Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 256 of 279
Found at i:83343461 original size:16 final size:16
Alignment explanation
Indices: 83343442--83343476 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
83343432 AGCAAATTAT
*
83343442 AATCATATAAAATAAA
1 AATCAAATAAAATAAA
83343458 AATCAAATAAAATAAA
1 AATCAAATAAAATAAA
83343474 AAT
1 AAT
83343477 AAAGATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AATCAAATAAAATAAA
Found at i:83343797 original size:21 final size:19
Alignment explanation
Indices: 83343752--83343801 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
83343742 ATTTATAAAC
83343752 AAAATATATAATAATATGA
1 AAAATATATAATAATATGA
*
83343771 ACAATATGATAAGTAATAT-A
1 AAAATAT-ATAA-TAATATGA
83343791 TAAAATA-ATAA
1 -AAAATATATAA
83343802 AAATGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
21 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAATATATAATAATATGA
Found at i:83343803 original size:8 final size:9
Alignment explanation
Indices: 83343720--83343956 Score: 65
Period size: 10 Copynumber: 24.1 Consensus size: 9
83343710 AATAGGTGGA
83343720 AAAATATAT
1 AAAATATAT
*
83343729 AACATATAAT
1 AAAATAT-AT
*
83343739 AAAATTTAT
1 AAAATATAT
*
83343748 AAACAAAATAT
1 -AA-AATATAT
*
83343759 ATAATAATAT
1 AAAAT-ATAT
83343769 GAACAATATGAT
1 -AA-AATAT-AT
83343781 AAGTAATATAT
1 AA--AATATAT
83343792 AAAATA-AT
1 AAAATATAT
83343800 AAAAATGATAT
1 -AAAAT-ATAT
*
83343811 AACAAGTAATTT
1 AA-AA-T-ATAT
* *
83343823 TACATATA-
1 AAAATATAT
83343831 AAAATATAGT
1 AAAATATA-T
*
83343841 AAAA-AAAT
1 AAAATATAT
83343849 AATATATATAGT
1 AA-A-ATATA-T
83343861 AAAAAATATAT
1 --AAAATATAT
*
83343872 AACATATAAT
1 AAAATAT-AT
83343882 AAAATATA-
1 AAAATATAT
*
83343890 AATATA-AT
1 AAAATATAT
*
83343898 -ATATATAAT
1 AAAATAT-AT
83343907 AAAA-ATAT
1 AAAATATAT
*
83343915 AACATATAAT
1 AAAATAT-AT
*
83343925 AAAATTTAT
1 AAAATATAT
83343934 AAAGATGTATAT
1 AAA-A--TATAT
83343946 AATAATATAT
1 AA-AATATAT
83343956 A
1 A
83343957 TTATTTTTCA
Statistics
Matches: 170, Mismatches: 26, Indels: 63
0.66 0.10 0.24
Matches are distributed among these distances:
7 6 0.04
8 21 0.12
9 42 0.25
10 47 0.28
11 22 0.13
12 28 0.16
13 2 0.01
14 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:83343871 original size:18 final size:18
Alignment explanation
Indices: 83343834--83343895 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
83343824 ACATATAAAA
83343834 ATATAGTAAAAAAATAATAT
1 ATATAGT-AAAAAAT-ATAT
83343854 ATATAGTAAAAAATATAT
1 ATATAGTAAAAAATATAT
* *
83343872 AACATA-TAATAAAATATAA
1 -ATATAGTAA-AAAATATAT
83343891 ATATA
1 ATATA
83343896 ATATATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.30
19 19 0.51
20 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (18 bp):
ATATAGTAAAAAATATAT
Found at i:83343880 original size:7 final size:6
Alignment explanation
Indices: 83343868--83343923 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 6
83343858 AGTAAAAAAT
*
83343868 ATATAA CATAT-A ATA-AA ATATAA ATATAA TATATATA ATAAAA ATATAA
1 ATATAA -ATATAA ATATAA ATATAA ATATAA -ATATA-A ATATAA ATATAA
83343917 CATATAA
1 -ATATAA
83343924 TAAAATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
5 7 0.17
6 15 0.36
7 19 0.45
8 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:83343936 original size:27 final size:26
Alignment explanation
Indices: 83343864--83343927 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
83343854 ATATAGTAAA
83343864 AAATAT-ATAACATATAAT-AAAATAT
1 AAATATAATAA-ATATAATAAAAATAT
*
83343889 AAATATAATATATATAATAAAAATAT
1 AAATATAATAAATATAATAAAAATAT
83343915 AACATATAATAAA
1 AA-ATATAATAAA
83343928 ATTTATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 13 0.38
26 12 0.35
27 9 0.26
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATATAATAAATATAATAAAAATAT
Found at i:83363772 original size:21 final size:21
Alignment explanation
Indices: 83363747--83363885 Score: 152
Period size: 21 Copynumber: 6.6 Consensus size: 21
83363737 AAAGCTTGAA
*
83363747 AGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
83363768 AGCTGAACAGAAACTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
* * *
83363789 AGCTAAACAAAAACTCATAAG
1 AGCTGAACAGAAACTCGTAAG
* * *
83363810 AGGTGAACAGAAGCTCGTAAA
1 AGCTGAACAGAAACTCGTAAG
* **
83363831 AGCTGAACAAAAACTTATAAG
1 AGCTGAACAGAAACTCGTAAG
* * * *
83363852 AGTTGAATAGAAGCTTGTAAG
1 AGCTGAACAGAAACTCGTAAG
83363873 AGCTGAACAGAAA
1 AGCTGAACAGAAA
83363886 GTAAAACACT
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 94 1.00
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (21 bp):
AGCTGAACAGAAACTCGTAAG
Found at i:83363827 original size:42 final size:42
Alignment explanation
Indices: 83363747--83363881 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 42
83363737 AAAGCTTGAA
* * * *
83363747 AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAG
1 AGCTGAACAAAAACTCATAAGAGCTGAACAGAAGCTCGTAAG
* * *
83363789 AGCTAAACAAAAACTCATAAGAGGTGAACAGAAGCTCGTAAA
1 AGCTGAACAAAAACTCATAAGAGCTGAACAGAAGCTCGTAAG
* * * *
83363831 AGCTGAACAAAAACTTATAAGAGTTGAATAGAAGCTTGTAAG
1 AGCTGAACAAAAACTCATAAGAGCTGAACAGAAGCTCGTAAG
83363873 AGCTGAACA
1 AGCTGAACA
83363882 GAAAGTAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (42 bp):
AGCTGAACAAAAACTCATAAGAGCTGAACAGAAGCTCGTAAG
Found at i:83363873 original size:63 final size:63
Alignment explanation
Indices: 83363733--83363884 Score: 175
Period size: 63 Copynumber: 2.5 Consensus size: 63
83363723 AAATACTCCA
* * *
83363733 AAAC-AAAGCTTG-AA-AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAGAGCT
1 AAACAAAAGCTTGTAAGAGCTGAACAGAAGCTCGTAAAAGCTGAACAAAAACTCATAAGAGCT
* ** * * *
83363793 AAACAAAAACTCATAAGAGGTGAACAGAAGCTCGTAAAAGCTGAACAAAAACTTATAAGAGTT
1 AAACAAAAGCTTGTAAGAGCTGAACAGAAGCTCGTAAAAGCTGAACAAAAACTCATAAGAGCT
* * *
83363856 GAATAGAAGCTTGTAAGAGCTGAACAGAA
1 AAACAAAAGCTTGTAAGAGCTGAACAGAA
83363885 AGTAAAACAC
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
60 4 0.05
61 5 0.07
62 2 0.03
63 62 0.85
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (63 bp):
AAACAAAAGCTTGTAAGAGCTGAACAGAAGCTCGTAAAAGCTGAACAAAAACTCATAAGAGCT
Found at i:83370961 original size:27 final size:25
Alignment explanation
Indices: 83370931--83370986 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
83370921 TTTTCGTCCT
*
83370931 TTTTAAATTTTTTATACAATTTATTTA
1 TTTTAAATATTTTATA-AA-TTATTTA
*
83370958 TTTTAAATATTTTATATATTATTTA
1 TTTTAAATATTTTATAAATTATTTA
83370983 TTTT
1 TTTT
83370987 TACTATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 11 0.41
26 1 0.04
27 15 0.56
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTAAATATTTTATAAATTATTTA
Found at i:83371093 original size:3 final size:3
Alignment explanation
Indices: 83371075--83371153 Score: 76
Period size: 3 Copynumber: 26.0 Consensus size: 3
83371065 CTTTATAATA
*
83371075 TAT TAT TCAT TA- TAT TAT TTT TAT TATT TAT TAT ATAT T-T TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT
83371121 T-T TAT TAT T-T TAT TATT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT
83371154 GTACAATTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
2 8 0.12
3 42 0.65
4 15 0.23
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:83371104 original size:7 final size:7
Alignment explanation
Indices: 83371075--83371151 Score: 88
Period size: 7 Copynumber: 11.0 Consensus size: 7
83371065 CTTTATAATA
83371075 TATTATT
1 TATTATT
*
83371082 CATTATAT
1 TATTAT-T
83371090 TATT-TT
1 TATTATT
83371096 TATTATT
1 TATTATT
*
83371103 TATTATA
1 TATTATT
83371110 TA-T-TT
1 TATTATT
83371115 TATTATTT
1 TATTA-TT
83371123 TATTATTT
1 TATTA-TT
83371131 TATTATT
1 TATTATT
83371138 TATTATT
1 TATTATT
83371145 TATTATT
1 TATTATT
83371152 ATGTACAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
5 3 0.05
6 7 0.11
7 32 0.52
8 19 0.31
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (7 bp):
TATTATT
Found at i:83371106 original size:28 final size:27
Alignment explanation
Indices: 83371066--83371153 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 27
83371056 ATTTATATGC
* *
83371066 TTTATAATATATTATTCATTATATTATT
1 TTTATTATTTATTATT-ATTATATTATT
*
83371094 TTTATTATTTATTATATATTTTATTA-T
1 TTTATTATTTATTAT-TATTATATTATT
83371121 TTTATTA-TT-TTATTATT-TATTATT
1 TTTATTATTTATTATTATTATATTATT
83371145 TATTATTAT
1 T-TTATTAT
83371154 GTACAATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.09
24 6 0.11
25 10 0.19
26 2 0.04
27 8 0.15
28 21 0.40
