATAAATTTA
1 ---TT-AATTTTAAAAATATTTAATATAATATTTTAATTATAAATGTA
30631406 TTAATT
1 TTAATT
30631412 AATATAATAC
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
44 19 0.25
45 17 0.23
46 6 0.08
47 6 0.08
48 15 0.20
49 12 0.16
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (44 bp):
TTAATTTTAAAAATATTTAATATAATATTTTAATTATAAATGTA
Found at i:30631361 original size:29 final size:29
Alignment explanation
Indices: 30631328--30631401 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
30631318 TTTTAAAAAG
*
30631328 TTTTTAAATTATAATTAAATA-TTAATGTGA
1 TTTTTAAATTATAA--AAATATTTAATGTAA
30631358 TTTTTAAA-TATTAAAAATATTTAATGTAA
1 TTTTTAAATTA-TAAAAATATTTAATGTAA
*
30631387 TATTTAAATTATAAA
1 TTTTTAAATTATAAA
30631402 TTTATTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.13
29 21 0.54
30 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTTTAAATTATAAAAATATTTAATGTAA
Found at i:30631397 original size:93 final size:94
Alignment explanation
Indices: 30631234--30631409 Score: 266
Period size: 93 Copynumber: 1.9 Consensus size: 94
30631224 TTGTGAATAA
* *
30631234 TTTTTAAAATATAATTAAATATTTAATATGATATTTTAATTTTAAAAATATTTAATATGATATTT
1 TTTTTAAAATATAATTAAATATTTAATATGATATTTTAATATTAAAAATATTTAATATAATATTT
*
30631299 TAATTATAAATGTATTAACTTTTAAAAAG
66 AAATTATAAATGTATTAACTTTTAAAAAG
* * *
30631328 TTTTTAAATTATAATTAAATA-TTAATGTGAT-TTTTAAATATTAAAAATATTTAATGTAATATT
1 TTTTTAAAATATAATTAAATATTTAATATGATATTTT-AATATTAAAAATATTTAATATAATATT
*
30631391 TAAATTATAAATTTATTAA
65 TAAATTATAAATGTATTAA
30631410 TTAATATAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
92 4 0.05
93 50 0.68
94 20 0.27
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (94 bp):
TTTTTAAAATATAATTAAATATTTAATATGATATTTTAATATTAAAAATATTTAATATAATATTT
AAATTATAAATGTATTAACTTTTAAAAAG
Found at i:30631407 original size:29 final size:29
Alignment explanation
Indices: 30631330--30631416 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
30631320 TTAAAAAGTT
* * *
30631330 TTTAAATTAT-AATTAAATATTAATGTGATT
1 TTTAAATTATAAATT-TAT-TTAATGTAATA
**
30631360 TTTAAA-TATTAAAAATATTTAATGTAATA
1 TTTAAATTA-TAAATTTATTTAATGTAATA
30631389 TTTAAATTATAAATTTA-TTAAT-TAATA
1 TTTAAATTATAAATTTATTTAATGTAATA
30631416 T
1 T
30631417 AATACTAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.13
28 5 0.11
29 23 0.49
30 11 0.23
31 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTAAATTATAAATTTATTTAATGTAATA
Found at i:30631416 original size:48 final size:46
Alignment explanation
Indices: 30631269--30631416 Score: 108
Period size: 48 Copynumber: 3.2 Consensus size: 46
30631259 ATATGATATT
* * *
30631269 TTAATTTTAAAAATATTTAATATGATATTTTAATTATAAATGTATTAA
1 TTAATATTAAAAATATTTAAT-T-ATATTTAAATTATAAATTTATTAA
* * * * * *
30631317 CT--T-TTAAAAAGTTTTTAAATTATAATTAAA-TATTAATGTGATT-T
1 TTAATATTAAAAA-TATTT-AATTATATTTAAATTATAAAT-TTATTAA
30631361 TTAAATATTAAAAATATTTAATGTAATATTTAAATTATAAATTTATTAA
1 TT-AATATTAAAAATATTTAAT-T-ATATTTAAATTATAAATTTATTAA
30631410 TTAATAT
1 TTAATAT
30631417 AATACTAAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 22
0.68 0.13 0.20
Matches are distributed among these distances:
44 7 0.09
45 17 0.23
46 9 0.12
47 9 0.12
48 25 0.33
49 8 0.11
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (46 bp):
TTAATATTAAAAATATTTAATTATATTTAAATTATAAATTTATTAA
Found at i:30631498 original size:19 final size:18
Alignment explanation
Indices: 30631474--30631521 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
30631464 TATGTTATAG
30631474 ATAAATATCATATTAATT
