Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold425
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: 711097
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 1 of 5
Found at i:4980 original size:22 final size:22
Alignment explanation
Indices: 4909--4980 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
4899 AAATATAAAT
*
4909 TTAAACTTAAACCCAAACCTAA
1 TTAAACTTAAACTCAAACCTAA
** * ** *
4931 TTAAAAC-CCAACTAAAAATTTA
1 TT-AAACTTAAACTCAAACCTAA
4953 TATAAACTTAAACTCAAACCTAA
1 T-TAAACTTAAACTCAAACCTAA
4976 TTAAA
1 TTAAA
4981 AATCTATATA
Statistics
Matches: 34, Mismatches: 13, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAACTTAAACTCAAACCTAA
Found at i:4981 original size:34 final size:33
Alignment explanation
Indices: 4938--5015 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 33
4928 TAATTAAAAC
* *
4938 CCAACTAAAAATTTATATAAACTTAAACTCAAA
1 CCAATTAAAAATCTATATAAACTTAAACTCAAA
4971 CCTAATTAAAAATCTATATAAACTTAAACTCAAA
1 CC-AATTAAAAATCTATATAAACTTAAACTCAAA
5005 CACAATTAAAA
1 C-CAATTAAAA
5016 CTTAATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 2 0.05
34 38 0.93
35 1 0.02
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (33 bp):
CCAATTAAAAATCTATATAAACTTAAACTCAAA
Found at i:13822 original size:20 final size:20
Alignment explanation
Indices: 13760--13823 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
13750 ATTAATATAA
13760 TATAATATTTTTATATTATT-
1 TATAATATTTTTATA-TATTG
13780 TAT-ATATTTTATATCATAGTTG
1 TATAATATTTT-TAT-ATA-TTG
13802 TATAATTATTTTTA-ATATTG
1 TATAA-TATTTTTATATATTG
13822 TA
1 TA
13824 GTTTCCAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 7 0.18
20 13 0.34
21 6 0.16
22 3 0.08
23 3 0.08
24 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TATAATATTTTTATATATTG
Found at i:19553 original size:49 final size:49
Alignment explanation
Indices: 19481--19579 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
19471 TAAAAAAATA
19481 GGATAAAGAATTAAACTGATGAGATTTTTGTTATTAATTTAATTGATAT
1 GGATAAAGAATTAAACTGATGAGATTTTTGTTATTAATTTAATTGATAT
19530 GGATAAAGAATTAAACTGATGAGATTTTTGTTATTAATTTAATTGATAT
1 GGATAAAGAATTAAACTGATGAGATTTTTGTTATTAATTTAATTGATAT
19579 G
1 G
19580 TTCAGTTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (49 bp):
GGATAAAGAATTAAACTGATGAGATTTTTGTTATTAATTTAATTGATAT
Found at i:19640 original size:18 final size:19
Alignment explanation
Indices: 19596--19640 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19586 TGATTTAATA
*
19596 ATTTAAATATTAATATATAT
1 ATTT-AATATTAATATAAAT
*
19616 TTTTAATATTAA-ATAAAT
1 ATTTAATATTAATATAAAT
19634 ATTTAAT
1 ATTTAAT
19641 TTTATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 11 0.50
19 8 0.36
20 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAATATTAATATAAAT
Found at i:20339 original size:2 final size:2
Alignment explanation
Indices: 20332--20372 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20322 TCAAAATCTA
20332 AT AT 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 AT AT A
20373 AAAGAAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20860 original size:3 final size:3
Alignment explanation
Indices: 20834--20932 Score: 171
Period size: 3 Copynumber: 32.7 Consensus size: 3
20824 CCCAACAGCC
* *
20834 ATT ATTT ATT GTT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20880 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20928 ATT AT
1 ATT AT
20933 AATAGAGTAA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
3 88 0.97
4 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21011 original size:16 final size:17
Alignment explanation
Indices: 20974--21014 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
20964 CTTTTAGGGC
20974 AATA-AAAATATAAATT
1 AATATAAAATATAAATT
**
20990 TTTATAAAATAT-AATT
1 AATATAAAATATAAATT
21006 AATATAAAA
1 AATATAAAA
21015 CAAAATATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAAAATATAAATT
Found at i:27188 original size:16 final size:16
Alignment explanation
Indices: 27158--27196 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27148 TAAAAAGAAA
*
27158 ATATTTTAATATATAT
1 ATATATTAATATATAT
* *
27174 ATTTATTAATTTATAT
1 ATATATTAATATATAT
27190 ATATATT
1 ATATATT
27197 TTAATGTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATTAATATATAT
Found at i:27200 original size:18 final size:17
Alignment explanation
Indices: 27158--27201 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27148 TAAAAAGAAA
27158 ATATTTTAA-TATATAT
1 ATATTTTAATTATATAT
27174 AT-TTATTAATTTATATAT
1 ATATT-TTAA-TTATATAT
27192 ATATTTTAAT
1 ATATTTTAAT
27202 GTGATAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.08
16 6 0.25
17 1 0.04
18 13 0.54
19 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTTAATTATATAT
Found at i:31739 original size:2 final size:2
Alignment explanation
Indices: 31734--31765 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31724 GGATACATAC
31734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31766 TTGCTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31989 original size:3 final size:3
Alignment explanation
Indices: 31981--32027 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
31971 AGATGTTAGC
31981 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32028 TACAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32646 original size:19 final size:18
Alignment explanation
Indices: 32588--32647 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
32578 TTTAATTTAA
*
32588 AAAATTTAAAAATAAAAT
1 AAAATTTAAAAATAACAT
* * *
32606 TAATTTTTAAAA-AACA-
1 AAAATTTAAAAATAACAT
32622 AAAATTTAAAAATTAACAT
1 AAAATTTAAAAA-TAACAT
32641 AAAATTT
1 AAAATTT
32648 TTATTTTGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 9 0.28
17 3 0.09
18 13 0.41
19 7 0.22
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTTAAAAATAACAT
Found at i:33913 original size:17 final size:16
Alignment explanation
Indices: 33891--33933 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
33881 ATTTTTTAAA
33891 AAATTAATTTTATATTT
1 AAATTAATTTTA-ATTT
*
33908 AAATTAAATTTAATTT
1 AAATTAATTTTAATTT
* *
33924 TATTTAATTT
1 AAATTAATTT
33934 ATTAACTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTAATTTTAATTT
Found at i:33914 original size:45 final size:44
Alignment explanation
Indices: 33830--33920 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 44
33820 TTTTGAGTGA
*
33830 AAAGTACTCATTTTTTATAATAAATTTATTTATAAATT-AATTT
1 AAAGTACTCATTTTTTAAAATAAATTTATTTATAAATTAAATTT
*
33873 AAAGTACT-ATTTTTTAAAAAATTAATTTTATATT-TAAATTAAATTT
1 AAAGTACTCATTTTTT--AAAA-TAAATTTAT-TTATAAATTAAATTT
33919 AA
1 AA
33921 TTTTATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 7 0.17
43 8 0.20
44 3 0.07
45 14 0.34
46 9 0.22
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (44 bp):
AAAGTACTCATTTTTTAAAATAAATTTATTTATAAATTAAATTT
Found at i:33915 original size:40 final size:43
Alignment explanation
Indices: 33830--33915 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 43
33820 TTTTGAGTGA
* *
33830 AAAGTACTCATTTTTTATAATAAATTTATTTATAAATTAATTT
1 AAAGTACTCATTTTTTATAATAAATTAATTTATAAATTAAATT
*
33873 AAAGTACT-ATTTTTTA-AA-AAATTAATTT-TATATTTAAATT