29 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTATTATTTATTATTATTATATTATT
Found at i:83371621 original size:14 final size:15
Alignment explanation
Indices: 83371593--83371639 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
83371583 TATATATATT
*
83371593 TATTAGTAATAAATTA
1 TATTA-TAATTAATTA
83371609 TATTA-AATTAATT-
1 TATTATAATTAATTA
83371622 TATTATAATTATATTA
1 TATTATAATTA-ATTA
83371638 TA
1 TA
83371640 AGATATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 3 0.11
16 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:83372051 original size:20 final size:21
Alignment explanation
Indices: 83372014--83372061 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
83372004 ATATATGTAT
*
83372014 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
83372035 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
*
83372055 TAAATTA
1 TTAATTA
83372062 AATAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:83372522 original size:15 final size:16
Alignment explanation
Indices: 83372489--83372532 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
83372479 TTAAATTAAT
83372489 ATTGAATTATATATTG
1 ATTGAATTATATATTG
*
83372505 ATTGAATT-TATTTTG
1 ATTGAATTATATATTG
83372520 ATTGAATTATATA
1 ATTGAATTATATA
83372533 ATAAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTGAATTATATATTG
Found at i:83373019 original size:24 final size:22
Alignment explanation
Indices: 83372991--83373037 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
83372981 GAGGATATAT
83372991 TATTCCGGGTGTGTTTGGGTTGGA
1 TATT-CGGGTGTGTTT-GGTTGGA
*
83373015 TATTCTGGTGTGTTTGGTTGGA
1 TATTCGGGTGTGTTTGGTTGGA
83373037 T
1 T
83373038 TCGTGTATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.09, C:0.06, G:0.38, T:0.47
Consensus pattern (22 bp):
TATTCGGGTGTGTTTGGTTGGA
Found at i:83377610 original size:14 final size:15
Alignment explanation
Indices: 83377582--83377628 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
83377572 TATATATATT
*
83377582 TATTAGTAATAAATTA
1 TATTA-TAATTAATTA
83377598 TATTA-AATTAATT-
1 TATTATAATTAATTA
83377611 TATTATAATTATATTA
1 TATTATAATTA-ATTA
83377627 TA
1 TA
83377629 AGATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 3 0.11
16 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:83378024 original size:15 final size:16
Alignment explanation
Indices: 83377991--83378034 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
83377981 TTAAATTAAT
83377991 ATTGAATTATATATTG
1 ATTGAATTATATATTG
*
83378007 ATTGAATT-TATTTTG
1 ATTGAATTATATATTG
83378022 ATTGAATTATATA
1 ATTGAATTATATA
83378035 ATAAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTGAATTATATATTG
Found at i:83378522 original size:24 final size:22
Alignment explanation
Indices: 83378494--83378540 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
83378484 GAGGATATAT
83378494 TATTCCGGGTGTGTTTGGGTTGGA
1 TATT-CGGGTGTGTTT-GGTTGGA
*
83378518 TATTCTGGTGTGTTTGGTTGGA
1 TATTCGGGTGTGTTTGGTTGGA
83378540 T
1 T
83378541 CCGTGTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.09, C:0.06, G:0.38, T:0.47
Consensus pattern (22 bp):
TATTCGGGTGTGTTTGGTTGGA
Found at i:83379754 original size:35 final size:37
Alignment explanation
Indices: 83379683--83379780 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
83379673 ATAATCTTCA
83379683 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
83379721 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
83379756 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
83379781 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:83379780 original size:17 final size:19
Alignment explanation
Indices: 83379683--83379773 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
83379673 ATAATCTTCA
83379683 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83379702 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83379721 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83379738 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83379756 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
83379774 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:83379799 original size:22 final size:22
Alignment explanation
Indices: 83379683--83379796 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
83379673 ATAATCTTCA
83379683 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
83379702 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
83379721 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
83379738 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
83379756 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
83379778 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
83379797 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:83380798 original size:28 final size:26
Alignment explanation
Indices: 83380766--83380826 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
83380756 TTTTTATGTT
*
83380766 ATTTATTGTTTTATATATTTGCGTGGAA
1 ATTTATTGTTGT-TATATTTGCGT-GAA
83380794 ATTTA-TGTTGTTATATTTGCGTGAA
1 ATTTATTGTTGTTATATTTGCGTGAA
83380819 ATATTATT
1 AT-TTATT
83380827 ATATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 14 0.47
27 6 0.20
28 5 0.17
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.54
Consensus pattern (26 bp):
ATTTATTGTTGTTATATTTGCGTGAA
Found at i:83380833 original size:25 final size:25
Alignment explanation
Indices: 83380776--83380835 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
83380766 ATTTATTGTT
83380776 TTATATATTTGCGTGGAAATTTATG
1 TTATATATTTGCGTGGAAATTTATG
*
83380801 TTGTTATATTTGCGT-GAAATATTAT-
1 TT-ATATATTTGCGTGGAAAT-TTATG
83380826 TATATATATT
1 T-TATATATT
83380836 ATGTAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (25 bp):
TTATATATTTGCGTGGAAATTTATG
Found at i:83384439 original size:14 final size:14
Alignment explanation
Indices: 83384416--83384452 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
83384406 TAAAATTAAT
*
83384416 AGAGAGAGAGAG--
1 AGAGAAAGAGAGTA
83384428 AGAGAAAGAGAGTA
1 AGAGAAAGAGAGTA
83384442 AGAGAAAGAGA
1 AGAGAAAGAGA
83384453 AAACCTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.03
Consensus pattern (14 bp):
AGAGAAAGAGAGTA
Found at i:83392673 original size:63 final size:63
Alignment explanation
Indices: 83392585--83392710 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
83392575 AATGATAGAG
* *
83392585 CAAGGAAAATCGAAATTCGGGCTAAAATCGGCAAAATACCAAGTTGTGGACAAAATGGTAAAA
1 CAAGGAAAATCGAAATTCAGGCTAAAATCAGCAAAATACCAAGTTGTGGACAAAATGGTAAAA
*
83392648 CAAGGAAAATCGAAATTTAGGCTAAAATCAGCAAAATACCAAGTTGTGGACAAAATGGTAAAA
1 CAAGGAAAATCGAAATTCAGGCTAAAATCAGCAAAATACCAAGTTGTGGACAAAATGGTAAAA
83392711 ATGACCATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (63 bp):
CAAGGAAAATCGAAATTCAGGCTAAAATCAGCAAAATACCAAGTTGTGGACAAAATGGTAAAA
Found at i:83393886 original size:31 final size:31
Alignment explanation
Indices: 83393811--83393989 Score: 99
Period size: 27 Copynumber: 5.7 Consensus size: 31
83393801 AGGCTGCCAG
* *
83393811 ATATTGTGACGAAGTCACCAGATACAG----
1 ATATTGTGGCGAAGCCACCAGATACAGATAT
* *
83393838 ATATTGTGGCTAGGCCACCAGA-ACAGATAT
1 ATATTGTGGCGAAGCCACCAGATACAGATAT
* *
83393868 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAG
1 ATAT-TGTGGCGAAGCCACCAGA-T--A-C-A-GAT---AT
* *
83393909 ATATTGTGACGAAGTCACCAGATACAG----
1 ATATTGTGGCGAAGCCACCAGATACAGATAT
* *
83393936 ATATTGTGGCTAGGCCACCAGA-ACAGATAT
1 ATATTGTGGCGAAGCCACCAGATACAGATAT
83393966 ATATATGTGGCGAAGCCACCAGAT
1 ATAT-TGTGGCGAAGCCACCAGAT
83393990 TGCAGCGAGG
Statistics
Matches: 115, Mismatches: 16, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
26 8 0.07
27 36 0.31
30 8 0.07
31 32 0.28
34 1 0.01
35 2 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
40 16 0.14
41 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (31 bp):
ATATTGTGGCGAAGCCACCAGATACAGATAT
Found at i:83393913 original size:98 final size:98
Alignment explanation
Indices: 83393792--83394007 Score: 423
Period size: 98 Copynumber: 2.2 Consensus size: 98
83393782 CACCACAGAA
*
83393792 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
83393857 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
83393890 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
83393955 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
83393988 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
83394008 ACGCTTCCTC