1 ATAAATATCATATTAATT
30631492 AATAAAT-T--T-TTAATT
1 -ATAAATATCATATTAATT
30631507 -TAAATATCATATTAA
1 ATAAATATCATATTAA
30631522 AAATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 5 0.20
14 1 0.04
15 6 0.24
16 2 0.08
17 4 0.16
18 1 0.04
19 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAATATCATATTAATT
Found at i:30632565 original size:15 final size:16
Alignment explanation
Indices: 30632528--30632566 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
30632518 AATTAAACGA
30632528 ATAAATTTTTTAAATC
1 ATAAATTTTTTAAATC
*
30632544 AT-CATTTTTTAAAT-
1 ATAAATTTTTTAAATC
30632558 ATAAATTTT
1 ATAAATTTT
30632567 AATCAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
ATAAATTTTTTAAATC
Found at i:30633205 original size:20 final size:20
Alignment explanation
Indices: 30633139--30633216 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
30633129 ATATGATTAG
* *
30633139 ATTTAATTTAAGTTTTAAATA
1 ATTTAATTTAATTTTTTAA-A
*
30633160 ATATGTAATATTATAATTTTTAAA
1 AT-T-TAAT-TTA-ATTTTTTAAA
*
30633184 ATTTAATTTAATTTTTTTAA
1 ATTTAATTTAATTTTTTAAA
*
30633204 ATTTTATTTAATT
1 ATTTAATTTAATT
30633217 CAAATTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 20 0.42
21 5 0.10
22 5 0.10
23 5 0.10
24 6 0.12
25 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTAATTTAATTTTTTAAA
Found at i:30633343 original size:10 final size:10
Alignment explanation
Indices: 30633306--30633358 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
30633296 TAAATTAATT
*
30633306 TATATTAAAA
1 TATATAAAAA
30633316 T-T-TAAAAA
1 TATATAAAAA
*
30633324 -ATTTAAAAA
1 TATATAAAAA
30633333 TATATAAAAA
1 TATATAAAAA
30633343 T-TAATAAAAA
1 TAT-ATAAAAA
30633353 TATATA
1 TATATA
30633359 TTTCTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
8 6 0.17
9 8 0.22
10 21 0.58
11 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TATATAAAAA
Found at i:30633343 original size:18 final size:19
Alignment explanation
Indices: 30633320--30633358 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
30633310 TTAAAATTTA
30633320 AAAAATT-TAAAAATATAT
1 AAAAATTATAAAAATATAT
30633338 AAAAATTAATAAAAATATAT
1 AAAAATT-ATAAAAATATAT
30633358 A
1 A
30633359 TTTCTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATATAT
Found at i:30634727 original size:20 final size:20
Alignment explanation
Indices: 30634704--30634743 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30634694 TATTGTGGAA
30634704 TTTTTTATATTTTTTCTCTT
1 TTTTTTATATTTTTTCTCTT
* * *
30634724 TTTTTTTTCTTTTTTTTCTT
1 TTTTTTATATTTTTTCTCTT
30634744 CTTAGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTATATTTTTTCTCTT
Found at i:30634731 original size:13 final size:12
Alignment explanation
Indices: 30634713--30634746 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30634703 ATTTTTTATA
30634713 TTTTTTCTCTTTT
1 TTTTTTCT-TTTT
30634726 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
30634738 TTTCTTCTT
1 TTTTTTCTT
30634747 AGTTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:30634745 original size:12 final size:12
Alignment explanation
Indices: 30634713--30634746 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
30634703 ATTTTTTATA
30634713 TTTTTTC-TCTT
1 TTTTTTCTTCTT
30634724 TTTTTT-TTCTT
1 TTTTTTCTTCTT
30634735 TTTTTTCTTCTT
1 TTTTTTCTTCTT
30634747 AGTTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:30639674 original size:8 final size:8
Alignment explanation
Indices: 30639661--30639687 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30639651 TAAATGATTT
