Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000468.1 Hibiscus syriacus cultivar Beakdansim tig00000866_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85780
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4603 original size:21 final size:21
Alignment explanation
Indices: 4577--4616 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4567 CCCCCTTTGA
*
4577 AGGGG-ATCCGATTCCCCCCAC
1 AGGGGAAT-CGATACCCCCCAC
4598 AGGGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
4617 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.23, C:0.40, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAATCGATACCCCCCAC
Found at i:13551 original size:18 final size:19
Alignment explanation
Indices: 13523--13561 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13513 TCTCTTATTT
*
13523 TTTACTTTAATTGCTTTTA
1 TTTACTTTAATCGCTTTTA
*
13542 TTTA-TTTAATCGTTTTTA
1 TTTACTTTAATCGCTTTTA
13560 TT
1 TT
13562 ACTACTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTACTTTAATCGCTTTTA
Found at i:15559 original size:64 final size:66
Alignment explanation
Indices: 15491--15617 Score: 156
Period size: 64 Copynumber: 2.0 Consensus size: 66
15481 TTTAAAAAGA
15491 AAACATCGAAT-GTCATTAATGCATCGATGCATAAG-G-AGTGCATCGATGCAT-CC-CCATTAA
1 AAACATCGAATAG--ATTAATGCATCGATGCAT-AGTGTAGTGCATCGATGCATACCTCCATTAA
15551 ATAC
63 ATAC
* * * *
15555 AAACATCGAATAGATTTATGCATTGATGCATGGTGTAGTGCATCGATGTATACCTCCATTAAA
1 AAACATCGAATAGATTAATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAA
15618 AGATGAAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.02
63 17 0.31
64 25 0.46
65 3 0.06
66 8 0.15
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (66 bp):
AAACATCGAATAGATTAATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAATA
C
Found at i:16224 original size:23 final size:23
Alignment explanation
Indices: 16205--16287 Score: 130
Period size: 23 Copynumber: 3.6 Consensus size: 23
16195 ATGGCACTAT
16205 GGTGCAATTCTACGCGGCACTCC
1 GGTGCAATTCTACGCGGCACTCC
16228 GGTGCAATTCTACGCGGCACTCC
1 GGTGCAATTCTACGCGGCACTCC
* * *
16251 GGTACAATTCTACGTGGCACTTC
1 GGTGCAATTCTACGCGGCACTCC
*
16274 GGTGCAATTATACG
1 GGTGCAATTCTACG
16288 AGATGTGGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGTGCAATTCTACGCGGCACTCC
Found at i:22483 original size:64 final size:67
Alignment explanation
Indices: 22415--22542 Score: 176
Period size: 64 Copynumber: 2.0 Consensus size: 67
22405 TTTAAAAAGA
22415 AAACATCGAAT-GTCATTAATGCATCGATGCATAAG-G-AGTGCATCGATGCAT-CC-CCATTAA
1 AAACATCGAATAG-CATTAATGCATCGATGCAT-AGTGTAGTGCATCGATGCATACCTCCATTAA
22475 ATAC
64 ATAC
* * *
22479 AAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCATACCTCCATTAAA
1 AAACATCGAATAGCATTAATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAA
22543 AGATGAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
63 1 0.02
64 29 0.52
65 16 0.29
66 2 0.04
67 8 0.14
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (67 bp):
AAACATCGAATAGCATTAATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAAT
AC
Found at i:23183 original size:23 final size:23
Alignment explanation
Indices: 23121--23189 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
23111 CATTATTATA
*
23121 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
23144 CGGCAC-TCTGGTACAATTCTACG
1 TGGCACTTC-GGTGCAATTCTACG
*
23167 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
23190 AGATATGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.92
24 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:26523 original size:25 final size:25
Alignment explanation
Indices: 26489--26540 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
26479 CATTCAAGAC
26489 ATTCTCTTTATATTTTGTTGAGTTT
1 ATTCTCTTTATATTTTGTTGAGTTT
26514 ATTCTCTTTATATTTTGTTGAGTTT
1 ATTCTCTTTATATTTTGTTGAGTTT
26539 AT
1 AT
26541 GAGGTGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.63
Consensus pattern (25 bp):
ATTCTCTTTATATTTTGTTGAGTTT
Found at i:32792 original size:18 final size:19
Alignment explanation
Indices: 32771--32806 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32761 ATAATTTCTA
32771 AAATAATTA-TAAAAATCT
1 AAATAATTATTAAAAATCT
*
32789 AAATATTTATTAAAAATC
1 AAATAATTATTAAAAATC
32807 AATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAATTATTAAAAATCT
Found at i:38384 original size:15 final size:15
Alignment explanation
Indices: 38348--38391 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38338 ATCGATATAA
38348 TAATTTTATAATAATT
1 TAATTTTATAAT-ATT
*
38364 T-TTTTTATAATATT
1 TAATTTTATAATATT
*
38378 TAATTTTAAAATAT
1 TAATTTTATAATAT
38392 CAGAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 19 0.79
16 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTTTATAATATT
Found at i:39806 original size:3 final size:3
Alignment explanation