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (98 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
AGAACAGATATATATATGTGGCGAAGCCACCAG
Found at i:83401126 original size:27 final size:26
Alignment explanation
Indices: 83401078--83401129 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
83401068 GCGAGGCTGC
*
83401078 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
83401104 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
83401130 TTGTAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:83404746 original size:29 final size:27
Alignment explanation
Indices: 83404706--83404761 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
83404696 ATTTTAGTCC
*
83404706 ATTTTAATTTTTTTATAGAATTTATTT
1 ATTTTAATTTTTATATAGAATTTATTT
**
83404733 ATTTTGAATATTTTATATATTATTTATTT
1 ATTTT-AAT-TTTTATATAGAATTTATTT
83404762 TTACTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 3 0.12
29 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (27 bp):
ATTTTAATTTTTATATAGAATTTATTT
Found at i:83404808 original size:12 final size:12
Alignment explanation
Indices: 83404791--83404952 Score: 72
Period size: 12 Copynumber: 13.7 Consensus size: 12
83404781 CATATAAAAA
83404791 ATTATTATATAT
1 ATTATTATATAT
*
83404803 ATTATT-TTTCAT
1 ATTATTATAT-AT
*
83404815 ATT-TTATTATAC
1 ATTATTA-TATAT
*
83404827 ATT-TTATTTAT
1 ATTATTATATAT
*
83404838 ATTCTT-TATA-
1 ATTATTATATAT
83404848 ATATATTATATCAT
1 AT-TATTATAT-AT
*
83404862 TTTATTATATAT
1 ATTATTATATAT
*
83404874 ATGATTCAT-TAT
1 ATTATT-ATATAT
* * *
83404886 ATTTTTTTTATTT
1 A-TTATTATATAT
*
83404899 TTTATTATATAT
1 ATTATTATATAT
* *
83404911 TTTATTAT-TTT
1 ATTATTATATAT
*
83404922 ATTATTTTAT-T
1 ATTATTATATAT
*
83404933 ATT-TTATTATTT
1 ATTATTA-TATAT
83404945 ATTATTAT
1 ATTATTAT
83404953 GTACAATTTT
Statistics
Matches: 113, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
10 4 0.04
11 31 0.27
12 56 0.50
13 21 0.19
14 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:83404839 original size:35 final size:33
Alignment explanation
Indices: 83404795--83404873 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 33
83404785 TAAAAAATTA
* * * *
83404795 TTATATATATTATTTTTCATATTTTATTATACATT
1 TTATTTATATTATTTATAATATATTA-TAT-CATT
*
83404830 TTATTTATATTCTTTATAATATATTATATCATT
1 TTATTTATATTATTTATAATATATTATATCATT
83404863 TTATTATATAT
1 TTATT-TATAT
83404874 ATGATTCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 9 0.24
34 8 0.21
35 21 0.55
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (33 bp):
TTATTTATATTATTTATAATATATTATATCATT
Found at i:83404901 original size:8 final size:8
Alignment explanation
Indices: 83404885--83404950 Score: 88
Period size: 8 Copynumber: 8.9 Consensus size: 8
83404875 TGATTCATTA
83404885 TATT-TTT
1 TATTATTT
83404892 T-TTATTT
1 TATTATTT
*
83404899 T-TTATTA
1 TATTATTT
83404906 TA-TATTT
1 TATTATTT
83404913 TATTATTT
1 TATTATTT
83404921 TATTATTT
1 TATTATTT
83404929 TATTATTT
1 TATTATTT
83404937 TATTA-TT
1 TATTATTT
83404944 TATTATT
1 TATTATT
83404951 ATGTACAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
6 2 0.04
7 24 0.45
8 27 0.51
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:83404904 original size:16 final size:17
Alignment explanation
Indices: 83404885--83404943 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 17
83404875 TGATTCATTA
83404885 TATT-TTTTTTATTTTT
1 TATTATTTTTTATTTTT
83404901 TATTATATATTTTATTATTT
1 TATTAT-T-TTTTATT-TTT
83404921 TATTATTTTATTATTTTAT
1 TATTATTTT-TTATTTT-T
83404940 TATT
1 TATT
83404944 TATTATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.11
17 1 0.03
18 5 0.14
19 18 0.49
20 9 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATTTTTTATTTTT
Found at i:83404906 original size:3 final size:3
Alignment explanation
Indices: 83404851--83404952 Score: 62
Period size: 3 Copynumber: 36.0 Consensus size: 3
83404841 CTTTATAATA
* * * *
83404851 TAT TA- TAT CAT T-T TAT TA- TAT ATAT GAT TCAT TA- TAT TTT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT TAT TAT TAT TAT
83404894 TAT T-T T-T TAT TAT ATAT T-T TAT TAT T-T TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83404935 T-T TAT TATT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT
83404953 GTACAATTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 26
0.71 0.05 0.23
Matches are distributed among these distances:
2 20 0.25
3 48 0.60
4 12 0.15
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:83404907 original size:37 final size:38
Alignment explanation
Indices: 83404861--83404943 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
83404851 TATTATATCA
83404861 TTTTATTATATATATGATTCATTATATT-TTTT-TTATT
1 TTTTATTATATATATGATT-ATTATATTATTTTATTATT
* * *
83404898 TTTTATTATATATTTTATTATTTTATTATTTTATTATT
1 TTTTATTATATATATGATTATTATATTATTTTATTATT
83404936 TTATTATT
1 TT-TTATT
83404944 TATTATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 7 0.17
37 21 0.52
38 7 0.17
39 5 0.12
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (38 bp):
TTTTATTATATATATGATTATTATATTATTTTATTATT
Found at i:83404942 original size:57 final size:60
Alignment explanation
Indices: 83404792--83404942 Score: 150
Period size: 57 Copynumber: 2.5 Consensus size: 60
83404782 ATATAAAAAA
*
83404792 TTATTATATATATTATTTT-TCATATTTTATTATACATTTTATTTATATTCTTTATAATATATT
1 TTATTAT-TTTATTATTTTAT--TATTTTATTATA-ATTTTATTTATATTCTTTATAATATATT
* * * * * * *
83404855 ATATCATTTTATTATATATATGA-TTCATTAT-ATTTT-TTT-TATTTTTTATTATATATT
1 TTATTATTTTATTAT-TTTATTATTTTATTATAATTTTATTTATATTCTTTATAATATATT
83404912 TTATTATTTTATTATTTTATTATTTTATTAT
1 TTATTATTTTATTATTTTATTATTTTATTAT
83404943 TTATTATTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
56 5 0.07
57 36 0.50
58 3 0.04
59 5 0.07
61 7 0.10
62 8 0.11
63 7 0.10
64 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (60 bp):
TTATTATTTTATTATTTTATTATTTTATTATAATTTTATTTATATTCTTTATAATATATT
Found at i:83412700 original size:46 final size:45
Alignment explanation
Indices: 83412647--83412822 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
83412637 TGGTTGGGCA
83412647 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
83412693 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
83412740 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
83412786 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83412823 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:83412802 original size:93 final size:93
Alignment explanation
Indices: 83412643--83412814 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
83412633 AGGATGGTTG
* * *
83412643 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83412708 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
83412736 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83412801 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
83412815 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:83415683 original size:16 final size:15
Alignment explanation
Indices: 83415649--83415695 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
83415639 ATATAAATCG
83415649 TATAGTAATAAAA-A
1 TATAGTAATAAAATA
83415663 TATATGTAATAAAATA
1 TATA-GTAATAAAATA
*
83415679 TATA-TAATATAATA
1 TATAGTAATAAAATA
83415693 TAT
1 TAT
83415696 GAGGAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 16 0.53
15 9 0.30
16 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
TATAGTAATAAAATA
Found at i:83415825 original size:15 final size:15
Alignment explanation
Indices: 83415789--83415833 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
83415779 AGTATATGCT
83415789 AAATTTAT-A-AATA
1 AAATTTATAATAATA
*
83415802 AAATGTATAATAATA
1 AAATTTATAATAATA
*
83415817 TAATTTATAAT-ATA
1 AAATTTATAATAATA
83415831 AAA
1 AAA
83415834 AATAATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATTTATAATAATA
Found at i:83417344 original size:4 final size:4
Alignment explanation
Indices: 83417337--83417377 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
83417327 TAAATAAACT
* *
83417337 TTTA TTTA TTTA TTT- TTTA TTTA TTTG TTCA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
83417378 AATATATGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:83417356 original size:15 final size:16
Alignment explanation
Indices: 83417335--83417377 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
83417325 AATAAATAAA
83417335 CTTTTATTTATTTATT
1 CTTTTATTTATTTATT
*
83417351 -TTTTATTTATTTGTT
1 CTTTTATTTATTTATT
*
83417366 CATTTATTTATT
1 CTTTTATTTATT