30639661 TAAATATA
1 TAAATATA
30639669 TAAATATA
1 TAAATATA
30639677 TAAATATA
1 TAAATATA
30639685 TAA
1 TAA
30639688 TTTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAATATA
Found at i:30647519 original size:4 final size:4
Alignment explanation
Indices: 30647512--30647539 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30647502 TATATATATA
30647512 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
30647540 AATGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:30653948 original size:14 final size:14
Alignment explanation
Indices: 30653929--30653955 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30653919 ATAAATCATT
30653929 CTCTCCTTCCTATC
1 CTCTCCTTCCTATC
30653943 CTCTCCTTCCTAT
1 CTCTCCTTCCTAT
30653956 TTTGTTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.48, G:0.00, T:0.44
Consensus pattern (14 bp):
CTCTCCTTCCTATC
Found at i:30656233 original size:54 final size:54
Alignment explanation
Indices: 30656153--30656261 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
30656143 GAACTCTAAA
30656153 TAAGACTCCATTGAATCCAATTCTTGAACATAGGCATACCTCTCCAAGAGCATC
1 TAAGACTCCATTGAATCCAATTCTTGAACATAGGCATACCTCTCCAAGAGCATC
30656207 TAAGACTCCATTGAATCCAATTCTTGAACATAGGCATACCTCTCCAAGAGCATC
1 TAAGACTCCATTGAATCCAATTCTTGAACATAGGCATACCTCTCCAAGAGCATC
30656261 T
1 T
30656262 CCACTGACCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (54 bp):
TAAGACTCCATTGAATCCAATTCTTGAACATAGGCATACCTCTCCAAGAGCATC
Found at i:30656352 original size:6 final size:6
Alignment explanation
Indices: 30656341--30656369 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30656331 ACAATGAGAA
30656341 ACATTT ACATTT ACATTT ACATTT ACATT
1 ACATTT ACATTT ACATTT ACATTT ACATT
30656370 ACAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (6 bp):
ACATTT
Found at i:30661567 original size:42 final size:42
Alignment explanation
Indices: 30661508--30661591 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
30661498 GGAAAGAAAA
30661508 AAAAAAGCCTTCATTCATTTTCGTAGGGAATTCTTATAGCTC
1 AAAAAAGCCTTCATTCATTTTCGTAGGGAATTCTTATAGCTC
30661550 AAAAAAGCCTTCATTCATTTTCGTAGGGAATTCTTATAGCTC
1 AAAAAAGCCTTCATTCATTTTCGTAGGGAATTCTTATAGCTC
30661592 CAGTTAGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (42 bp):
AAAAAAGCCTTCATTCATTTTCGTAGGGAATTCTTATAGCTC
Found at i:30665456 original size:28 final size:28
Alignment explanation
Indices: 30665416--30665471 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
30665406 ATCCCCCACT
*
30665416 TTTTTCTCTCCCTCCCTTCCTCAACGCA
1 TTTTTCTCCCCCTCCCTTCCTCAACGCA
*
30665444 TTTTTCTCCCCCTCCCTTCTTCAACGCA
1 TTTTTCTCCCCCTCCCTTCCTCAACGCA
30665472 ATCATCGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.11, C:0.46, G:0.04, T:0.39
Consensus pattern (28 bp):
TTTTTCTCCCCCTCCCTTCCTCAACGCA
Found at i:30665482 original size:28 final size:28
Alignment explanation
Indices: 30665425--30665483 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
30665415 TTTTTTCTCT
* ** *
30665425 CCCTCCCTTCCTCAACGCATTTTTCTCC
1 CCCTCCCTTCCTCAACGCAATCATCGCC
*
30665453 CCCTCCCTTCTTCAACGCAATCATCGCC
1 CCCTCCCTTCCTCAACGCAATCATCGCC
30665481 CCC
1 CCC
30665484 CACTTCTCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.53, G:0.05, T:0.29
Consensus pattern (28 bp):
CCCTCCCTTCCTCAACGCAATCATCGCC
Found at i:30690705 original size:28 final size:28
Alignment explanation
Indices: 30690674--30690729 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
30690664 GGGCGATGAT
*