1 AAAGTACTCATTTTTTATAATAAATTAATTTATA-AATTAAATT
33913 AAA
1 AAA
33916 TTTAATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 2 0.05
40 19 0.49
41 2 0.05
42 8 0.21
43 8 0.21
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (43 bp):
AAAGTACTCATTTTTTATAATAAATTAATTTATAAATTAAATT
Found at i:33985 original size:23 final size:24
Alignment explanation
Indices: 33955--34008 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 24
33945 TATATAATAA
33955 AATATTTAAAAATATTTTAT-ATT
1 AATATTTAAAAATATTTTATAATT
*
33978 AATATTT--ATATATTTTATAATT
1 AATATTTAAAAATATTTTATAATT
34000 AA-ATTTAAA
1 AATATTTAAA
34009 TAAAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 14 0.52
22 5 0.19
23 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTTAAAAATATTTTATAATT
Found at i:34668 original size:16 final size:15
Alignment explanation
Indices: 34649--34686 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34639 AAATAATTAT
34649 AAATATTAATATTTTA
1 AAATATT-ATATTTTA
*
34665 AAATAATATATTTTA
1 AAATATTATATTTTA
34680 AAATATT
1 AAATATT
34687 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATTATATTTTA
Found at i:37435 original size:23 final size:23
Alignment explanation
Indices: 37399--37444 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37389 AAATATCTTA
37399 AATTTATTAATAATTATTT-TAAT
1 AATTTATTAATAA-TATTTATAAT
37422 AATTT-TTAATTAATATTTATAAT
1 AATTTATTAA-TAATATTTATAAT
37445 CATTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTATTAATAATATTTATAAT
Found at i:39790 original size:40 final size:39
Alignment explanation
Indices: 39745--39823 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
39735 ATAAATAGAG
*
39745 GTCACAATGCCCAAAAGAGTATATAAAAGCACAATTAATC
1 GTCACAATGCCCAAAAGAGTATAT-AAAGCACAATCAATC
39785 GTCACAATGCCCAAAAGAGTATATAAAGCACAATCAATC
1 GTCACAATGCCCAAAAGAGTATATAAAGCACAATCAATC
39824 AGGGTAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 14 0.37
40 24 0.63
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.19
Consensus pattern (39 bp):
GTCACAATGCCCAAAAGAGTATATAAAGCACAATCAATC
Found at i:41512 original size:2 final size:2
Alignment explanation
Indices: 41505--41530 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41495 TGAAGAAGAT
41505 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
41531 ACACGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43135 original size:29 final size:31
Alignment explanation
Indices: 43082--43151 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
43072 TATAAAAAAT
*
43082 AATTAAAATTAAAAATTTATTTTTA-TATTTA
1 AATTAAAATTAAAAATATATTTTTATTA-TTA
*
43113 AATTTAAA-TAAAAATAT-TTTTTATTATTA
1 AATTAAAATTAAAAATATATTTTTATTATTA
*
43142 AATTATAATT
1 AATTAAAATT
43152 TGACTAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 15 0.45
30 11 0.33
31 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTAAAATTAAAAATATATTTTTATTATTA
Found at i:46253 original size:17 final size:17
Alignment explanation
Indices: 46205--46247 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
46195 ATTTTTATTT
*
46205 AAATTTATATTAAAT-A
1 AAATTTATATTAATTAA
46221 AAATTTATATTAATTAA
1 AAATTTATATTAATTAA
46238 AAATTT-TATT
1 AAATTTATATT
46248 TTATTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTATATTAATTAA
Found at i:46330 original size:31 final size:35
Alignment explanation
Indices: 46276--46345 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 35
46266 TAAAAATAAA
*
46276 AAATATTTTTTATTAATATTTAT-AATTA-AATTT
1 AAATATTTTTTATTAATATTTATAAATAATAATTT
*
46309 AAATA-TTTTT-TTATTATTTATAAATAATAATTT
1 AAATATTTTTTATTAATATTTATAAATAATAATTT
46342 AAAT
1 AAAT
46346 TAAATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 10 0.30
32 9 0.27
33 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
AAATATTTTTTATTAATATTTATAAATAATAATTT
Found at i:49563 original size:19 final size:19
Alignment explanation
Indices: 49520--49559 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49510 CTTTCTTTTA
49520 ATTATTTTATTATTTATAT
1 ATTATTTTATTATTTATAT
*
49539 ATTATTTTATTTTTTAT-T
1 ATTATTTTATTATTTATAT
49557 ATT
1 ATT
49560 TATTAGCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTATTTTATTATTTATAT
Found at i:50920 original size:20 final size:19
Alignment explanation
Indices: 50897--50947 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 19
50887 TTTTAATTTA
50897 ATAAAAAAATAATTAAATT
1 ATAAAAAAATAATTAAATT
50916 GATAAAAAAAATTAATTAAATT
1 -AT-AAAAAAA-TAATTAAATT
50938 ATAAAAAAAT
1 ATAAAAAAAT
50948 TAATAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
21 9 0.31
22 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAAAAAATAATTAAATT
Found at i:50923 original size:21 final size:20
Alignment explanation
Indices: 50899--50951 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
50889 TTAATTTAAT
50899 AAAAAAATAATTAAATTGATA
1 AAAAAAATAATTAAATT-ATA
50920 AAAAAAATTAATTAAATTATA
1 AAAAAAA-TAATTAAATTATA
*
50941 AAAAAATTAAT
1 AAAAAAATAAT
50952 AAAAAGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 10 0.33
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAAAATAATTAAATTATA
Found at i:50948 original size:20 final size:21
Alignment explanation
Indices: 50897--50951 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
50887 TTTTAATTTA
50897 ATAAAAAAA-TAATTAAATTG
1 ATAAAAAAATTAATTAAATTG
50917 ATAAAAAAAATTAATTAAATT-
1 AT-AAAAAAATTAATTAAATTG
50938 ATAAAAAAATTAAT
1 ATAAAAAAATTAAT
50952 AAAAAGTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.42
21 9 0.27
22 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAAAAAAATTAATTAAATTG
Found at i:51871 original size:18 final size:18
Alignment explanation
Indices: 51850--51884 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51840 TATCTACACC
51850 TACATTTATATTTGATCT
1 TACATTTATATTTGATCT
*
51868 TACATTTATGTTTGATC
1 TACATTTATATTTGATC
51885 GATACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (18 bp):
TACATTTATATTTGATCT
Found at i:51947 original size:22 final size:23
Alignment explanation
Indices: 51922--51986 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
51912 AATTTTTTAA
51922 ATATATAAAAAATTAAAAAAT-T
1 ATATATAAAAAATTAAAAAATAT
**
51944 ATATATACTTAAA-TAAAAAATAT
1 ATATATA-AAAAATTAAAAAATAT
*
51967 TTATATAAAAAATTAAAAAA
1 ATATATAAAAAATTAAAAAA
51987 ATAATGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATATATAAAAAATTAAAAAATAT
Found at i:52933 original size:16 final size:17
Alignment explanation
Indices: 52912--52955 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
52902 ATAGGATATG
*
52912 AAAAAATTATTTTTTTAA
1 AAAAAATTATTTTATT-A
52930 AAAAAATTA-TTTATTA
1 AAAAAATTATTTTATTA
*
52946 AAAATATTAT
1 AAAAAATTAT
52956 ATCTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAAATTATTTTATTA
Found at i:52949 original size:18 final size:18
Alignment explanation
Indices: 52912--52949 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52902 ATAGGATATG
* *
52912 AAAAAATTATTTTTTTAA
1 AAAAAATTATTTATTAAA
52930 AAAAAATTATTTATTAAA
1 AAAAAATTATTTATTAAA
52948 AA
1 AA
52950 TATTATATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAAATTATTTATTAAA
Found at i:54153 original size:227 final size:228
Alignment explanation