83417378 AATATATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (16 bp):
CTTTTATTTATTTATT
Found at i:83417357 original size:11 final size:12
Alignment explanation
Indices: 83417341--83417374 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
83417331 TAAACTTTTA
83417341 TTTATTTATTT-
1 TTTATTTATTTG
83417352 TTTATTTATTTG
1 TTTATTTATTTG
*
83417364 TTCATTTATTT
1 TTTATTTATTT
83417375 ATTAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:83417657 original size:44 final size:44
Alignment explanation
Indices: 83417605--83417733 Score: 231
Period size: 44 Copynumber: 2.9 Consensus size: 44
83417595 ATCTATTGTT
83417605 CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATC
1 CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATC
* * *
83417649 TTCGATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATC
1 CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATC
83417693 CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
1 CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
83417734 CTCTGCCAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (44 bp):
CTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATC
Found at i:83417731 original size:30 final size:30
Alignment explanation
Indices: 83417697--83417760 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
83417687 GCTATCCTCG
**
83417697 ATCTGCTCTCTGCCAATACAGAGATGCCAA
1 ATCTGCTCTCTGCCAATACAGAGACACCAA
83417727 ATCTGCTCTCTGCCAATACAGAGACACCAA
1 ATCTGCTCTCTGCCAATACAGAGACACCAA
83417757 ATCT
1 ATCT
83417761 ACTATCCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.23
Consensus pattern (30 bp):
ATCTGCTCTCTGCCAATACAGAGACACCAA
Found at i:83417734 original size:74 final size:74
Alignment explanation
Indices: 83417653--83417895 Score: 297
Period size: 74 Copynumber: 3.1 Consensus size: 74
83417643 GCTATCTTCG
83417653 ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGCCAATACAG
1 ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGCCAATACAG
*
83417718 AGATGCCAA
66 AGACGCCAA
* * * *
83417727 ATCTGCTCTCTGCCAATACAGAGACACCAAATCTACTATCCTCGATCTGCTCTTTGCCAATACAG
1 ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGCCAATACAG
83417792 AGACGCCAAATCTGTTA
66 AGACGCC--A------A
* *
83417809 GCTTCGATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCA
1 ------ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGCCA
83417874 ATACAGAGACGCCAA
60 ATACAGAGACGCCAA
83417889 ATCTGCT
1 ATCTGCT
83417896 ATCCTCGATC
Statistics
Matches: 144, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
74 74 0.51
76 1 0.01
80 1 0.01
82 1 0.01
86 1 0.01
88 66 0.46
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (74 bp):
ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCCTCGATCTGCTCTCTGCCAATACAG
AGACGCCAA
Found at i:83417775 original size:44 final size:44
Alignment explanation
Indices: 83417727--83418131 Score: 623
Period size: 44 Copynumber: 9.2 Consensus size: 44
83417717 GAGATGCCAA
* * *
83417727 ATCTGCTCTCTGCCAATACAGAGACACCAAATCTACTATCCTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
83417771 ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGTTAGCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
83417815 ATCTGCTCTTTGCCAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
*
83417859 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCCTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * *
83417903 ATCTGCTCACTGCCAATACAGGGACGCTAAATCTGCTATCCTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
83417947 ATCTACTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
*
83417991 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
83418035 ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCCTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
83418079 ATATGCTCTCTGCCAATATAGAGACGCCAAA-CTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
83418122 ATCTGCTCTC
1 ATCTGCTCTC
83418132 CTACTGCTTA
Statistics
Matches: 329, Mismatches: 32, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
43 20 0.06
44 309 0.94
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (44 bp):
ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:83426236 original size:216 final size:216
Alignment explanation
Indices: 83425857--83426293 Score: 840
Period size: 216 Copynumber: 2.0 Consensus size: 216
83425847 AGAGAAATCA
83425857 CTCTG-GGCCAGACCCTGTGTAGCCGGTATGAACTGCCTCGCTCGATATTGCCTTAAAACAAGCA
1 CTCTGAGGCCAGACCCTGTGTAGCCGGTATGAACTGCCTCGCTCGATATTGCCTTAAAACAAGCA
*
83425921 ACGGTGTATATCCAACAGCTCCCCAAATTCCTGGCAAAGGGACCCAATCAAAACTGCCGCATCGG
66 ACGGTGTATATCCAACAACTCCCCAAATTCCTGGCAAAGGGACCCAATCAAAACTGCCGCATCGG
83425986 TAAAGGACTTCACTAGAAACCAACCAAAGAGCCTTCCACATAACATCTTCCTCTCGAAGATTCTG
131 TAAAGGACTTCACTAGAAACCAACCAAAGAGCCTTCCACATAACATCTTCCTCTCGAAGATTCTG
83426051 AAGAATGTCTAACCATCTCTC
196 AAGAATGTCTAACCATCTCTC
83426072 CTCTGAGGCCAGACCCTGTGTAGCCGGTATGAACTGCCTCGCTCGATATTGCCTTAAAACAAGCA
1 CTCTGAGGCCAGACCCTGTGTAGCCGGTATGAACTGCCTCGCTCGATATTGCCTTAAAACAAGCA
83426137 ACGGTGTATATCCAACAACTCCCCAAATTCCTGGCAAAGGGACCCAATCAAAACTGCCGCATCGG
66 ACGGTGTATATCCAACAACTCCCCAAATTCCTGGCAAAGGGACCCAATCAAAACTGCCGCATCGG
* *
83426202 TAAAGGACTTCACTAGGAACCAACCAAGGAGCCTTCCACATAACATCTTCCTCTCGAAGATTCTG
131 TAAAGGACTTCACTAGAAACCAACCAAAGAGCCTTCCACATAACATCTTCCTCTCGAAGATTCTG
83426267 AAGAATGTCTAACCATCTCTC
196 AAGAATGTCTAACCATCTCTC
83426288 CTCTGA
1 CTCTGA
83426294 AATGTCATCT
Statistics
Matches: 218, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
215 5 0.02
216 213 0.98
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (216 bp):
CTCTGAGGCCAGACCCTGTGTAGCCGGTATGAACTGCCTCGCTCGATATTGCCTTAAAACAAGCA
ACGGTGTATATCCAACAACTCCCCAAATTCCTGGCAAAGGGACCCAATCAAAACTGCCGCATCGG
TAAAGGACTTCACTAGAAACCAACCAAAGAGCCTTCCACATAACATCTTCCTCTCGAAGATTCTG
AAGAATGTCTAACCATCTCTC
Found at i:83428985 original size:16 final size:15
Alignment explanation
Indices: 83428951--83428989 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
83428941 ATATAAATCG
83428951 TATA-GTAATAAAAA
1 TATATGTAATAAAAA
83428965 TATATGTAAT-AAAA
1 TATATGTAATAAAAA
*
83428979 TATATATAATA
1 TATATGTAATA
83428990 TGATATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
TATATGTAATAAAAA
Found at i:83428997 original size:14 final size:14
Alignment explanation
Indices: 83428936--83428989 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
83428926 TACAAATAAA
*
83428936 ATATAATATAAATCGT
1 ATATAATA-AAAT-AT
83428952 ATAGTAATAAAAATAT
1 ATA-TAAT-AAAATAT
*
83428968 ATGTAATAAAATAT
1 ATATAATAAAATAT
83428982 ATATAATA
1 ATATAATA
83428990 TGATATATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.42
15 4 0.12
16 6 0.18
17 8 0.24
18 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATAATAAAATAT
Found at i:83429127 original size:15 final size:15
Alignment explanation
Indices: 83429091--83429135 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
83429081 AGTATATGCT
83429091 AAATTTAT-A-AATA
1 AAATTTATAATAATA
*
83429104 AAATGTATAATAATA
1 AAATTTATAATAATA
*
83429119 TAATTTATAAT-ATA
1 AAATTTATAATAATA
83429133 AAA
1 AAA
83429136 AATAATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATTTATAATAATA
Found at i:83431678 original size:24 final size:22
Alignment explanation
Indices: 83431634--83431678 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
83431624 TCTAAATTAG
*
83431634 AATATTAGTTTTTTTATTAATA
1 AATATTAGTTTTTTTACTAATA
*
83431656 AATATTATTTGTTTTCTACTAAT
1 AATATTAGTT-TTTT-TACTAAT
83431679 TCAATCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
AATATTAGTTTTTTTACTAATA
Found at i:83436073 original size:26 final size:26
Alignment explanation
Indices: 83436043--83436098 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
83436033 TGAAATTCCC
83436043 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
83436069 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
83436095 ATCA
1 ATCA
83436099 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:83440748 original size:29 final size:29
Alignment explanation
Indices: 83440706--83440762 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
83440696 GCTTCCAGCT
83440706 AGTACTCAGCCACATTTGAGGCTACTCCC
1 AGTACTCAGCCACATTTGAGGCTACTCCC
*
83440735 AGTACTCAGCCACATTTGGGGCTACTCC
1 AGTACTCAGCCACATTTGAGGCTACTCC
83440763 AGATACACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (29 bp):
AGTACTCAGCCACATTTGAGGCTACTCCC
Found at i:83443803 original size:32 final size:32