30690674 TGCGTTGAAGAAGGGAGGGTGAGAAAAA
1 TGCGTTGAAGAAGGGAGGGAGAGAAAAA
*
30690702 TGCGTTGAGGAAGGGAGGGAGAGAAAAA
1 TGCGTTGAAGAAGGGAGGGAGAGAAAAA
30690730 GTGGGGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.45, T:0.12
Consensus pattern (28 bp):
TGCGTTGAAGAAGGGAGGGAGAGAAAAA
Found at i:30699185 original size:15 final size:15
Alignment explanation
Indices: 30699167--30699197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30699157 TTTTTTTATT
30699167 ATATTAAAAATTACC
1 ATATTAAAAATTACC
*
30699182 ATATTTAAAATTACC
1 ATATTAAAAATTACC
30699197 A
1 A
30699198 AATTCACTTC
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:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATTAAAAATTACC
Found at i:30701441 original size:54 final size:54
Alignment explanation
Indices: 30701359--30701467 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
30701349 AGGTCAGTGG
30701359 AGATGCTCTTGGAGAGGTATGCCTATGTTCAAGAATTGGATTCAATGGAGTCTT
1 AGATGCTCTTGGAGAGGTATGCCTATGTTCAAGAATTGGATTCAATGGAGTCTT
30701413 AGATGCTCTTGGAGAGGTATGCCTATGTTCAAGAATTGGATTCAATGGAGTCTT
1 AGATGCTCTTGGAGAGGTATGCCTATGTTCAAGAATTGGATTCAATGGAGTCTT
30701467 A
1 A
30701468 TTTAGAGTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (54 bp):
AGATGCTCTTGGAGAGGTATGCCTATGTTCAAGAATTGGATTCAATGGAGTCTT
Found at i:30703684 original size:14 final size:14
Alignment explanation
Indices: 30703665--30703693 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30703655 CTAAAACAAA
30703665 ATAGGAAGGAGAGG
1 ATAGGAAGGAGAGG
30703679 ATAGGAAGGAGAGG
1 ATAGGAAGGAGAGG
30703693 A
1 A
30703694 ATGATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.48, T:0.07
Consensus pattern (14 bp):
ATAGGAAGGAGAGG
Found at i:30710021 original size:2 final size:2
Alignment explanation
Indices: 30710014--30710050 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30710004 TCATACATAC
30710014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30710051 CCACTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30710090 original size:60 final size:60
Alignment explanation
Indices: 30709989--30710103 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
30709979 GTCAGCGCTT
* * *
30709989 TACCACTTCTTTCATTCATACATACATATATATATATATATATATATATATATATATATA
1 TACCACTTCTTTCATTCATACATACATACATACATACATATATATATATATATATATATA
30710049 TACCACTTCTTTCATTCATACATACATACATACATACATATATATATATATATAT
1 TACCACTTCTTTCATTCATACATACATACATACATACATATATATATATATATAT
30710104 GTAAATGTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.43
Consensus pattern (60 bp):
TACCACTTCTTTCATTCATACATACATACATACATACATATATATATATATATATATATA
Found at i:30715565 original size:16 final size:16
Alignment explanation
Indices: 30715546--30715585 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
30715536 TTTAATTTAA
30715546 ATATATTTTA-AAATTT
1 ATAT-TTTTATAAATTT
*
30715562 ATATTTATATAAATTT
1 ATATTTTTATAAATTT
30715578 ATATTTTT
1 ATATTTTT
30715586 TTGGCACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTTTATAAATTT
Found at i:30717373 original size:27 final size:26
Alignment explanation
Indices: 30717317--30717370 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
30717307 ATTTAATGAA
* *
30717317 TAAAATATACTTTTTAAATTTTAAATT
1 TAAAATATAC-TTTGAAATATTAAATT
30717344 TAAAATATA-TTTGAAATATTAATATT
1 TAAAATATACTTTGAAATATTAA-ATT
30717370 T
1 T
30717371 TAATATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 4 0.17
27 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TAAAATATACTTTGAAATATTAAATT