Indices: 39800--39862 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
39790 ATTATTTTTT
39800 TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
39845 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
39863 ATAAATAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:39867 original size:4 final size:4
Alignment explanation
Indices: 39858--39886 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
39848 TAATAATAAT
39858 AATA AATA AATA AA-A AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
39887 ATGGGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:39876 original size:15 final size:15
Alignment explanation
Indices: 39858--39887 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39848 TAATAATAAT
39858 AATAAATAAATAAAA
1 AATAAATAAATAAAA
39873 AATAAATAAATAAAA
1 AATAAATAAATAAAA
39888 TGGGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AATAAATAAATAAAA
Found at i:40145 original size:17 final size:17
Alignment explanation
Indices: 40123--40181 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
40113 TTGCACAAGC
40123 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
*
40140 TCTTCTTC-TTCAGATG-AGT
1 TCTTC-TCATT--G-TGAACT
40159 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
*
40176 CCTTCT
1 TCTTCT
40182 GGAAATGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
16 2 0.06
17 15 0.45
18 4 0.12
19 10 0.30
20 2 0.06
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.47
Consensus pattern (17 bp):
TCTTCTCATTGTGAACT
Found at i:40829 original size:114 final size:113
Alignment explanation
Indices: 40225--42035 Score: 3055
Period size: 113 Copynumber: 16.0 Consensus size: 113
40215 ATAGAGTCAT
* * ** * *
40225 GCAAAAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * ** *
40290 ATGATGAACTCTCTCTGGAAAAGTTGATCCATC-GAGTGATAAATTCGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGA-TGATGGATTTGA
* * * *
40338 GCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCT
1 GC-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCT
* ** * * *
40402 TCTCATTATGAACTCTACCTGGCAATGTTGATCCATCA-A--AT-GA--TGA
62 TCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
** *
40448 AAAAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
40513 ATTATGAACTTTTTCTAGAAAAGTTGATCCATTA-AGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGA-TGATGGATTTGA
40561 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
40626 ATTATGAACTTTTTTTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
*
40674 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
40739 ATTATGAACTTTTTCTGGAAAAGCTGATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
*
40788 GCAAAAGGTTGAACAAATTCTTTTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
40853 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
40901 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
40966 ATTATGAACTTTTTCTGGAAAAGTTGATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
41015 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
41080 ATTATGAACTTTTTCTGGAAAAGCTGATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
*
41129 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
41194 ATTATGAACTTTTTCTGGAAAAGCTGATCCATTAGATGATGGATTTGT
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41242 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
41307 ATTATGAATTTTTTATGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41355 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41420 ATTATGAACTTTTTCTGGAAAAGCTAATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
41469 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41534 ATTATGAACTTTTTCTAGAAAAGCTGATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
41583 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
41648 ATTATGAACTTTTTCTGGAAAAGCTGATCCTATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
* *
41697 GTAAAAGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
41762 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41810 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41875 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41923 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41988 ATTATAAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
42036 ATCTTTGCTA
Statistics
Matches: 1623, Mismatches: 59, Indels: 32
0.95 0.03 0.02
Matches are distributed among these distances:
107 39 0.02
109 4 0.00
110 46 0.03
111 2 0.00
112 1 0.00
113 814 0.50
114 677 0.42
116 40 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
Found at i:41233 original size:568 final size:567
Alignment explanation
Indices: 40225--42035 Score: 3086
Period size: 568 Copynumber: 3.2 Consensus size: 567
40215 ATAGAGTCAT
* * ** * *
40225 GCAAAAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * ** *