Alignment explanation
Indices: 83443766--83443830 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
83443756 AATGCTTACC
83443766 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
83443798 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
83443830 A
1 A
83443831 AATGCATATA
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:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:83448544 original size:25 final size:25
Alignment explanation
Indices: 83448458--83448548 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
83448448 TTCAAGAGTT
* *
83448458 ACACGACTTGGAACACGGGCGTGGG
1 ACACGACCTGGAACACGGGCGTGTG
* * * * * *
83448483 ACTCGTCCTGTAACACAGGCGAGTT
1 ACACGACCTGGAACACGGGCGTGTG
*
83448508 ACACGACTTGGAACACGGGCGTGTG
1 ACACGACCTGGAACACGGGCGTGTG
* *
83448533 ACAGGGCCTGGAACAC
1 ACACGACCTGGAACAC
83448549 AGTGACACGG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.33, T:0.15
Consensus pattern (25 bp):
ACACGACCTGGAACACGGGCGTGTG
Found at i:83448548 original size:50 final size:50
Alignment explanation
Indices: 83448453--83448550 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
83448443 GCTAATTCAA
* * *
83448453 GAGTTACACGACTTGGAACACGGGCGTGGGACTCGTCCTGTAACACAGGC
1 GAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAGGC
* *
83448503 GAGTTACACGACTTGGAACACGGGCGTGTGACAGGGCCTGGAACACAG
1 GAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAG
83448551 TGACACGGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.34, T:0.16
Consensus pattern (50 bp):
GAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAGGC
Found at i:83448779 original size:25 final size:25
Alignment explanation
Indices: 83448742--83448826 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
83448732 TTACAGGACT
*
83448742 TGGAACACGGGCGTGTGACACGGCC
1 TGGAACACAGGCGTGTGACACGGCC
* * * *
83448767 TGGAACACAGGCGAGTTACACGACT
1 TGGAACACAGGCGTGTGACACGGCC
*
83448792 TGGAACACGGGCGTGTGACACGGCC
1 TGGAACACAGGCGTGTGACACGGCC
*
83448817 TGGAGCACAG
1 TGGAACACAG
83448827 TGACACGGCT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.36, T:0.13
Consensus pattern (25 bp):
TGGAACACAGGCGTGTGACACGGCC
Found at i:83448804 original size:50 final size:50
Alignment explanation
Indices: 83448729--83448826 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
83448719 GCTAATTCAA
*
83448729 GAGTTACAGGACTTGGAACACGGGCGTGTGACACGGCCTGGAACACAGGC
1 GAGTTACACGACTTGGAACACGGGCGTGTGACACGGCCTGGAACACAGGC
*
83448779 GAGTTACACGACTTGGAACACGGGCGTGTGACACGGCCTGGAGCACAG
1 GAGTTACACGACTTGGAACACGGGCGTGTGACACGGCCTGGAACACAG
83448827 TGACACGGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.36, T:0.14
Consensus pattern (50 bp):
GAGTTACACGACTTGGAACACGGGCGTGTGACACGGCCTGGAACACAGGC
Found at i:83448819 original size:276 final size:276
Alignment explanation
Indices: 83448321--83448919 Score: 1026
Period size: 276 Copynumber: 2.2 Consensus size: 276
83448311 ACATAGCCTG
83448321 AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGGCCATGCGTCCCCTG
1 AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGGCCATGCGTCCCCTG
*
83448386 TAGGTTTTATTGCATCCAAGCTAGACAGTTACATGGCCTAGCACACAGGCGTATGGGGCTAATTC
66 TAGGTTTTATTGCATCCAAGCCAGACAGTTACATGGCCTAGCACACAGGCGTATGGGGCTAATTC
* * *
83448451 AAGAGTTACACGACTTGGAACACGGGCGTGGGACTCGTCCTGTAACACAGGCGAGTTACACGACT
131 AAGAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAGGCGAGTTACACGACT
*
83448516 TGGAACACGGGCGTGTGACAGGGCCTGGAACACAGTGACACGGCTATGTGACCCTATTTCGATTG
196 TGGAACACGGGCGTGTGACACGGCCTGGAACACAGTGACACGGCTATGTGACCCTATTTCGATTG
83448581 TTACATGGCCTGAGAT
261 TTACATGGCCTGAGAT
83448597 AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGGCCATGCGTCCCCTG
1 AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGGCCATGCGTCCCCTG
83448662 TAGGTTTTATTGCATCCAAGCCAGACAGTTACATGGCCTAGCACACAGGCGTATGGGGCTAATTC
66 TAGGTTTTATTGCATCCAAGCCAGACAGTTACATGGCCTAGCACACAGGCGTATGGGGCTAATTC
* *
83448727 AAGAGTTACAGGACTTGGAACACGGGCGTGTGACACGGCCTGGAACACAGGCGAGTTACACGACT
131 AAGAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAGGCGAGTTACACGACT
*
83448792 TGGAACACGGGCGTGTGACACGGCCTGGAGCACAGTGACACGGCTATGTGACCCTATTTCGATTG
196 TGGAACACGGGCGTGTGACACGGCCTGGAACACAGTGACACGGCTATGTGACCCTATTTCGATTG
*
83448857 TTACATGTCCTGAGAT
261 TTACATGGCCTGAGAT
** * * * * *
83448873 ----ACGGGCGTGTGTCTCAACCGTGTGAGGCACACAGCCTGGCCACACGG
1 AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGG
83448920 TCGTGTGACC
Statistics
Matches: 307, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
272 40 0.13
276 267 0.87
ACGTcount: A:0.24, C:0.26, G:0.30, T:0.21
Consensus pattern (276 bp):
AGACACGGAAGTGTGACTCATCCGTGTGTGGCACACGGCCTGGCAACACGGCCATGCGTCCCCTG
TAGGTTTTATTGCATCCAAGCCAGACAGTTACATGGCCTAGCACACAGGCGTATGGGGCTAATTC
AAGAGTTACACGACTTGGAACACGGGCGTGGGACACGGCCTGGAACACAGGCGAGTTACACGACT
TGGAACACGGGCGTGTGACACGGCCTGGAACACAGTGACACGGCTATGTGACCCTATTTCGATTG
TTACATGGCCTGAGAT
Found at i:83453159 original size:17 final size:17
Alignment explanation
Indices: 83453136--83453174 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
83453126 TATTTAATAC
* *
83453136 ATTATTATCATCGTATT
1 ATTATTACCATCATATT
*
83453153 TTTATTACCATCATATT
1 ATTATTACCATCATATT
83453170 ATTAT
1 ATTAT
83453175 GTTATTACAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTATTACCATCATATT
Found at i:83453521 original size:3 final size:3
Alignment explanation
Indices: 83453406--83453508 Score: 57
Period size: 3 Copynumber: 34.3 Consensus size: 3
83453396 TGCATTATCG
* * ** ** *
83453406 TTA TTA TTA TTA GTTG TTA TTA TCA TTA TTA TTA TCG TCG CTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
83453452 TTA TTA TCA CTA TTA TTA -AA ATA TTA ATA TTC TTA TTA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
83453496 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
83453509 CATCAATATT
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
2 3 0.04
3 68 0.91
4 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:83453630 original size:21 final size:20
Alignment explanation
Indices: 83453598--83453641 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
83453588 ATGTTTTTCT
*
83453598 TTTATTTACTTATGTATTCG
1 TTTATTTACTTATGCATTCG
* *
83453618 TTTATTTCCCTTATGCATTTG
1 TTTATTT-ACTTATGCATTCG
83453639 TTT
1 TTT
83453642 TATATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTATTTACTTATGCATTCG
Found at i:83457254 original size:19 final size:19
Alignment explanation
Indices: 83457216--83457254 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
83457206 AAATAGTAAG
*
83457216 AATTTGTTTTCTAAGTATA
1 AATTTGTTTTCTAAGAATA
* *
83457235 AATTTTTTTTCTAGGAATA
1 AATTTGTTTTCTAAGAATA
83457254 A
1 A
83457255 CAATTCTGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
AATTTGTTTTCTAAGAATA
Found at i:83471386 original size:50 final size:50
Alignment explanation
Indices: 83471332--83471438 Score: 205
Period size: 50 Copynumber: 2.1 Consensus size: 50
83471322 TAGGTAAAGA
83471332 TAAAAAAGATTTTCTTAATATATTTAAAATTTTAAAAAAATGAAATATAT
1 TAAAAAAGATTTTCTTAATATATTTAAAATTTTAAAAAAATGAAATATAT
*
83471382 TAAAAAAGATTTTTTTAATATATTTAAAATTTTAAAAAAATGAAATATAT
1 TAAAAAAGATTTTCTTAATATATTTAAAATTTTAAAAAAATGAAATATAT
83471432 TAAAAAA
1 TAAAAAA
83471439 TTAAATATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (50 bp):
TAAAAAAGATTTTCTTAATATATTTAAAATTTTAAAAAAATGAAATATAT
Found at i:83471388 original size:17 final size:17
Alignment explanation
Indices: 83471366--83471454 Score: 67
Period size: 17 Copynumber: 5.3 Consensus size: 17
83471356 TAAAATTTTA
83471366 AAAAAATGAAATATATT
1 AAAAAATGAAATATATT
* * *
83471383 AAAAAA-G-ATTTTTTT
1 AAAAAATGAAATATATT
* * * *
83471398 AATATATTTAAA-ATTTT
1 AA-AAAATGAAATATATT
83471415 AAAAAAATGAAATATATT
1 AA-AAAATGAAATATATT
*
83471433 AAAAAATTAAATATATT
1 AAAAAATGAAATATATT
83471450 AAAAA
1 AAAAA
83471455 GGTTAAGTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
15 7 0.13
16 3 0.06
17 37 0.69
18 7 0.13
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAAAATGAAATATATT
Found at i:83471465 original size:18 final size:17
Alignment explanation
Indices: 83471416--83471454 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
83471406 TAAAATTTTA
*
83471416 AAAAAATGAAATATATT
1 AAAAAATTAAATATATT
83471433 AAAAAATTAAATATATT
1 AAAAAATTAAATATATT
83471450 AAAAA
1 AAAAA
83471455 GGTTAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAATTAAATATATT
Found at i:83471506 original size:61 final size:62