Found at i:30717789 original size:8 final size:8
Alignment explanation
Indices: 30717776--30717802 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30717766 TAATTATAAA
30717776 TTATATAT
1 TTATATAT
30717784 TTATATAT
1 TTATATAT
30717792 TTATATAT
1 TTATATAT
30717800 TTA
1 TTA
30717803 AAATCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATAT
Found at i:30719306 original size:29 final size:29
Alignment explanation
Indices: 30719274--30719345 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
30719264 TATATAACTG
*
30719274 TTTATATATTAAA-TATATCAAAATTT-ATT
1 TTTAT-TATTAAAGT-TATCAAAATTTGAAT
*
30719303 TTTATTATATAAAGTTATCAAATTTTGAAT
1 TTTATTAT-TAAAGTTATCAAAATTTGAAT
30719333 TTTATTTATTAAA
1 TTTA-TTATTAAA
30719346 ATTAAAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 3 0.08
29 19 0.51
30 11 0.30
31 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTATTATTAAAGTTATCAAAATTTGAAT
Found at i:30722728 original size:13 final size:12
Alignment explanation
Indices: 30722716--30722746 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
30722706 AAAACTAAGA
30722716 AGAAAAAAAAAG
1 AGAAAAAAAAAG
30722728 A-AAAAAAAAAG
1 AGAAAAAAAAAG
30722739 AGAAAAAA
1 AGAAAAAA
30722747 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:30724121 original size:10 final size:11
Alignment explanation
Indices: 30724100--30724155 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
30724090 TTAAATAGAA
30724100 ATATATATTTTT
1 ATATA-ATTTTT
30724112 AT-TAATTTTT
1 ATATAATTTTT
30724122 ATAT-ATTTTT
1 ATATAATTTTT
30724132 -TA-AATTTTT
1 ATATAATTTTT
*
30724141 -TA-AATTTTA
1 ATATAATTTTT
30724150 ATATAA
1 ATATAA
30724156 ATTAATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 16 0.41
10 16 0.41
11 5 0.13
12 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATAATTTTT
Found at i:30724134 original size:18 final size:21
Alignment explanation
Indices: 30724101--30724158 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
30724091 TAAATAGAAA
30724101 TATATATTTTTATT-AATTTT
1 TATATATTTTTATTAAATTTT
30724121 TATATA-TTTT-TTAAATTTT
1 TATATATTTTTATTAAATTTT
* *
30724140 T-TAAATTTTAATATAAATT
1 TATATATTTTTAT-TAAATT
30724159 AATTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 5 0.16
19 14 0.44
20 7 0.22
21 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATATTTTTATTAAATTTT
Found at i:30724141 original size:20 final size:20
Alignment explanation
Indices: 30724101--30724158 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
30724091 TAAATAGAAA
*
30724101 TATATATTTTTATTAATTTT
1 TATATATTTTTATAAATTTT
30724121 TATATATTTTT-TAAATTTT
1 TATATATTTTTATAAATTTT
*
30724140 T-TAAATTTTAATATAAATT
1 TATATATTTT--TATAAATT
30724159 AATTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 12 0.36
21 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATATTTTTATAAATTTT
Found at i:30724148 original size:8 final size:9
Alignment explanation
Indices: 30724115--30724180 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
30724105 TATTTTTATT
30724115 AATTTTTATA
1 AATTTTT-TA
*
30724125 TATTTTTTA
1 AATTTTTTA
30724134 AATTTTTTA
1 AATTTTTTA
30724143 AATTTTAATATA
1 AATTTT--T-TA
*
30724155 AATTAATTTA
1 AATT-TTTTA
* *
30724165 AATTATTAA
1 AATTTTTTA
30724174 AATTTTT
1 AATTTTT
30724181 ATTAAAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 26 0.55
10 12 0.26
11 2 0.04
12 6 0.13
13 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
AATTTTTTA
Found at i:30724228 original size:25 final size:25
Alignment explanation