Indices: 53790--54217 Score: 519
Period size: 227 Copynumber: 1.9 Consensus size: 228
53780 TCTAGTGTGC
* * * **
53790 TAAAATAAAATTAATAATTAAAATATATACTTCCGTAAATTTTAAATTAAGATATCATTTTTTAT
1 TAAAATAAAATTAATAATTAAAATATATACTTCCATAAATTTCAAATCAAGATATCATTTTCGAT
** * * * * ** * *
53855 AATAATAAGTTCGATTTATTTTATCGAAAAGGTCTATAACTCGAGTTTGTATACCAATTTTTCTC
66 AATAATAAGTTAAATTGATTTTATCAAAAAAGTCTACAACTCGAGTTCATATAACAACTTTTCTC
* * *
53920 TCAATTT-CTTTT-TTTTT-TATAAAAAATTAAAAATTTTGAAAATCAATATCTT-CTTTTTATA
131 TCAATTTCCTTTTGTTTTTGTATAAAAAATTAAAAATTTGGAAAATCAATAT-TTACATTTTACA
53981 AGTAAAGTATTAAATAGCAGTTGCACTATAATAT
195 AGTAAAGTATTAAATAGCAGTTGCACTATAATAT
* * *
54015 TAAAATAAAATTAATAATAATTAAATTATATA-TGTCCATAGATTTCAAATCAAGATATTA-TTT
1 TAAAATAAAA-T--TAATAATTAAAATATATACT-TCCATAAATTTCAAATCAAGATATCATTTT
*
54078 CGATAATAATAAGTTTAAATTGA-TTTATCAAAAAAGTTTACAACTCGAGTTCATATAACAACTT
62 CGATAATAATAAG-TTAAATTGATTTTATCAAAAAAGTCTACAACTCGAGTTCATATAACAACTT
* *
54142 TTCTTTCAATTTCCTTTTGTTTTTGGCTATAAAAAATTAAAAATTTGGAAGATCAATATTTACAT
126 TTCTCTCAATTTCCTTTTGTTTTT-G-TATAAAAAATTAAAAATTTGGAAAATCAATATTTACAT
54207 TTTACAAGTAA
189 TTTACAAGTAA
54218 GATTTAAATA
Statistics
Matches: 168, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
225 10 0.06
226 1 0.01
227 59 0.35
228 49 0.29
229 5 0.03
231 2 0.01
232 42 0.25
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (228 bp):
TAAAATAAAATTAATAATTAAAATATATACTTCCATAAATTTCAAATCAAGATATCATTTTCGAT
AATAATAAGTTAAATTGATTTTATCAAAAAAGTCTACAACTCGAGTTCATATAACAACTTTTCTC
TCAATTTCCTTTTGTTTTTGTATAAAAAATTAAAAATTTGGAAAATCAATATTTACATTTTACAA
GTAAAGTATTAAATAGCAGTTGCACTATAATAT
Found at i:58889 original size:20 final size:19
Alignment explanation
Indices: 58866--58903 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
58856 AAAAACATGA
58866 ATTTAAATTAAAAAATTTAG
1 ATTTAAATT-AAAAATTTAG
*
58886 ATTTAAATTTAAAATTTA
1 ATTTAAATTAAAAATTTA
58904 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTAAATTAAAAATTTAG
Found at i:58909 original size:20 final size:20
Alignment explanation
Indices: 58865--58905 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58855 TAAAAACATG
58865 AATTTAAATTAAAAAATTTA
1 AATTTAAATTAAAAAATTTA
* *
58885 GATTTAAATT-TAAAATTTA
1 AATTTAAATTAAAAAATTTA
58904 AA
1 AA
58906 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTAAATTAAAAAATTTA
Found at i:59390 original size:17 final size:16
Alignment explanation
Indices: 59358--59399 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
59348 ATATTATATT
59358 TATATTTAAAATTTTAA
1 TATATTTAAAATTTT-A
59375 TATATTTAATAA-TTTA
1 TATATTTAA-AATTTTA
59391 TATTATTTA
1 TA-TATTTA
59400 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTAAAATTTTA
Found at i:61105 original size:18 final size:18
Alignment explanation
Indices: 61082--61116 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61072 TTTAAAAATA
61082 TTTTAT-ATTAATATTTAT
1 TTTTATAATT-ATATTTAT
61100 TTTTATAATTATATTTA
1 TTTTATAATTATATTTA
61117 AATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATAATTATATTTAT
Found at i:62103 original size:19 final size:19
Alignment explanation
Indices: 62065--62103 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62055 AGCTGAATTT
*
62065 ATTTATTTAAATTATATAA
1 ATTTATTTAAAATATATAA
62084 ATTTATTTACAAATAT-TAA
1 ATTTATTTA-AAATATATAA
62103 A
1 A
62104 CAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTATTTAAAATATATAA
Found at i:63086 original size:2 final size:2
Alignment explanation
Indices: 63079--63104 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63069 AATCTTTGTC
63079 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
63105 AGATGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:63218 original size:12 final size:13
Alignment explanation
Indices: 63200--63229 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
63190 AATTAGATCA
63200 ATTATTTATTTAT
1 ATTATTTATTTAT
63213 -TTATTTATTTAT
1 ATTATTTATTTAT
63225 ATTAT
1 ATTAT
63230 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTTATTTAT
Found at i:65029 original size:16 final size:16
Alignment explanation
Indices: 64979--65041 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
64969 TATAATAAAA
*
64979 TAAAA-AATTTAAACT
1 TAAAATAATTTAAATT
* *
64994 TAAATTAATCTAAA-T
1 TAAAATAATTTAAATT
*
65009 AAAAATAATTTAAATT
1 TAAAATAATTTAAATT
* *
65025 TAAAATGATATAAATT
1 TAAAATAATTTAAATT
65041 T
1 T
65042 TATTTGATCG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
15 16 0.42
16 22 0.58
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:65039 original size:31 final size:29
Alignment explanation
Indices: 64970--65039 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
64960 TAAATCAAAT
64970 ATAATA-AAATAAAAAATTTAAACTTAAA
1 ATAATATAAATAAAAAATTTAAACTTAAA
* * *
64998 TTAATCTAAATAAAAATAATTTAAATTTAAA
1 ATAATATAAAT-AAAA-AATTTAAACTTAAA
*
65029 ATGATATAAAT
1 ATAATATAAAT
65040 TTTATTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 4 0.12
29 4 0.12
30 4 0.12
31 21 0.64
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
ATAATATAAATAAAAAATTTAAACTTAAA
Found at i:65209 original size:19 final size:19
Alignment explanation
Indices: 65187--65303 Score: 68
Period size: 18 Copynumber: 6.2 Consensus size: 19
65177 TTTTAATTTT
65187 TATTTATATATTTATATTA
1 TATTTATATATTTATATTA
*
65206 TATTTATATTTTTTATATAATTA
1 TATTTATA--TATT-TAT-ATTA
*
65229 TATTTAAAATATTTAATATTA
1 TATTT-ATATATTT-ATATTA
* * *
65250 TA--TAAAT-TTTAAAATA
1 TATTTATATATTTATATTA
* *
65266 TATATCTATA-TTATATTA
1 TATTTATATATTTATATTA
65284 TATTTA-ATATTT-TA-TA
1 TATTTATATATTTATATTA
65300 TATT
1 TATT
65304 ATAATAATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
16 12 0.16
17 8 0.10
18 19 0.25
19 9 0.12
21 10 0.13
22 8 0.10
23 9 0.12
24 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTATATATTTATATTA
Found at i:65240 original size:26 final size:26
Alignment explanation
Indices: 65211--65302 Score: 68
Period size: 26 Copynumber: 3.5 Consensus size: 26
65201 TATTATATTT
65211 ATATTTTTTATATAATTATATTTAAA
1 ATATTTTTTATATAATTATATTTAAA
65237 ATATTTAATATTATATAA--AT-TTTAAA
1 ATATTT--T-TTATATAATTATATTTAAA
* *
65263 ATATATATCTATATTATATTATATTT--A
1 ATAT-TTTTTATA-TA-ATTATATTTAAA
*
65290 ATATTTTATATAT
1 ATATTTTTTATAT
65303 TATAATAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
24 4 0.08
25 4 0.08
26 23 0.43
27 8 0.15
28 3 0.06
29 11 0.21
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTTTTTATATAATTATATTTAAA
Found at i:65241 original size:32 final size:32
Alignment explanation
Indices: 65156--65248 Score: 86
Period size: 32 Copynumber: 2.9 Consensus size: 32
65146 GTAGTTTATA
*
65156 ATATATATATATATTTAAAAT-TTT-TAATTTTT
1 ATATA-AT-TATATTTAAAATATTTATATTTTTT
* *
65188 AT-TTA-TATATTTATATTATATTTATATTTTTT
1 ATATAATTATATTTA-A-AATATTTATATTTTTT
65220 ATATAATTATATTTAAAATATTTAATATT
1 ATATAATTATATTTAAAATATTT-ATATT
65249 ATATAAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
28 8 0.16
29 1 0.02
30 3 0.06
31 4 0.08
32 17 0.35
33 8 0.16
34 8 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
ATATAATTATATTTAAAATATTTATATTTTTT
Found at i:65243 original size:23 final size:23
Alignment explanation