40290 ATGATGAACTCTCTCTGGAAAAGTTGATCCATC-GAGTGATAAATTCGAGCGAAAA-GTTGAACA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGA-TGATGGATTTGAGC-AAAAGGTTGAACA
* * * * *
40353 AGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
129 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTT
** * * ** *
40418 ACCTGGCAATGTTGATCC-ATCA-A--AT-GA--TGAAAAAAAGGTTGAATAAATTCTTCTCATT
191 TTCTGGAAAAGTTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATT
* *
40476 ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTAGAAAAGTTGAT
256 ATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGAT
*
40541 CC-ATTA-AGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
321 CCTATCAGA-TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
*
40604 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTTGGAAAAGCTGATCCATCAGATGATGGA
385 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGA
*
40669 TTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTC
450 TTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTC
40734 TTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTATCAGATGATGGATTTGA
515 TTCTCATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGA
*
40788 GCAAAAGGTTGAACAAATTCTTTTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
40853 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
40918 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
40983 GAAAAGTTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
196 GAAAAGTTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
41048 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTAT
261 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTAT
41113 CAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
326 CAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
* * *
41178 TAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATTAGATGATGGATTTGTG
391 CAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
41243 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
456 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
41308 TTATGAATTTTTTATGGAAAAGCTGATCCATCAGATGATGGATTTGA
521 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41355 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41420 ATTATGAACTTTTTCTGGAAAAGCTAATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCC-ATCAGATGATGGATTTGAGCAAAAGGTTGAACAA
41485 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
130 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
* *
41550 AGAAAAGCTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
195 GGAAAAGTTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
41615 ATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTA
260 ATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTA
* *
41680 TCAGATGATGGATTTGAGTAAAAGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCT
325 TCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCT
41745 TCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
390 TCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41810 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
455 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41875 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATGGATTTGA
520 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
41923 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
41988 ATTATAAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
42036 ATCTTTGCTA
Statistics
Matches: 1186, Mismatches: 50, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
560 36 0.03
561 4 0.00
562 5 0.00
563 141 0.12
564 4 0.00
565 2 0.00
567 222 0.19
568 771 0.65
569 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (567 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAGTTGATCCTATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCTAT
CAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
CAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
Found at i:42461 original size:22 final size:22
Alignment explanation
Indices: 42436--42490 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
42426 CATAAAGTTT
*
42436 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
42458 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
42480 TCATCTTTGAA
1 TCATCTTTGAA
42491 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:42976 original size:54 final size:52
Alignment explanation
Indices: 42860--43060 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 52
42850 CACTGGTTCA
* *
42860 TAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTG-TCTAGA---TG
1 TAAAACATTTGACAACACATTCATCTTTT-CTGTGGCTTCTGCTC-AGAGTTTG
*
42910 TAAAACACTTGACAACACATTCATTCTTTTCTGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCA-TCTTTTCTGTGGCTTCTGCTCAGA-GTTTG
* * * **