Indices: 30724200--30724287 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
30724190 ATATATAAAA
30724200 AAATTTAAAATTAATAAATTAAATT
1 AAATTTAAAATTAATAAATTAAATT
* * *
30724225 AAATCGATAAAATT--TAATTTGAATT
1 AAAT--TTAAAATTAATAAATTAAATT
*
30724250 AAA--TAAAATTTAAAAAAATTAAATT
1 AAATTTAAAA-TT-AATAAATTAAATT
30724275 AAATTT-AAATTAA
1 AAATTTAAAATTAA
30724288 ATTTTAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
21 5 0.10
22 2 0.04
24 2 0.04
25 29 0.59
26 3 0.06
27 8 0.16
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATTTAAAATTAATAAATTAAATT
Found at i:30724262 original size:11 final size:11
Alignment explanation
Indices: 30724248--30724291 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
30724238 TTAATTTGAA
30724248 TTAAATAAAAT
1 TTAAATAAAAT
30724259 TTAAA-AAAA-
1 TTAAATAAAAT
*
30724268 TTAAATTAAAT
1 TTAAATAAAAT
*
30724279 TTAAATTAAAT
1 TTAAATAAAAT
30724290 TT
1 TT
30724292 TAAAAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 5 0.17
10 7 0.23
11 18 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATAAAAT
Found at i:30724271 original size:20 final size:20
Alignment explanation
Indices: 30724246--30724283 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30724236 ATTTAATTTG
30724246 AATTAAATAAAATTTAAAAA
1 AATTAAATAAAATTTAAAAA
*
30724266 AATTAAATTAAATTTAAA
1 AATTAAATAAAATTTAAA
30724284 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTAAATAAAATTTAAAAA
Found at i:30724284 original size:6 final size:5
Alignment explanation
Indices: 30724214--30724290 Score: 50
Period size: 5 Copynumber: 15.2 Consensus size: 5
30724204 TTAAAATTAA
** * * * *
30724214 TAAAT TAAAT TAAA- TCGAT AAAATT TAATT TGAAT TAAAT AAAATT TAAA-
1 TAAAT TAAAT TAAAT TAAAT TAAA-T TAAAT TAAAT TAAAT TAAA-T TAAAT
*
30724264 AAAAT TAAAT TAAATT TAAAT TAAAT T
1 TAAAT TAAAT TAAA-T TAAAT TAAAT T
30724291 TTAAAAATTA
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
4 5 0.09
5 36 0.68
6 12 0.23
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:30724735 original size:16 final size:17
Alignment explanation
Indices: 30724700--30724743 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
30724690 TCTTTGGATG
* *
30724700 ATTTGAATTTGAAATGA
1 ATTTAAATTTAAAATGA
30724717 ATTTAAATTTAAAAT-A
1 ATTTAAATTTAAAATGA
30724733 ATTTAAATTTA
1 ATTTAAATTTA
30724744 TTTCAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
ATTTAAATTTAAAATGA
Found at i:30726015 original size:19 final size:18
Alignment explanation
Indices: 30725968--30726015 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
30725958 TTAAAAATTT
30725968 TTAATATGATATTTA-AA
1 TTAATATGATATTTATAA
30725985 TTAA-A--A-ATTTATTAA
1 TTAATATGATATTTA-TAA
30726000 TTAATATGATATTTAT
1 TTAATATGATATTTAT
30726016 CTATAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 11
0.69 0.00 0.31
Matches are distributed among these distances:
13 5 0.20
14 1 0.04
15 6 0.24
16 2 0.08
17 4 0.16
18 2 0.08
19 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TTAATATGATATTTATAA
Found at i:30726114 original size:29 final size:29
Alignment explanation
Indices: 30726073--30726160 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
30726063 TTTTAGTATT
30726073 ATATTA-ATT-AATAAATTTATAATTTAA
1 ATATTACATTAAATAAATTTATAATTTAA
**
30726100 ATATTACATTAAATATTTTTA-ATATTTAA
1 ATATTACATTAAATAAATTTATA-ATTTAA
* *
30726129 AAATCACATTAAATATTTAA-TTATAATTTAA
1 ATATTACATTAAATA---AATTTATAATTTAA
30726160 A
1 A
30726161 AACTTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