Indices: 65202--65282 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
65192 ATATATTTAT
* * *
65202 ATTATATTTATATTTTTTATATA
1 ATTATATTTAAAATATTTATATA
*
65225 ATTATATTTAAAATATTTAATATT
1 ATTATATTTAAAATATTT-ATATA
* * *
65249 ATATAAATTTTAAAATATATATCTA
1 AT-TATA-TTTAAAATATTTATATA
65274 TATTATATT
1 -ATTATATT
65283 ATATTTAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
23 15 0.33
24 8 0.18
25 9 0.20
26 13 0.29
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATATTTAAAATATTTATATA
Found at i:65253 original size:29 final size:29
Alignment explanation
Indices: 65218--65316 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
65208 TTTATATTTT
65218 TTATATAATTATATTTAAAATATTTAATA
1 TTATATAATTATATTTAAAATATTTAATA
65247 TTATATAA--AT-TTTAAAATA--T-ATA
1 TTATATAATTATATTTAAAATATTTAATA
*
65270 TCTATATTATATTATATTTAATAT-TTTATATA
1 T-TATA-TA-ATTATATTTAAAATATTTA-ATA
65302 TTATAATAATATATA
1 TTAT-ATAAT-TATA
65317 ATATTTAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 22
0.71 0.01 0.28
Matches are distributed among these distances:
23 4 0.07
24 5 0.09
25 2 0.04
26 10 0.18
27 2 0.04
28 2 0.04
29 15 0.26
30 3 0.05
31 9 0.16
32 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATATAATTATATTTAAAATATTTAATA
Found at i:65330 original size:46 final size:46
Alignment explanation
Indices: 65237--65330 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 46
65227 TATATTTAAA
* * *
65237 ATATTTAATATTATATAAATTTTAAAATATATATCTATATTATATT
1 ATATTTAATATTATATAAATTATAAAATATATATATATATTAAATT
* *
65283 ATATTTAATATTTTATATATTATAATAATATATA-ATAT-TTAAAATT
1 ATATTTAATATTATATAAATTATAA-AATATATATATATATT-AAATT
65329 AT
1 AT
65331 CTAATTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.05
46 31 0.76
47 8 0.20
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (46 bp):
ATATTTAATATTATATAAATTATAAAATATATATATATATTAAATT
Found at i:65565 original size:3 final size:3
Alignment explanation
Indices: 65557--65614 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
65547 AGAAAGTAAA
* *
65557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65605 AAT AA- AAT AA
1 AAT AAT AAT AA
65615 AAGAACGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66402 original size:26 final size:27
Alignment explanation
Indices: 66350--66413 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
66340 TTTTAAATTT
* *
66350 TATAAATAATAATATAATAATTTAAATA
1 TATAAA-AATAATATAAAAATTAAAATA
*
66378 TTTAAAAATAAT-TAAAAATTAAAATA
1 TATAAAAATAATATAAAAATTAAAATA
*
66404 TATAATAATA
1 TATAAAAATA
66414 TAACGTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 20 0.65
27 6 0.19
28 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TATAAAAATAATATAAAAATTAAAATA
Found at i:66648 original size:13 final size:13
Alignment explanation
Indices: 66630--66656 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66620 GTAAGCAAAG
66630 ACTCAAAATGAAC
1 ACTCAAAATGAAC
66643 ACTCAAAATGAAC
1 ACTCAAAATGAAC
66656 A
1 A
66657 AGCTCCACGA
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:0.22, G:0.07, T:0.15
Consensus pattern (13 bp):
ACTCAAAATGAAC
Found at i:66981 original size:16 final size:17
Alignment explanation
Indices: 66944--66984 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
66934 TTATGATCAG
66944 ATTAAATAATAATAAAA
1 ATTAAATAATAATAAAA
*
66961 ATTAAATAA-AATAATA
1 ATTAAATAATAATAAAA
*
66977 TTTAAATA
1 ATTAAATA
66985 TTTTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAATAATAATAAAA
Found at i:70305 original size:3 final size:3
Alignment explanation
Indices: 70297--70330 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
70287 CCTAGTTGTT
70297 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
70331 GGTTTCAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:70813 original size:20 final size:20
Alignment explanation
Indices: 70790--70865 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
70780 ATATATTAAA
70790 TTTAAAAAAATAATTTCATT
1 TTTAAAAAAATAATTTCATT
**
70810 TTTAAAAAAATAAAGATATT-AAA
1 TTTAAAAAAAT--A-AT-TTCATT
*
70833 TTTAAAAAAATTATTTCATT
1 TTTAAAAAAATAATTTCATT
*
70853 TTTTAAAAAATAA
1 TTTAAAAAAATAA
70866 AGATATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
19 2 0.05
20 25 0.57
22 1 0.02
23 14 0.32
24 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (20 bp):
TTTAAAAAAATAATTTCATT
Found at i:70886 original size:23 final size:22
Alignment explanation
Indices: 70768--70886 Score: 79
Period size: 23 Copynumber: 5.5 Consensus size: 22
70758 TATTTTGTTT
*
70768 TTTAAAAAATAAATATATTAAA
1 TTTAAAAAATAAAGATATTAAA
* **
70790 TTTAAAAAA-ATA-AT-TTCATT
1 TTTAAAAAATAAAGATATT-AAA
70810 TTTAAAAAAATAAAGATATTAAA
1 TTT-AAAAAATAAAGATATTAAA
** **
70833 TTT-AAAAA-AATTAT-TTCATTT
1 TTTAAAAAATAAAGATATT-A-AA
70854 TTTAAAAAATAAAGATATTAAAA
1 TTTAAAAAATAAAGATATT-AAA
70877 TTTAAAAAAT
1 TTTAAAAAAT
70887 TATTATATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
19 4 0.06
20 11 0.15
21 16 0.22
22 16 0.22
23 20 0.28
24 5 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTAAAAAATAAAGATATTAAA
Found at i:70886 original size:43 final size:43
Alignment explanation
Indices: 70765--70890 Score: 209
Period size: 43 Copynumber: 2.9 Consensus size: 43
70755 AAATATTTTG
* *
70765 TTTTTTAAAAAATAAATATATTAAATTTAAAAAAATAATTTCA
1 TTTTTTAAAAAATAAAGATATTAAATTTAAAAAAATTATTTCA
*
70808 TTTTTAAAAAAATAAAGATATTAAATTTAAAAAAATTATTTCA
1 TTTTTTAAAAAATAAAGATATTAAATTTAAAAAAATTATTTCA
70851 TTTTTTAAAAAATAAAGATATTAAAATTT-AAAAAATTATT
1 TTTTTTAAAAAATAAAGATATT-AAATTTAAAAAAATTATT
70891 ATATATGCTG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 72 0.92
44 6 0.08
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (43 bp):
TTTTTTAAAAAATAAAGATATTAAATTTAAAAAAATTATTTCA
Found at i:71500 original size:13 final size:13
Alignment explanation
Indices: 71457--71500 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
71447 AACTAAATTG
*
71457 ATATTGTAATATA
1 ATATTATAATATA
*
71470 ATATTAAAATAT-
1 ATATTATAATATA
71482 A-ATTATAATATA
1 ATATTATAATATA
71494 ATATTAT
1 ATATTAT
71501 GATAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.35
12 2 0.08
13 15 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTATAATATA
Found at i:71517 original size:33 final size:35
Alignment explanation
Indices: 71479--71571 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 35
71469 AATATTAAAA
*
71479 TATAATTATAATATA-ATATTA-TGATAATTATTT
1 TATAATTATAATATATATATTATTAATAATTATTT
* * *
71512 TATAATTTTAAT-TATTTATTATTAATATTTATTT
1 TATAATTATAATATATATATTATTAATAATTATTT
71546 TAATTAATTATAATA-ATAT-TTATTAA
1 T-A-TAATTATAATATATATATTATTAA
71572 ATTTATAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
32 2 0.04
33 16 0.33
34 11 0.22
35 8 0.16
36 12 0.24
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (35 bp):
TATAATTATAATATATATATTATTAATAATTATTT
Found at i:71542 original size:13 final size:14
Alignment explanation
Indices: 71519--71570 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 14
71509 TTTTATAATT
71519 TTAATTATTTATTA
1 TTAATTATTTATTA
71533 TTAA-TATTTATT-
1 TTAATTATTTATTA
*
71545 TTAATTAATTA-TA
1 TTAATTATTTATTA
*
71558 ATAA-TATTTATTA
1 TTAATTATTTATTA