Alignment explanation
Indices: 83471431--83471549 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
83471421 ATGAAATATA
83471431 TTAAAAAATTAAATATATT-AAAAAGGTTAAGTATAACCAATTTTAAAATTTTAATATATTT
1 TTAAAAAATTAAATATATTAAAAAAGGTTAAGTATAACCAATTTTAAAATTTTAATATATTT
*
83471492 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATAT
1 TTAAAAAATTAAATATATTAAAAAAGGTTAAGTATAACCAATTTTAAAATTTTAATAT
83471550 GTTCAATATA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 19 0.34
62 37 0.66
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (62 bp):
TTAAAAAATTAAATATATTAAAAAAGGTTAAGTATAACCAATTTTAAAATTTTAATATATTT
Found at i:83471572 original size:13 final size:13
Alignment explanation
Indices: 83471554--83471580 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83471544 TAATATGTTC
83471554 AATATATTTTAAA
1 AATATATTTTAAA
83471567 AATATATTTTAAA
1 AATATATTTTAAA
83471580 A
1 A
83471581 TTTTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATATTTTAAA
Found at i:83471663 original size:26 final size:28
Alignment explanation
Indices: 83471620--83471677 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
83471610 GGTAAAGAGA
* * *
83471620 AAAAAAATTAATATA-TTTAAAT-TTTT
1 AAAAAAATTAAAAAATTTTAAATATATT
*
83471646 AAAAAACTTAAAAAATTTTAAATATATT
1 AAAAAAATTAAAAAATTTTAAATATATT
83471674 AAAA
1 AAAA
83471678 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAAAATTAAAAAATTTTAAATATATT
Found at i:83471679 original size:17 final size:17
Alignment explanation
Indices: 83471657--83471693 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
83471647 AAAAACTTAA
83471657 AAAATTTTAAATATATT
1 AAAATTTTAAATATATT
*
83471674 AAAATTTTAAATATGTT
1 AAAATTTTAAATATATT
83471691 AAA
1 AAA
83471694 GAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:83471771 original size:17 final size:16
Alignment explanation
Indices: 83471749--83471795 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 16
83471739 ATATCAAAAT
83471749 ATATTAAAATTTTGAA
1 ATATTAAAATTTTGAA
83471765 CATATTAAAAAATTTTGAA
1 -ATATT--AAAATTTTGAA
*
83471784 GTATTAAAATTT
1 ATATTAAAATTT
83471796 CAAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.26
17 5 0.19
18 4 0.15
19 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
ATATTAAAATTTTGAA
Found at i:83471788 original size:18 final size:19
Alignment explanation
Indices: 83471754--83471792 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
83471744 AAAATATATT
83471754 AAAATTTTGAACATATTAA
1 AAAATTTTGAACATATTAA
*
83471773 AAAATTTTGAA-GTATTAA
1 AAAATTTTGAACATATTAA
83471791 AA
1 AA
83471793 TTTCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (19 bp):
AAAATTTTGAACATATTAA
Found at i:83473086 original size:21 final size:21
Alignment explanation
Indices: 83473062--83473106 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
83473052 AATTTTTTAA
83473062 TTAAATAAAATATAAAACCAC
1 TTAAATAAAATATAAAACCAC
83473083 TTAAATAAAATATAAAACCAC
1 TTAAATAAAATATAAAACCAC
83473104 TTA
1 TTA
83473107 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAATAAAATATAAAACCAC
Found at i:83473222 original size:17 final size:17
Alignment explanation
Indices: 83473171--83473227 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
83473161 CTTAATATAT
83473171 TTAAAATTTTTAAAAAT-
1 TTAAAA-TTTTAAAAATA
*** * *
83473188 TTAAAAAAATGAATATA
1 TTAAAATTTTAAAAATA
83473205 TTAAAATTTTAAAAATA
1 TTAAAATTTTAAAAATA
83473222 TTAAAA
1 TTAAAA
83473228 AATGTTAAGT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAAAATTTTAAAAATA
Found at i:83473231 original size:33 final size:35
Alignment explanation
Indices: 83473164--83473229 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
83473154 AGATTTTCTT
83473164 AATATATTTAAAATTTTTAAAAATTTAAAAAAATG
1 AATATATTTAAAATTTTTAAAAATTTAAAAAAATG
83473199 AATATA-TTAAAA-TTTTAAAAATATTAAAAAA
1 AATATATTTAAAATTTTTAAAAAT-TTAAAAAA
83473230 TGTTAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 10 0.33
34 14 0.47
35 6 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (35 bp):
AATATATTTAAAATTTTTAAAAATTTAAAAAAATG
Found at i:83473395 original size:16 final size:17
Alignment explanation
Indices: 83473374--83473409 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
83473364 AAAACTTTAA
83473374 AAAATT-TAAATATATT
1 AAAATTCTAAATATATT
*
83473390 AAAATTCTAAATATGTT
1 AAAATTCTAAATATATT
83473407 AAA
1 AAA
83473410 GAAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAATTCTAAATATATT
Found at i:83473447 original size:61 final size:60
Alignment explanation
Indices: 83473374--83473490 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 60
83473364 AAAACTTTAA
* * * *
83473374 AAAATTTAAATATATTAAAAT-TCTAAATATGTTAAAGAAAATGTTGAGTATAACTAATTCT
1 AAAATTTAAATATATTAAAATAT-TAAACATATTAAAAAAAAT-TTAAGTATAACTAATTCT
*
83473435 AAAATTTTAATATATTAAAATATTAAACATATTAAAAAAAATTTAAGTATAACTAA
1 AAAATTTAAATATATTAAAATATTAAACATATTAAAAAAAATTTAAGTATAACTAA
83473491 ATAACTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 13 0.26
61 36 0.72
62 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (60 bp):
AAAATTTAAATATATTAAAATATTAAACATATTAAAAAAAATTTAAGTATAACTAATTCT
Found at i:83486588 original size:19 final size:19
Alignment explanation
Indices: 83486523--83486595 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 19
83486513 AATTGATTGG
* *
83486523 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
83486541 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
83486560 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
83486578 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
83486596 TCTTTCCAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
18 28 0.62
19 17 0.38
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:83486829 original size:12 final size:12
Alignment explanation
Indices: 83486812--83486836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83486802 AGTGCCGAAT
83486812 CGGTAACAGTAA
1 CGGTAACAGTAA
83486824 CGGTAACAGTAA
1 CGGTAACAGTAA
83486836 C
1 C
83486837 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:83487630 original size:17 final size:17
Alignment explanation
Indices: 83487608--83487648 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
83487598 AACCTTGAAT
* *
83487608 TTTCCTTTTTTTCTTTC
1 TTTCCTTTCTTTCTTCC
83487625 TTTCCTTTCTTTCTTCC
1 TTTCCTTTCTTTCTTCC
83487642 TTTCCTT
1 TTTCCTT
83487649 CCCCTGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCTTTCTTTCTTCC
Found at i:83490106 original size:13 final size:13
Alignment explanation
Indices: 83490088--83490112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83490078 TGTATATATA
83490088 AAAAAGGAAAAAT
1 AAAAAGGAAAAAT
83490101 AAAAAGGAAAAA
1 AAAAAGGAAAAA
83490113 AGAAATAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAGGAAAAAT
Found at i:83490216 original size:21 final size:21
Alignment explanation
Indices: 83490166--83490209 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
83490156 AAAGCAGGGG
83490166 AAAGAAAGAAAGAAAAAGAGA
1 AAAGAAAGAAAGAAAAAGAGA
*
83490187 AAAGAAAGAAA-AAAAAGGGA
1 AAAGAAAGAAAGAAAAAGAGA
83490207 AAA
1 AAA
83490210 TCGAAGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAGAAAAAGAGA
Found at i:83492191 original size:46 final size:46
Alignment explanation
Indices: 83492139--83492272 Score: 259
Period size: 46 Copynumber: 2.9 Consensus size: 46
83492129 AGTGTGCTCT
83492139 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
83492185 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
83492231 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
83492273 TTGAAAGATA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:83492271 original size:16 final size:16
Alignment explanation
Indices: 83492250--83492288 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
83492240 AATGTGTAAG
83492250 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
83492266 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
83492282 ACCATGG
1 ACCATGG
83492289 CAACATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:83497943 original size:341 final size:341
Alignment explanation
Indices: 83497320--83497960 Score: 867
Period size: 341 Copynumber: 1.9 Consensus size: 341
83497310 TGGAATGCAA
* *
83497320 AGGTTTAAAAGAAATCATCAGTGAAGAAAAACCTGGTGAAGTCGCTGAGCTAAAAGAAAATTCAG
1 AGGTTTAAAAGAAATCATCAGTGAAGAAAAACCTAGTGAAGTCGCTGAGCTAAAAGAAAATTCAA
* * ** * * **
83497385 ACTTGTTTTCTAAGCCCGAGATTTTGCGTCTACGTCATCTGCCCAAACTAAAGACTGTATACCAT