27 6 0.12
28 4 0.08
29 27 0.56
31 10 0.21
32 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATTACATTAAATAAATTTATAATTTAA
Found at i:30726185 original size:94 final size:94
Alignment explanation
Indices: 30726080--30726256 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
30726070 ATTATATTAA
* * *
30726080 TTAATAAATTTATAATTTAAATATTACATTAAATATTTTTAATATTTAAAA-ATCACATTAAATA
1 TTAATAAATTTATAATTAAAATATCACATTAAATATTTTTAA-AATTAAAATATCACATTAAATA
30726144 TTTAATTATAATTTAAAAACTTTTTAAAAG
65 TTTAATTATAATTTAAAAACTTTTTAAAAG
* * *
30726174 TTAATACATTTATAATTAAAATATCATATTAAATATTTTTAAAATTAAAATATCATATTAAATAT
1 TTAATAAATTTATAATTAAAATATCACATTAAATATTTTTAAAATTAAAATATCACATTAAATAT
*
30726239 TTAATTATATTTTAAAAA
66 TTAATTATAATTTAAAAA
30726257 TTATTCACAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
93 7 0.09
94 68 0.91
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.46
Consensus pattern (94 bp):
TTAATAAATTTATAATTAAAATATCACATTAAATATTTTTAAAATTAAAATATCACATTAAATAT
TTAATTATAATTTAAAAACTTTTTAAAAG
Found at i:30726219 original size:29 final size:29
Alignment explanation
Indices: 30726182--30726240 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
30726172 AGTTAATACA
*
30726182 TTTATAATTAAAATATCATATTAAATATT
1 TTTAAAATTAAAATATCATATTAAATATT
30726211 TTTAAAATTAAAATATCATATTAAATATT
1 TTTAAAATTAAAATATCATATTAAATATT
30726240 T
1 T
30726241 AATTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTAAAATTAAAATATCATATTAAATATT
Found at i:30726566 original size:49 final size:49
Alignment explanation
Indices: 30726498--30726597 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
30726488 AAAAGTCAAA
30726498 TTCTCTTAGACTCTATTTAGTAATCATGAAATTTATTTTTAGAAATTAT
1 TTCTCTTAGACTCTATTTAGTAATCATGAAATTTATTTTTAGAAATTAT
*
30726547 TTCTCTTAGACTCTGTTTAGTAATCATGAAATTTATTTTTAGAAATTAT
1 TTCTCTTAGACTCTATTTAGTAATCATGAAATTTATTTTTAGAAATTAT
30726596 TT
1 TT
30726598 TTTTATGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (49 bp):
TTCTCTTAGACTCTATTTAGTAATCATGAAATTTATTTTTAGAAATTAT
Found at i:30727376 original size:26 final size:26
Alignment explanation
Indices: 30727305--30727377 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
30727295 TAGGATTTAT
* * * *
30727305 TATATTGCTCACTAATTTAAAGCTTG
1 TATATTGCTCACTGACTTAGAGCTTA
*
30727331 TATATTGCTCATTGACTTAGAGCTTA
1 TATATTGCTCACTGACTTAGAGCTTA
*
30727357 TGTATTGCTCACTGACTTAGA
1 TATATTGCTCACTGACTTAGA
30727378 TTTTATAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (26 bp):
TATATTGCTCACTGACTTAGAGCTTA
Found at i:30727494 original size:15 final size:15
Alignment explanation
Indices: 30727474--30727505 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30727464 ATTTACTGTG
30727474 TATGAAGCTTGTGTT
1 TATGAAGCTTGTGTT
*
30727489 TATGAAGTTTGTGTT
1 TATGAAGCTTGTGTT
30727504 TA
1 TA
30727506 GATTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (15 bp):
TATGAAGCTTGTGTT
Found at i:30730232 original size:24 final size:24
Alignment explanation
Indices: 30730205--30730260 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
30730195 TTACATGCTA
*
30730205 AAAATAAATGTCCAATCAAATAAT
1 AAAATAAATGTCCAATCAAATAAC
* *
30730229 AAAATAAATGTCTAATCAGATAAC
1 AAAATAAATGTCCAATCAAATAAC
30730253 AAAA-AAAT
1 AAAATAAAT
30730261 CTTTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (24 bp):
AAAATAAATGTCCAATCAAATAAC
Found at i:30732020 original size:26 final size:26
Alignment explanation
Indices: 30731989--30732039 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30731979 TAAATCTTTT