71571 AATTTATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 10 0.31
13 18 0.56
14 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTATTTATTA
Found at i:71545 original size:26 final size:25
Alignment explanation
Indices: 71516--71569 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
71506 TTATTTTATA
* *
71516 ATTTTAATTATTTATTATTAATATTT
1 ATTTTAATTAATTA-TAATAATATTT
71542 ATTTTAATTAATTATAATAATATTT
1 ATTTTAATTAATTATAATAATATTT
71567 ATT
1 ATT
71570 AAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTTAATTAATTATAATAATATTT
Found at i:72169 original size:24 final size:23
Alignment explanation
Indices: 72139--72185 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
72129 CTGAAACAAT
72139 TATGGGCTGAATGCAAAAGAAAAA
1 TATGGGCTG-ATGCAAAAGAAAAA
* *
72163 TATGGGCTGATGGAAAATAAAAA
1 TATGGGCTGATGCAAAAGAAAAA
72186 GAAAAAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (23 bp):
TATGGGCTGATGCAAAAGAAAAA
Found at i:76504 original size:16 final size:17
Alignment explanation
Indices: 76479--76515 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
76469 CACATTTAAA
*
76479 TTTA-AAATT-AATTAT
1 TTTATAAATTAAATAAT
76494 TTTATAAATTAAATAAT
1 TTTATAAATTAAATAAT
76511 TTTAT
1 TTTAT
76516 TATTATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 5 0.26
17 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTATAAATTAAATAAT
Found at i:79967 original size:2 final size:2
Alignment explanation
Indices: 79960--79997 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
79950 TTCTAGAATG
79960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79998 GTTTTCTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80490 original size:12 final size:12
Alignment explanation
Indices: 80473--80526 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
80463 ATTAAAAATT
80473 ATTTAATTATTA
1 ATTTAATTATTA
*
80485 ATTTAATTTTTA
1 ATTTAATTATTA
*
80497 AATTAATTTATT-
1 ATTTAA-TTATTA
80509 ATTT--TTATTAA
1 ATTTAATTATT-A
80520 ATTTAAT
1 ATTTAAT
80527 AAAATTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
9 5 0.15
11 4 0.12
12 19 0.58
13 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTAATTATTA
Found at i:80518 original size:17 final size:15
Alignment explanation
Indices: 80479--80526 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
80469 AATTATTTAA
80479 TTATTAATTTAATTT
1 TTATTAATTTAATTT
80494 TTAAATTAATTTATTATTT
1 TT--ATTAATTTA--ATTT
80513 TTATTAAATTTAAT
1 TTATT-AATTTAAT
80527 AAAATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 12 0.43
18 6 0.21
19 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTAATTTAATTT
Found at i:82718 original size:3 final size:3
Alignment explanation
Indices: 82710--82743 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
82700 AATATACTGA
82710 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
82744 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:83549 original size:18 final size:19
Alignment explanation
Indices: 83528--83563 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
83518 AACAAATATA
83528 ATTTAATAAT-TTTTAAAT
1 ATTTAATAATATTTTAAAT
*
83546 ATTTAATATTATTTTAAA
1 ATTTAATAATATTTTAAA
83564 ATTATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAATAATATTTTAAAT
Found at i:83579 original size:9 final size:9
Alignment explanation
Indices: 83567--83624 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
83557 TTTTAAAATT
83567 ATTAATTAA
1 ATTAATTAA
83576 ATTAAATT-A
1 ATT-AATTAA
83585 ATTAATTAA
1 ATTAATTAA
*
83594 ATTAATCAA
1 ATTAATTAA
*
83603 A-TAA-AAA
1 ATTAATTAA
83610 ATTAA-TAA
1 ATTAATTAA
*
83618 CTTAATT
1 ATTAATT
83625 TGTTGGATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 3 0.07
8 16 0.39
9 18 0.44
10 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
ATTAATTAA
Found at i:83580 original size:18 final size:19
Alignment explanation
Indices: 83559--83598 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
83549 TAATATTATT
83559 TTAAAATT-ATTAATTAAA
1 TTAAAATTAATTAATTAAA
83577 TT-AAATTAATTAATTAAA
1 TTAAAATTAATTAATTAAA
83595 TTAA
1 TTAA
83599 TCAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 14 0.70
19 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAAATTAATTAATTAAA
Found at i:84191 original size:13 final size:13
Alignment explanation
Indices: 84170--84201 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
84160 TTTTAGGGTG
*
84170 TTAATTGATTAAA
1 TTAAGTGATTAAA
84183 TTAAGTGATTAAA
1 TTAAGTGATTAAA
84196 TTAAGT
1 TTAAGT
84202 TTTAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (13 bp):
TTAAGTGATTAAA
Found at i:85123 original size:11 final size:10
Alignment explanation
Indices: 85105--85243 Score: 62
Period size: 10 Copynumber: 13.8 Consensus size: 10
85095 AAACATAATA
85105 ATATATTTAT
1 ATATATTTAT
85115 ATCATATTTAT
1 AT-ATATTTAT
*
85126 AT-TATTTTT
1 ATATATTTAT
85135 ATATA-TTAT
1 ATATATTTAT
85144 ATAATATTTA-
1 AT-ATATTTAT
*
85154 A-A-ATAT-T
1 ATATATTTAT
85161 ATATATTTAT
1 ATATATTTAT
85171 AT-TAATTT-T
1 ATAT-ATTTAT
*
85180 ATCATATTAAT
1 AT-ATATTTAT
* *
85191 AATAAAATAATATT
1 -AT-ATAT-TTA-T
85205 ATATATTTAT
1 ATATATTTAT
*
85215 ATTATGTTTCAT
1 A-TATATTT-AT
*
85227 AT-TACTTAT
1 ATATATTTAT
85236 ATATATTT
1 ATATATTT
85244 TCGGAGATAG
Statistics
Matches: 96, Mismatches: 15, Indels: 36
0.65 0.10 0.24
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 24 0.25
10 27 0.28
11 24 0.25
12 11 0.11
13 3 0.03
14 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (10 bp):
ATATATTTAT
Found at i:85149 original size:45 final size:44
Alignment explanation
Indices: 85099--85238 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 44
85089 TTATGCAAAC
*
85099 ATAATAATAT-ATTTATATCATATTTATATTATTTTTATATATTAT
1 ATAATAATATAATAT-TAT-ATATTTATATTATTTTTATATATTAT
* * *
85144 ATAATATTTAAAATATTATATATTTATATTAATTTTATCATATTA-
1 ATAATA-ATATAATATTATATATTTATATTATTTTTAT-ATATTAT
* *
85189 ATAATAAAATAATATTATATATTTATATTATGTTTCATATTACTTAT
1 ATAATAATATAATATTATATATTTATATTAT-TTTTATA-TA-TTAT
85236 ATA
1 ATA
85239 TATTTTCGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
44 22 0.28
45 37 0.47
46 14 0.18
47 6 0.08
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.54
Consensus pattern (44 bp):
ATAATAATATAATATTATATATTTATATTATTTTTATATATTAT
Found at i:85181 original size:19 final size:19
Alignment explanation
Indices: 85118--85187 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 19
85108 TATTTATATC
*
85118 ATATTTATATTATTTTTAT
1 ATATTTATATTAATTTTAT
*
85137 ATATTATATAATATTTAAAATATTAT
1 ATA-T-T-T-ATA-TT--AATTTTAT
85163 ATATTTATATTAATTTTAT
1 ATATTTATATTAATTTTAT
85182 CATATT
1 -ATATT
85188 AATAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
19 10 0.25
20 6 0.15
21 3 0.08
22 4 0.10
23 4 0.10
24 3 0.08
25 1 0.03
26 9 0.22
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTATATTAATTTTAT
Found at i:87507 original size:19 final size:21
Alignment explanation
Indices: 87479--87519 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
87469 CATATATCTT
87479 AAAATATAA-TTAAAAAATAA
1 AAAATATAATTTAAAAAATAA
87499 AAAAT-TAATTTAAAAAATAA
1 AAAATATAATTTAAAAAATAA
87519 A
1 A
87520 TAAAACAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATATAATTTAAAAAATAA
Found at i:87737 original size:3 final size:3
Alignment explanation
Indices: 87731--87769 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
87721 ATTAGATGAT
87731 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87770 TTTCCACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:88244 original size:2 final size:2
Alignment explanation
Indices: 88237--88278 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
88227 AATTGAACTC
88237 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T A- AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88275 AT AT
1 AT AT
88279 GGATTCTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.11
2 32 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88551 original size:24 final size:23
Alignment explanation
Indices: 88521--88625 Score: 88
Period size: 24 Copynumber: 4.4 Consensus size: 23
88511 AATAATTACA
88521 ATAATTTATTTTTAATAAAATAAT
1 ATAATTTATTTTTAATAAAAT-AT
*
88545 ATAATTTAATTTATTAATAATATAT
1 ATAATTT-ATTT-TTAATAAAATAT
* *
88570 -TTATATATTTTTAATAAAATATT
1 ATAATTTATTTTTAATAAAATA-T
* * *
88593 ATTATTTAATTCATTAATAATATAT
1 ATAATTT-ATT-TTTAATAAAATAT
88618 A-AATTTAT
1 ATAATTTAT
88626 AAACTATAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
22 10 0.15
23 7 0.10
24 20 0.30
25 11 0.16
26 19 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTTATTTTTAATAAAATAT
Found at i:88617 original size:26 final size:25
Alignment explanation
Indices: 88524--88617 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 25
88514 AATTACAATA
* * *
88524 ATTT-ATTTTTAATAAAATAATATA
1 ATTTAATTATTAATAAAATATTATT
*
88548 ATTTAATTTATTAATAATATA-T-TT
1 ATTTAA-TTATTAATAAAATATTATT
* *
88572 ATAT-ATTTTTAATAAAATATTATT
1 ATTTAATTATTAATAAAATATTATT
*
88596 ATTTAATTCATTAATAATATAT
1 ATTTAATT-ATTAATAAAATAT
88618 AAATTTATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 12 0.22
23 2 0.04
24 13 0.24
25 5 0.09
26 23 0.42
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAATTATTAATAAAATATTATT
Found at i:89925 original size:16 final size:16
Alignment explanation
Indices: 89906--89939 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
89896 TTAACCACCC
89906 TTATTTATTTT-TATTT
1 TTATTT-TTTTATATTT
89922 TTATTTTTTTATATTT
1 TTATTTTTTTATATTT
89938 TT
1 TT
89940 CATTAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATTTTTTTATATTT
Found at i:96723 original size:21 final size:20
Alignment explanation
Indices: 96697--96763 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
96687 GATAAAAAAT
96697 TAAAAATATAAATAATTTAAA
1 TAAAAATATAAAT-ATTTAAA
96718 TAAAAATA-AAATTTATTTAAA
1 TAAAAATATAAA--TATTTAAA
*
96739 AAATAAAT-TAAAT-TTTAAA
1 TAA-AAATATAAATATTTAAA
96758 TAAAAA
1 TAAAAA
96764 ATTTAAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 3 0.08
19 8 0.20
20 4 0.10
21 17 0.43
22 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATATAAATATTTAAA
Found at i:96723 original size:46 final size:40
Alignment explanation
Indices: 96672--96763 Score: 103
Period size: 46 Copynumber: 2.1 Consensus size: 40
96662 CTTTAATGTT
*
96672 TAAAAATTAAATTTAGATAAAAAATTAAAAATATAAATAATTTAAA
1 TAAAAATAAAATTTAGATAAAAAA-T--AAAT-TAAAT--TTTAAA
**
96718 TAAAAATAAAATTTATTTAAAAAATAAATTAAATTTTAAA
1 TAAAAATAAAATTTAGATAAAAAATAAATTAAATTTTAAA
96758 TAAAAA
1 TAAAAA
96764 ATTTAAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 12 0.28
42 5 0.12
43 4 0.09
45 1 0.02
46 21 0.49
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (40 bp):
TAAAAATAAAATTTAGATAAAAAATAAATTAAATTTTAAA
Found at i:96755 original size:23 final size:22
Alignment explanation
Indices: 96711--96753 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96701 AATATAAATA
*
96711 ATTTAAATAA-AAATAAAATTT
1 ATTTAAAAAATAAATAAAATTT
*
96732 ATTTAAAAAATAAATTAAATTT
1 ATTTAAAAAATAAATAAAATTT
96754 TAAATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAAATAAATAAAATTT
Found at i:96849 original size:20 final size:20
Alignment explanation
Indices: 96814--96872 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
96804 TTTTTAAATT
*
96814 ATAAAATTTATAATTTTATA
1 ATAAAAATTATAATTTTATA
*
96834 AT-ATAATTATATATTTTATA
1 ATAAAAATTATA-ATTTTATA
96854 ATAAAAATTATAATTTTAT
1 ATAAAAATTATAATTTTAT
96873 TTTATTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.21
20 19 0.56
21 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAAAAATTATAATTTTATA
Found at i:96956 original size:24 final size:23
Alignment explanation
Indices: 96925--96971 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
96915 TAATACTATA
96925 TATTTAAAAAATATTATAAAAAAT
1 TATTTAAAAAATATT-TAAAAAAT
**
96949 TATTTAAATTATATTTAAAAAAT
1 TATTTAAAAAATATTTAAAAAAT
96972 ATAATATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTAAAAAATATTTAAAAAAT
Found at i:96973 original size:11 final size:11
Alignment explanation
Indices: 96924--96973 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
96914 GTAATACTAT
96924 ATATTTAAAAA
1 ATATTTAAAAA
96935 ATATTATAAAAA
1 ATATT-TAAAAA
**
96947 ATTATTTAAATT
1 A-TATTTAAAAA
96959 ATATTTAAAAA
1 ATATTTAAAAA
96970 ATAT
1 ATAT
96974 AATATAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 17 0.52
12 12 0.36
13 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATTTAAAAA
Found at i:97105 original size:18 final size:20
Alignment explanation
Indices: 97084--97127 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
97074 TATAATATAT
97084 TAATAC-TTTA-AATTAATC
1 TAATACATTTAGAATTAATC
97102 TAATACGATTTATGAATTAATC
1 TAATAC-ATTTA-GAATTAATC
97124 TAAT
1 TAAT
97128 TAATAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 4 0.18
22 12 0.55
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (20 bp):
TAATACATTTAGAATTAATC
Found at i:102572 original size:2 final size:2
Alignment explanation
Indices: 102565--102609 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
102555 TCAGGTACAG
102565 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
102607 CT C
1 CT C
102610 ATACACCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:113196 original size:18 final size:18
Alignment explanation
Indices: 113173--113210 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
113163 ATTCAATATT
*
113173 AATATTTTTAAATTTTTA
1 AATATTTTTAAATATTTA
*
113191 AATATTTTTATATATTTA
1 AATATTTTTAAATATTTA
113209 AA
1 AA
113211 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATATTTTTAAATATTTA
Found at i:116901 original size:27 final size:25
Alignment explanation
Indices: 116854--116908 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
116844 ATTTTGATAA
*
116854 ATATATAATATGTATTCAAATATTT
1 ATATATAATATGTATTCAAATATAT
*
116879 ATATATAATATGATATTTTAAATATAT
1 ATATATAATATG-TA-TTCAAATATAT
116906 ATA
1 ATA
116909 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 12 0.46
26 2 0.08
27 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
ATATATAATATGTATTCAAATATAT
Found at i:116906 original size:25 final size:25
Alignment explanation
Indices: 116838--116908 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
116828 TTTATGTTTG
* *
116838 ATAT-ATATTTT-GATAAATATATA
1 ATATGATATTTTAAATATATATATA
*
116861 ATATG-TA-TTCAAATATTTATATATA