66 ACTTGTTTTCTAAGCCAGAGATTTTGCATCTAAATAATCTGCCCAAAATAAAGACAATATACCAT
* * ** *
83497450 CATGCTCTGCCTTTCCCACAGCTGAAGAAAATATACATTACAGGATGCCCAATGTTAAAGAAGCT
131 CATGCTCTACCTTTCCCACAGCTGAAGAAAATACACATTACAAAATGCCCAATGCTAAAGAAGCT
*
83497515 CCCACTAAACTCCAATAGTGCAAAAAGACAGAGGATGGTCATTGAAGGAGATGTGGGATGGTGGA
196 CCCACTAAACTCCAATAGTGCAAAAAGACAGAGGATGGTCATTGAAGGAGATGAGGGATGGTGGA
*
83497580 AAGATGTCGAATGAGAGGATGAATCCACTAAAATTGCTTTTCTCCCCACTTTCAAACCTCGTATA
261 AAGATGTAGAATGAGAGGATGAATCCACTAAAATTGCTTTTCTCCCCACTTTCAAACCTCGTATA
83497645 TGTTGGTTATTAATTG
326 TGTTGGTTATTAATTG
* * * * * *
83497661 AGGTTTAGAAGAAATGATCAGTGAGGAAAAACTTAGTGAAGTCGCTGAGCTAAAGGGAAATTCAA
1 AGGTTTAAAAGAAATCATCAGTGAAGAAAAACCTAGTGAAGTCGCTGAGCTAAAAGAAAATTCAA
* * *
83497726 ACTTGTTTTCTAAGCTAGAGTTTTTGCATCTAAATAATCTGCCCAAAATGAAGACAATATACCCA
66 ACTTGTTTTCTAAGCCAGAGATTTTGCATCTAAATAATCTGCCCAAAATAAAGACAATATA-CCA
* * * * ** *
83497791 -CATGCTCTACTTTTTCCGCAGCTGAAGAGAAT-CACAATTTTAAAATGCCCAATGCTGAAGAAG
130 TCATGCTCTACCTTTCCCACAGCTGAAGAAAATACAC-ATTACAAAATGCCCAATGCTAAAGAAG
* * * *
83497854 TTCCCACTAAACTCCAATAGTGCAAAAGGAC-GAAGGCTTGTCATTGAAGGAGATGAGGGATGGT
194 CTCCCACTAAACTCCAATAGTGCAAAAAGACAG-AGGATGGTCATTGAAGGAGATGAGGGATGGT
* *
83497918 GGAAAGATGTAGGATG-GAAGGATGAATCCACTCAAATTGCTTT
258 GGAAAGATGTAGAATGAG-AGGATGAATCCACTAAAATTGCTTT
83497961 ACTCTCTTCT
Statistics
Matches: 257, Mismatches: 39, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
340 4 0.02
341 250 0.97
342 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (341 bp):
AGGTTTAAAAGAAATCATCAGTGAAGAAAAACCTAGTGAAGTCGCTGAGCTAAAAGAAAATTCAA
ACTTGTTTTCTAAGCCAGAGATTTTGCATCTAAATAATCTGCCCAAAATAAAGACAATATACCAT
CATGCTCTACCTTTCCCACAGCTGAAGAAAATACACATTACAAAATGCCCAATGCTAAAGAAGCT
CCCACTAAACTCCAATAGTGCAAAAAGACAGAGGATGGTCATTGAAGGAGATGAGGGATGGTGGA
AAGATGTAGAATGAGAGGATGAATCCACTAAAATTGCTTTTCTCCCCACTTTCAAACCTCGTATA
TGTTGGTTATTAATTG
Found at i:83500246 original size:30 final size:30
Alignment explanation
Indices: 83500212--83500274 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
83500202 ATTTATTTTA
* *
83500212 TTGTTTATTTTTTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
83500242 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
83500272 TTG
1 TTG
83500275 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:83500378 original size:18 final size:18
Alignment explanation
Indices: 83500357--83500396 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83500347 GAAATATTTA
*
83500357 TTTTGATGT-TTCTAGTAT
1 TTTTGATGTATTATA-TAT
83500375 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
83500393 TTTT
1 TTTT
83500397 AAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:83506725 original size:21 final size:21
Alignment explanation
Indices: 83506699--83506739 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
83506689 TAAATATCAG
83506699 CTTATTTTTTTGACAAAAAAT
1 CTTATTTTTTTGACAAAAAAT
83506720 CTTATTTTTTTGACAAAAAA
1 CTTATTTTTTTGACAAAAAA
83506740 AATTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
CTTATTTTTTTGACAAAAAAT
Found at i:83507834 original size:30 final size:30
Alignment explanation
Indices: 83507800--83507862 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
83507790 ACTTATTTTA
*
83507800 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTATAAAGGCAT
*
83507830 TTGTTAATTTTGTTATTATTATAGAGGCAT
1 TTGTTAATTTTGTTATTATTATAAAGGCAT
83507860 TTG
1 TTG
83507863 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTATAAAGGCAT
Found at i:83508482 original size:9 final size:9
Alignment explanation
Indices: 83508455--83508498 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
83508445 AGTATTTTAA
83508455 TTATAATTT
1 TTATAATTT
83508464 TTAATAATTT
1 TT-ATAATTT
83508474 TTGAT-ATTT
1 TT-ATAATTT
83508483 TTATAATTT
1 TTATAATTT
83508492 TT-TAATT
1 TTATAATT
83508499 AACAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 7 0.22
9 14 0.44
10 11 0.34
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTATAATTT
Found at i:83518356 original size:24 final size:24
Alignment explanation
Indices: 83518329--83518378 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
83518319 AAACTATGAG
*
83518329 TAAGTTTAAAATTATAATGGTAAT
1 TAAGTTTAAAAATATAATGGTAAT
83518353 TAAGTTTAAAAATATAATGGTAAT
1 TAAGTTTAAAAATATAATGGTAAT
83518377 TA
1 TA
83518379 TGTAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (24 bp):
TAAGTTTAAAAATATAATGGTAAT
Found at i:83518860 original size:21 final size:21
Alignment explanation
Indices: 83518827--83518885 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
83518817 ATTTTAAGAA
**
83518827 TTGTTTTGGTATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
83518848 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATA-TTATTTTTAT
*
83518870 AT-TTTTAA-ATATATTT
1 TTGTTTTAATAT-TATTT
83518886 GATTTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 5 0.16
21 15 0.48
22 10 0.32
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:83518869 original size:22 final size:21
Alignment explanation
Indices: 83518841--83518916 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 21
83518831 TTTGGTATTA
83518841 TTTTTATTTGTTTTAATATTTG
1 TTTTTATTT-TTTTAATATTTG
*
83518863 TTTTTATATTTTTAAATATATTTG
1 TTTTTAT-TTTTT-TA-ATATTTG
*
83518887 ATTTATTATATTTTTAA-ATTT-
1 -TTT-TTATTTTTTTAATATTTG
83518908 TTTTTATTT
1 TTTTTATTT
83518917 AATGAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
19 5 0.11
20 3 0.07
22 14 0.31
23 4 0.09
24 8 0.18
25 7 0.16
26 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTATTTTTTTAATATTTG
Found at i:83518917 original size:26 final size:26
Alignment explanation
Indices: 83518856--83518905 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
83518846 ATTTGTTTTA
83518856 ATATTTG-TTT-TTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
83518880 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
83518906 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:83533983 original size:20 final size:20
Alignment explanation
Indices: 83533927--83533985 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
83533917 TACCCCACTC
*
83533927 TTAA-TTTTAATCCAATTAA
1 TTAAGTTTTAATACAATTAA
* * *
83533946 -AAAGTTTTCATTATAATTAA
1 TTAAGTTTT-AATACAATTAA
83533966 TTAAGTTTTAATACAATTAA
1 TTAAGTTTTAATACAATTAA
83533986 CACCTGACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.07
19 4 0.13
20 17 0.57
21 7 0.23
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (20 bp):
TTAAGTTTTAATACAATTAA
Found at i:83536790 original size:17 final size:17
Alignment explanation
Indices: 83536768--83536802 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
83536758 GCCCAATTTA
*
83536768 ACTAATGTCTAATGAAT
1 ACTAATGTCTAAGGAAT
*
83536785 ACTAATGTTTAAGGAAT
1 ACTAATGTCTAAGGAAT
83536802 A
1 A
83536803 AACAACACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
ACTAATGTCTAAGGAAT
Found at i:83538050 original size:19 final size:18
Alignment explanation
Indices: 83537994--83538051 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
83537984 TCACATCAAC
*
83537994 AAATAATTTTAAAATTAA
1 AAATAAATTTAAAATTAA
* * *
83538012 AAA-ATATTCAAAAAATAA
1 AAATAAATT-TAAAATTAA
83538030 AAATAAATTTAAAATTCAA
1 AAATAAATTTAAAATT-AA
83538049 AAA
1 AAA
83538052 AATAGCATGA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
17 3 0.10
18 18 0.60
19 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATTTAAAATTAA
Found at i:83540303 original size:79 final size:78
Alignment explanation
Indices: 83540201--83540423 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
83540191 GCTCCTCGTT
* *
83540201 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
83540266 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
83540281 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
83540345 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
83540359 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
83540422 GA
63 GA
83540424 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:83540318 original size:39 final size:40
Alignment explanation
Indices: 83540201--83540423 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
83540191 GCTCCTCGTT
* *
83540201 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
83540241 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
83540281 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
83540320 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