30731989 AAAATAACAAAGACTAATAAAAAATG
1 AAAATAACAAAGACTAATAAAAAATG
*
30732015 AAAATAATAAAGACTAATAAAAAAT
1 AAAATAACAAAGACTAATAAAAAAT
30732040 TTAGGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (26 bp):
AAAATAACAAAGACTAATAAAAAATG
Found at i:30732243 original size:20 final size:18
Alignment explanation
Indices: 30732199--30732246 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
30732189 TCTTTTTTTA
30732199 AAGTAATAAATAAAAATT
1 AAGTAATAAATAAAAATT
* * *
30732217 GATTAATATATTAAAAATAT
1 AAGTAATA-AATAAAAAT-T
30732237 AAGTAATAAA
1 AAGTAATAAA
30732247 AATGAGAAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTAATAAATAAAAATT
Found at i:30733647 original size:21 final size:21
Alignment explanation
Indices: 30733621--30733676 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
30733611 TAATACAAAA
30733621 TAAAACA-AAACAAAAAAATCT
1 TAAAACATAAA-AAAAAAATCT
30733642 TAAAACATAAAAAAAAAATAC-
1 TAAAACATAAAAAAAAAAT-CT
*
30733663 TAAAAAATAAAAAA
1 TAAAACATAAAAAA
30733677 TATTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (21 bp):
TAAAACATAAAAAAAAAATCT
Found at i:30740216 original size:2 final size:2
Alignment explanation
Indices: 30740209--30740286 Score: 75
Period size: 2 Copynumber: 39.0 Consensus size: 2
30740199 TAGAAACTTC
* * * * * *
30740209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
30740251 AT AT AT AT AT AT AT AT AC AC AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30740287 TATTATCAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (2 bp):
AT
Found at i:30740857 original size:17 final size:17
Alignment explanation
Indices: 30740835--30740870 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
30740825 TGCTATTTCT
30740835 CTCTTC-TTTCAATCAGA
1 CTCTTCATTTC-ATCAGA
30740852 CTCTTCATTTCATCAGA
1 CTCTTCATTTCATCAGA
30740869 CT
1 CT
30740871 GTTTCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (17 bp):
CTCTTCATTTCATCAGA
Found at i:30742617 original size:18 final size:18
Alignment explanation
Indices: 30742594--30742628 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30742584 TATTTTTTAA
* *
30742594 ATATAATTATATAATTAT
1 ATATAAATAAATAATTAT
30742612 ATATAAATAAATAATTA
1 ATATAAATAAATAATTA
30742629 AAAAATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAAATAAATAATTAT
Found at i:30744558 original size:15 final size:16
Alignment explanation
Indices: 30744538--30744570 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30744528 AAATATAGAT
30744538 AATTATTTATT-TTAA
1 AATTATTTATTATTAA
*
30744553 AATTATTTTTTATTAA
1 AATTATTTATTATTAA
30744569 AA
1 AA
30744571 ACAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTTATTATTAA
Found at i:30757321 original size:38 final size:38
Alignment explanation
Indices: 30757270--30757345 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
30757260 ATCCATGCCT
*
30757270 TAGGAACCCAATCAGTCTTCAGTGTTACTCAAGTCCTA
1 TAGGAACCCAATCAGCCTTCAGTGTTACTCAAGTCCTA
*
30757308 TAGGAACCTAATCAGCCTTCAGTGTTACTCAAGTCCTA
1 TAGGAACCCAATCAGCCTTCAGTGTTACTCAAGTCCTA
30757346 CTAAGATGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (38 bp):
TAGGAACCCAATCAGCCTTCAGTGTTACTCAAGTCCTA
Found at i:30770929 original size:2 final size:2
Alignment explanation
Indices: 30770922--30770950 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30770912 CTTCCACTGG
30770922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30770951 GAAAGCTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.