1 ATATGATATTTTAAATA--TATATATA
116886 ATATGATATTTTAAATATATATA
1 ATATGATATTTTAAATATATATA
116909 AAATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
25 18 0.47
26 2 0.05
27 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (25 bp):
ATATGATATTTTAAATATATATATA
Found at i:118984 original size:13 final size:13
Alignment explanation
Indices: 118966--118995 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118956 ACGTCTGAAG
*
118966 TTTTTTTTTTCCC
1 TTTTTTTTTTCCA
118979 TTTTTTTTTTCCA
1 TTTTTTTTTTCCA
118992 TTTT
1 TTTT
118996 GGGTGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTCCA
Found at i:120925 original size:1 final size:1
Alignment explanation
Indices: 120919--120951 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
120909 GTTTGGGGTT
*
120919 GGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
120952 TTTCTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:123846 original size:29 final size:29
Alignment explanation
Indices: 123779--123849 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
123769 AACTTTATTA
*
123779 AAATTTATATATTTTTATTATATTCAAAT
1 AAATTTTTATATTTTTATTATATTCAAAT
**
123808 AAATCATTAT-TTTTTATT-TATATCTAAAT
1 AAATTTTTATATTTTTATTATAT-TC-AAAT
*
123837 TAATTTTTATATT
1 AAATTTTTATATT
123850 AAATAAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.09
28 10 0.30
29 18 0.55
30 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
AAATTTTTATATTTTTATTATATTCAAAT
Found at i:123909 original size:30 final size:28
Alignment explanation
Indices: 123870--123945 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
123860 TTAATTTAAG
*
123870 TTAAGAATTTATTTAGATACAAAT-TAAAAA
1 TTAAAAATTTATTTA-A-A-AAATATAAAAA
123900 TTAAAAATTTATTTAAAAAATAATAAAAA
1 TTAAAAATTTATTTAAAAAAT-ATAAAAA
*
123929 TTAAAAACTTATTTAAA
1 TTAAAAATTTATTTAAA
123946 GGATTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 4 0.10
28 1 0.02
29 23 0.55
30 14 0.33
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
TTAAAAATTTATTTAAAAAATATAAAAA
Found at i:124840 original size:2 final size:2
Alignment explanation
Indices: 124835--124870 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
124825 AATTAAAAAA
124835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124871 CCGCAGGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126903 original size:5 final size:5
Alignment explanation
Indices: 126893--126924 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
126883 CACATTTCAC
126893 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
126925 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:129173 original size:23 final size:23
Alignment explanation
Indices: 129142--129192 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
129132 AGATTTAAAA
*
129142 TTTAATTTTAATATTTATAAT-T-T
1 TTTATTTTTAA-A-TTATAATGTCT
129165 TTTATTTTTAAATTATAATGTCT
1 TTTATTTTTAAATTATAATGTCT
129188 TTTAT
1 TTTAT
129193 AAAAATAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 2 0.08
23 16 0.64
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTAAATTATAATGTCT
Found at i:130767 original size:25 final size:25
Alignment explanation
Indices: 130718--130767 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
130708 ATTTTAAAAA
*
130718 TAATAAATTAATTAATATATCAATT
1 TAATAAATTAATTAATACATCAATT
*
130743 TAATAAATATAATTAA-ACATTAATT
1 TAATAAAT-TAATTAATACATCAATT
130768 AACATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATAAATTAATTAATACATCAATT
Found at i:133664 original size:17 final size:17
Alignment explanation
Indices: 133642--133676 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
133632 AGGACAATTC
133642 TGATTCGTTGTTTCATA
1 TGATTCGTTGTTTCATA
133659 TGATTCGTTGTTTCATA
1 TGATTCGTTGTTTCATA
133676 T
1 T
133677 TTGTCAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (17 bp):
TGATTCGTTGTTTCATA
Found at i:134285 original size:12 final size:12
Alignment explanation
Indices: 134268--134311 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
134258 ATAATTTATG
134268 TTTATATTATTT
1 TTTATATTATTT
*
134280 TTTATATTATAT
1 TTTATATTATTT
134292 TTTA-ATTATTT
1 TTTATATTATTT
134303 TTTATATTA
1 TTTATATTA
134312 AATTCGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:134322 original size:23 final size:22
Alignment explanation
Indices: 134272--134323 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
134262 TTTATGTTTA
* *
134272 TATTATTTTTTATATTATATTT
1 TATTATTTTTTATATTAAATTG
134294 TAATTATTTTTTATATTAAATTCG
1 T-ATTATTTTTTATATTAAATT-G
134318 TATTAT
1 TATTAT
134324 ATACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 24 0.92
24 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTTTTTATATTAAATTG
Found at i:134740 original size:17 final size:17
Alignment explanation
Indices: 134702--134742 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
134692 CATATTCATG
134702 TTTTAT-TTTTATATTA
1 TTTTATATTTTATATTA
*
134718 TATTATATTTTA-ATTA
1 TTTTATATTTTATATTA
134734 CTTTTATAT
1 -TTTTATAT
134743 GATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTATATTA
Found at i:142469 original size:28 final size:28
Alignment explanation
Indices: 142438--142496 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
142428 TATATGCAAG
142438 AATACAAATGGCAACTGTTTCTTAAGAT
1 AATACAAATGGCAACTGTTTCTTAAGAT
*
142466 AATACAAATGGCACCTGTTTCTTAAGAT
1 AATACAAATGGCAACTGTTTCTTAAGAT
142494 AAT
1 AAT
142497 TAGCTAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (28 bp):
AATACAAATGGCAACTGTTTCTTAAGAT
Found at i:146358 original size:101 final size:100
Alignment explanation
Indices: 146180--146360 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 100
146170 TGGCTGCAAT
* * *
146180 AAATGTTCTATGGATAAGCTTTGGGTTGAGTATGATTGGAGCTAGAAAAAGAAACTGAGTGGATG
1 AAATGTTCTATGGATAAGCTTTGGCTTGAGTATAATTGGAGCTAGAAAAAGAAACTGAGTGGATA
146245 AATGTCACGAACTTAAAGAGGAGTAATATATGATC
66 AATGTCACGAACTTAAAGAGGAGTAATATATGATC
* * *
146280 AAATGTTTTATGGATAAGCTTTGGACTTGGGTATAATTGGAGCTAGAAAGAGAAACTGAGTGGAT
1 AAATGTTCTATGGATAAGCTTTGG-CTTGAGTATAATTGGAGCTAGAAAAAGAAACTGAGTGGAT
146345 AAATGTC-CTGAACTTA
65 AAATGTCAC-GAACTTA
146361 GAGGAGACAT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 24 0.33
101 49 0.67
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (100 bp):
AAATGTTCTATGGATAAGCTTTGGCTTGAGTATAATTGGAGCTAGAAAAAGAAACTGAGTGGATA
AATGTCACGAACTTAAAGAGGAGTAATATATGATC
Found at i:160640 original size:16 final size:16
Alignment explanation
Indices: 160619--160650 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
160609 CTCAACCAAC
160619 ATTTCAATAAGACAAA
1 ATTTCAATAAGACAAA
160635 ATTTCAATAAGACAAA
1 ATTTCAATAAGACAAA
160651 CAGAAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (16 bp):
ATTTCAATAAGACAAA
Found at i:162868 original size:2 final size:2
Alignment explanation
Indices: 162861--162920 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
162851 AAATGAGTTT
162861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
162903 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
162921 GGCTTTTAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:163063 original size:15 final size:15
Alignment explanation