83540359 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
83540400 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83540424 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:83542097 original size:14 final size:14
Alignment explanation
Indices: 83542075--83542104 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
83542065 TGAAAAATGG
*
83542075 ATTAGAAAATATTT
1 ATTAAAAAATATTT
83542089 ATTAAAAAATATTT
1 ATTAAAAAATATTT
83542103 AT
1 AT
83542105 GAAATTAATC
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:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTAAAAAATATTT
Found at i:83543255 original size:15 final size:14
Alignment explanation
Indices: 83543235--83543276 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
83543225 CGATGAATTT
83543235 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
83543250 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
83543265 ATTGAATTATAT
1 ATTGAATTATAT
83543277 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:83543719 original size:21 final size:21
Alignment explanation
Indices: 83543676--83543735 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
83543666 TGTATTTCAA
83543676 GCACCTCGTGTGTCGTATCAG
1 GCACCTCGTGTGTCGTATCAG
* *
83543697 GCACCTCGTGTGTCGTTTTAG
1 GCACCTCGTGTGTCGTATCAG
* **
83543718 GCACTTTATGTGTCGTAT
1 GCACCTCGTGTGTCGTAT
83543736 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.27, T:0.37
Consensus pattern (21 bp):
GCACCTCGTGTGTCGTATCAG
Found at i:83547070 original size:24 final size:24
Alignment explanation
Indices: 83547043--83547090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
83547033 TATACCCACT
83547043 TGTCAAATCTAAAAATTATAATTA
1 TGTCAAATCTAAAAATTATAATTA
83547067 TGTCAAATCTAAAAATTATAATTA
1 TGTCAAATCTAAAAATTATAATTA
83547091 AAATGTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
TGTCAAATCTAAAAATTATAATTA
Found at i:83547300 original size:21 final size:21
Alignment explanation
Indices: 83547263--83547302 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
83547253 AATGGGACCG
*
83547263 CTGATGTGGCAAGTTAACTAA
1 CTGATGTGCCAAGTTAACTAA
83547284 CTGATGTGACCAA-TTAACT
1 CTGATGTG-CCAAGTTAACT
83547303 TACCACGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
CTGATGTGCCAAGTTAACTAA
Found at i:83548730 original size:30 final size:30
Alignment explanation
Indices: 83548694--83548756 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
83548684 ACTTATTTTA
83548694 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
83548724 TTGTTAATTTTGTTATTATTTTACAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
83548754 TTG
1 TTG
83548757 CTTGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:83548905 original size:12 final size:12
Alignment explanation
Indices: 83548875--83548907 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
83548865 TATATTTTTT
83548875 AAAATT-ATATA
1 AAAATTAATATA
83548886 AAAA-TAATATA
1 AAAATTAATATA
83548897 AAAATTAATAT
1 AAAATTAATAT
83548908 GGGCAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:83550517 original size:3 final size:3
Alignment explanation
Indices: 83550509--83550539 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
83550499 GACAGTGAAC
83550509 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
83550540 AGTAGCGGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:83552782 original size:23 final size:23
Alignment explanation
Indices: 83552747--83552792 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
83552737 TAGTTGATCC
83552747 TGTTAAAAATTATTA-ATTTAATT
1 TGTTAAAAATTATTATA-TTAATT
* *
83552770 TGTTGAAATTTATTATATTAATT
1 TGTTAAAAATTATTATATTAATT
83552793 CTTTTAACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
TGTTAAAAATTATTATATTAATT
Found at i:83553434 original size:18 final size:18
Alignment explanation
Indices: 83553411--83553447 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
83553401 CTACTTTCAT
83553411 TGTTCTTCACTACTGAAA
1 TGTTCTTCACTACTGAAA
83553429 TGTTCTTCACTACTGAAA
1 TGTTCTTCACTACTGAAA
83553447 T
1 T
83553448 TTTAAGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (18 bp):
TGTTCTTCACTACTGAAA
Found at i:83553568 original size:32 final size:32
Alignment explanation
Indices: 83553527--83553590 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
83553517 GGAGCATGAG
83553527 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
1 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
83553559 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
1 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
83553591 CAATCCCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
Found at i:83554392 original size:12 final size:12
Alignment explanation
Indices: 83554372--83554418 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
83554362 GATTTAATAT
*
83554372 ATGTATATGTAC
1 ATGTATATGTAA
*
83554384 ATGTCTATGTAA
1 ATGTATATGTAA
83554396 ATGTATAAATGTAA
1 ATGTAT--ATGTAA
83554410 ATGTATATG
1 ATGTATATG
83554419 AATCTTACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 18 0.60
14 12 0.40
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (12 bp):
ATGTATATGTAA
Found at i:83554409 original size:14 final size:14
Alignment explanation
Indices: 83554390--83554416 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83554380 GTACATGTCT
83554390 ATGTAAATGTATAA
1 ATGTAAATGTATAA
83554404 ATGTAAATGTATA
1 ATGTAAATGTATA
83554417 TGAATCTTAC
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
ATGTAAATGTATAA
Found at i:83560417 original size:17 final size:17
Alignment explanation
Indices: 83560378--83560421 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
83560368 GGGTAGCAAA
*
83560378 AGCAAAGGCAGCAGTAGC
1 AGCAAA-GCAGCAGCAGC
*
83560396 -CCAAAGCAGCAGCAGC
1 AGCAAAGCAGCAGCAGC
83560412 AGCAAAGCAG
1 AGCAAAGCAG
83560422 GTAAGGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.41, C:0.27, G:0.30, T:0.02
Consensus pattern (17 bp):
AGCAAAGCAGCAGCAGC
Found at i:83566991 original size:35 final size:35
Alignment explanation
Indices: 83566951--83567021 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
83566941 AAGTGCATAA
83566951 TGTTCTTTAGGTAAAACTTTGAAGTCCAATTTTCC
1 TGTTCTTTAGGTAAAACTTTGAAGTCCAATTTTCC
83566986 TGTTCTTTAGGTAAAACTTTGAAGTCCAATTTTCC
1 TGTTCTTTAGGTAAAACTTTGAAGTCCAATTTTCC
83567021 T
1 T
83567022 ATACTAATTA
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:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (35 bp):
TGTTCTTTAGGTAAAACTTTGAAGTCCAATTTTCC
Found at i:83570528 original size:70 final size:70
Alignment explanation
Indices: 83570410--83570580 Score: 204
Period size: 70 Copynumber: 2.5 Consensus size: 70
83570400 CTGGTCTTAG
* * *** * *
83570410 CTTTAAATTTAGTCGAAA-CTTAATATAATTATTGGATATCGAAGAATTTCA-AACTAATATAT-
1 CTTTAAATTTAGTCAAAACCCTAATATAATTATCAAATATCAAAAAATTTCAGAA-TAATATATA
*
83570472 AGCTCAA
65 ACCT-AA
* *
83570479 CTTTAAATTTAGTCAAAACCCTAATATGATTATCAAATATTAAAAAATTTCAGAATAATATATAA
1 CTTTAAATTTAGTCAAAACCCTAATATAATTATCAAATATCAAAAAATTTCAGAATAATATATAA
*
83570544 CCTGA
66 CCTAA
83570549 CTTTAAATTTAGTCAAAACCCTAATATAATTA
1 CTTTAAATTTAGTCAAAACCCTAATATAATTA
83570581 CTAAATAGAC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
69 17 0.20
70 65 0.75
71 5 0.06
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (70 bp):
CTTTAAATTTAGTCAAAACCCTAATATAATTATCAAATATCAAAAAATTTCAGAATAATATATAA
CCTAA
Found at i:83576598 original size:14 final size:14
Alignment explanation
Indices: 83576579--83576645 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
83576569 GTTTGCAGGT
*
83576579 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
83576593 AAAATGATTTCTGG
1 AAAATGATTTCCGG
* * *
83576607 AAAATAATTTCTTGA
1 AAAATGATTTC-CGG
83576622 AAAATGATTTCTC-G
1 AAAATGATTTC-CGG
83576636 AAAATGATTT
1 AAAATGATTT
83576646 ACTTTTCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 32 0.71
15 13 0.29
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:83576631 original size:15 final size:14
Alignment explanation
Indices: 83576592--83576645 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
83576582 ATGTTTTCCG
*
83576592 GAAAATGATTTCTG
1 GAAAATGATTTCTT
*
83576606 GAAAATAATTTCTT
1 GAAAATGATTTCTT
*
83576620 GAAAAATGATTTCTC
1 G-AAAATGATTTCTT
83576635 GAAAATGATTT
1 GAAAATGATTT
83576646 ACTTTTCTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
GAAAATGATTTCTT
Done.