Indices: 163045--163082 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
163035 TATAAAATTT
*
163045 TTAAATATATTTATA
1 TTAAATATATTAATA
163060 TTAAATATATTAATA
1 TTAAATATATTAATA
*
163075 TTTAATAT
1 TTAAATAT
163083 TGTGAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATATATTAATA
Found at i:163633 original size:35 final size:35
Alignment explanation
Indices: 163586--163656 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
163576 AGGCTTTCGA
* * *
163586 TTTATTTCGTTTGGGCTTTTAGTAACCCAAAAGTT
1 TTTATTTCGTTTGGGCATTTAGAAACCAAAAAGTT
*
163621 TTTATTTGGTTTGGGCATTTAGAAACCAAAAAGTT
1 TTTATTTCGTTTGGGCATTTAGAAACCAAAAAGTT
163656 T
1 T
163657 GGTTCAGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTATTTCGTTTGGGCATTTAGAAACCAAAAAGTT
Found at i:163843 original size:17 final size:17
Alignment explanation
Indices: 163821--163875 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
163811 TCTAAAAATT
163821 TATTTTATTATTTATAA
1 TATTTTATTATTTATAA
* *
163838 TATTTTTTTATATA-AA
1 TATTTTATTATTTATAA
163854 TATTTATATACTATTTATAA
1 TATTT-TAT--TATTTATAA
163874 TA
1 TA
163876 AATTTATTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 7 0.23
17 14 0.47
19 5 0.17
20 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTATTATTTATAA
Found at i:167151 original size:28 final size:27
Alignment explanation
Indices: 167095--167195 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 27
167085 ATTTATATGA
* * *
167095 TTTATATTTACTTAATATAATTATTATAT
1 TTTATATTTAATTTAT-TAAATA-TATAT
167124 TTTATATTTAATTTATGTAAATATATAT
1 TTTATATTTAATTTAT-TAAATATATAT
**
167152 TAAAT-TATTAATTTATTAAAATATATGAT
1 TTTATAT-TTAATTTATT-AAATATAT-AT
167181 TATT-TATTTAATTTA
1 T-TTATATTTAATTTA
167196 AAAAAAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.03
28 25 0.42
29 31 0.53
30 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTATATTTAATTTATTAAATATATAT
Found at i:167201 original size:29 final size:29
Alignment explanation
Indices: 167128--167201 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
167118 TTATATTTTA
**
167128 TATTTAATTTATGTAAATATATATTAAAT
1 TATTTAATTTATAAAAATATATATTAAAT
* *
167157 TA-TTAATTTATTAAAATATATGATT-ATT
1 TATTTAATTTATAAAAATATAT-ATTAAAT
*
167185 TATTTAATTTAAAAAAA
1 TATTTAATTTATAAAAA
167202 AAATTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 21 0.55
29 17 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TATTTAATTTATAAAAATATATATTAAAT
Found at i:167339 original size:20 final size:19
Alignment explanation
Indices: 167302--167360 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 19
167292 GTATAATAAA
167302 TATATTATATTATTAAATT
1 TATATTATATTATTAAATT
167321 TATATT-TATTATATAAAATAT
1 TATATTATATTAT-T-AAAT-T
167342 TA-ATTATATAATATTAAAT
1 TATATTATAT--TATTAAAT
167361 GATACTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 6 0.18
19 7 0.21
20 7 0.21
21 10 0.29
22 1 0.03
23 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTATATTATTAAATT
Found at i:167347 original size:16 final size:16
Alignment explanation
Indices: 167322--167352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
167312 TATTAAATTT
*
167322 ATATTTATTATATAAA
1 ATATTAATTATATAAA
167338 ATATTAATTATATAA
1 ATATTAATTATATAA
167353 TATTAAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATTATATAAA
Found at i:167847 original size:44 final size:45
Alignment explanation
Indices: 167797--167894 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
167787 AAAATTTTAA
* *
167797 TATTTAAAA-ATTTTTTAATTAAATAAA-TTAAAATTAAAAAAAAT
1 TATTTAAAACAATATTTAA-TAAATAAAGTTAAAATTAAAAAAAAT
**
167841 TATTTAAAACAATATTTAATAAATAAAGTTAAAATTAAAATTAAT
1 TATTTAAAACAATATTTAATAAATAAAGTTAAAATTAAAAAAAAT
*
167886 TATATAAAA
1 TATTTAAAA
167895 TAAAAATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
44 17 0.36
45 30 0.64
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (45 bp):
TATTTAAAACAATATTTAATAAATAAAGTTAAAATTAAAAAAAAT
Found at i:168314 original size:22 final size:24
Alignment explanation
Indices: 168274--168321 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
168264 AACACAGCAT
168274 AAACACAACAAAGAGAATAAT-TA
1 AAACACAACAAAGAGAATAATATA
168297 AAACACAACATAA-A-AATAATATA
1 AAACACAACA-AAGAGAATAATATA
168320 AA
1 AA
168322 TATTGTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 15 0.65
24 2 0.09
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.15
Consensus pattern (24 bp):
AAACACAACAAAGAGAATAATATA
Found at i:168608 original size:18 final size:19
Alignment explanation
Indices: 168574--168609 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
168564 ATATATATAA
168574 AAAAATAAAACACAATATG
1 AAAAATAAAACACAATATG
*
168593 AAAAATAATACA-AATAT
1 AAAAATAAAACACAATAT
168610 ACGAGTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAAATAAAACACAATATG
Found at i:168785 original size:18 final size:18
Alignment explanation
Indices: 168762--168833 Score: 51
Period size: 18 Copynumber: 4.0 Consensus size: 18
168752 TTGATACGAA
168762 TATATAAACATATAAAAT
1 TATATAAACATATAAAAT
* *
168780 TATATATAGA-ATAAAAT
1 TATATAAACATATAAAAT
* *
168797 AAATTATTAACATATAAAAAT
1 -TA-TATAAACATAT-AAAAT
*
168818 T-TATAAAAAT-TAAAAT
1 TATATAAACATATAAAAT
168834 ATTTAAAACT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
16 5 0.12
17 8 0.20
18 16 0.39
19 5 0.12
20 2 0.05
21 5 0.12
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
TATATAAACATATAAAAT
Found at i:168890 original size:14 final size:13
Alignment explanation
Indices: 168870--168907 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
168860 GAATACATAA
168870 ATTTTTTCTTTGACT
1 ATTTTTTCTTT-A-T
168885 -TTTTTTCTTTAT
1 ATTTTTTCTTTAT
168897 ATTTTTTCTTT
1 ATTTTTTCTTT
168908 TCTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 11 0.50
14 10 0.45
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (13 bp):
ATTTTTTCTTTAT
Found at i:169465 original size:37 final size:36
Alignment explanation
Indices: 169424--169523 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 36
169414 AAATACACGT
*
169424 ATATATAAAAATATACATAAAATAAATCAA-ATTATTA
1 ATATATAAAAAAATACATAAAATAAAT-AATATT-TTA
* *
169461 ATATATAAAAAAATTATATAAAA-ATATAATATTTTA
1 ATATATAAAAAAA-TACATAAAATAAATAATATTTTA
169497 A-ATATAAAAAAATAACATAAATATAAA
1 ATATATAAAAAAAT-ACATAAA-ATAAA
169524 CACATAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
34 1 0.02
35 17 0.32
36 7 0.13
37 20 0.38
38 8 0.15
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (36 bp):
ATATATAAAAAAATACATAAAATAAATAATATTTTA
Found at i:169517 original size:35 final size:38
Alignment explanation
Indices: 169423--169523 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 38
169413 TAAATACACG
*
169423 TATATATAAAAATATACATAAAATAAATCAAATTATTAA
1 TATATAAAAAAATA-ACATAAAATAAATCAAATTATTAA
* * *
169462 TATATAAAAAAATTATATAAAA-ATAT-AATATT-TTAA
1 TATATAAAAAAATAACATAAAATAAATCAA-ATTATTAA
169498 -ATATAAAAAAATAACATAAATATAAA
1 TATATAAAAAAATAACATAAA-ATAAA
169524 CACATAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
35 18 0.35
36 7 0.13
37 8 0.15
38 7 0.13
39 12 0.23
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (38 bp):
TATATAAAAAAATAACATAAAATAAATCAAATTATTAA
Done.