42964 TAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCTTTTC-TGTGGCTTCTGCTCAGA-GTTTG
* *
43018 TAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCAT-CTTTTCTGTGGCTTCTGC
43061 CAAGATTTCT
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
50 35 0.27
51 8 0.06
53 6 0.05
54 74 0.58
55 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (52 bp):
TAAAACATTTGACAACACATTCATCTTTTCTGTGGCTTCTGCTCAGAGTTTG
Found at i:45385 original size:114 final size:114
Alignment explanation
Indices: 45185--45506 Score: 511
Period size: 114 Copynumber: 2.8 Consensus size: 114
45175 GATCATGCAG
* * * * * * *
45185 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
45250 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
45299 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
45364 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
45413 TTCATCTTTCAAATCCAATGATCATTGGTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTC
1 TTCATCTTTCAAATCCAATG---ATTGG-TTTT-GGGGTTCATACCAAACCAGATCAGATAACTC
45478 AAAGAACACTTCCAGAAGATGCTA-TGAGT
61 AAAGAACACTTCCAGAAGATGCTATTGAGT
45507 ACATGGCATT
Statistics
Matches: 194, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
114 125 0.64
117 5 0.03
118 9 0.05
119 55 0.28
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:47933 original size:2 final size:2
Alignment explanation
Indices: 47926--48015 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
47916 ACAACAAAGG
47926 AT AT AT 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 AT AT AT
47968 AT AT AT 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 AT AT AT
48010 AT AT AT
1 AT AT AT
48016 TAAAGGATAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50898 original size:14 final size:14
Alignment explanation
Indices: 50860--50913 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
50850 CATAAAAATA
* *
50860 CAAATGCAAAGATG
1 CAAATGTAAATATG
50874 CCAAATGTAAATATG
1 -CAAATGTAAATATG
* *
50889 CAATTGTAAAAATG
1 CAAATGTAAATATG
*
50903 TAAATGTAAAT
1 CAAATGTAAAT
50914 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:52586 original size:23 final size:21
Alignment explanation
Indices: 52560--52606 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
52550 AAATGCTTGC
52560 AAATAAAATGAAATAATATATAT
1 AAATAAAAT-AAA-AATATATAT
**
52583 AAATACTATAAAAATATATAT
1 AAATAAAATAAAAATATATAT
52604 AAA
1 AAA
52607 AAATTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAAAATAAAAATATATAT
Found at i:53243 original size:15 final size:15
Alignment explanation
Indices: 53202--53244 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
53192 ATCGATATAA
53202 TAATTTTATAATATT
1 TAATTTTATAATATT
*
53217 T-TTTTTATAATATT
1 TAATTTTATAATATT
*
53231 TAATTTTAAAATAT
1 TAATTTTATAATAT
53245 CAGAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTTTATAATATT
Found at i:54599 original size:3 final size:3
Alignment explanation
Indices: 54593--54642 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
54583 ATTATTTTTT
54593 TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
54637 TAA TAA
1 TAA TAA
54643 ATAAATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.14
3 30 0.71
4 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:54649 original size:14 final size:15
Alignment explanation
Indices: 54598--54650 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
54588 TTTTTTAATA
*
54598 ATAATAATAATATAT
1 ATAATAATAATAAAT
54613 ATAATAATATATATAAT
1 ATAATAATA-ATA-AAT
54630 ATAATAATAATAAAT
1 ATAATAATAATAAAT
54645 A-AATAA
1 ATAATAA
54651 ATAAAATGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 5 0.14
15 13 0.37
16 6 0.17
17 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:60256 original size:60 final size:60
Alignment explanation
Indices: 60154--60289 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
60144 TTTAACTTCA
* * ** * *
60154 AATATTTCAATTTTATCCTTAAACTATGACTTTCACTTTAAATT-AGTCCTTAAACTTTTG
1 AATATTTCAATTTCATCCCTAAACTATGACCCTCACTTTAAATTGA-CCCTCAAACTTTTG
* *
60214 AATATTTTAATTTCATCCCTAAACTATGACCCTC-TTTCTAAATTGACCCTCAAACTTTTG
1 AATATTTCAATTTCATCCCTAAACTATGACCCTCACTT-TAAATTGACCCTCAAACTTTTG
*
60274 AATATCTCAATTTCAT
1 AATATTTCAATTTCAT
60290 TACCTATTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 61 0.95
61 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (60 bp):
AATATTTCAATTTCATCCCTAAACTATGACCCTCACTTTAAATTGACCCTCAAACTTTTG
Found at i:61281 original size:60 final size:59
Alignment explanation
Indices: 61188--61365 Score: 169
Period size: 60 Copynumber: 3.0 Consensus size: 59
61178 AATTGGAATG
* ** * *
61188 TATAGTTTGGGATGGAATTGGAATATTCAAAAAGTTTAGGGACTAATTTAGAATGACAGT
1 TATAGTTTGGGATGAAATTAAAATATTC-AAAAGTTTAGGGACTAATTTAGAATAACACT
* *
61248 TATAGTTTGGTGATGAAATTAAAATGTTCAAAAGTTT-GAGGATTAATTTAGAATAACACT
1 TATAGTTTGG-GATGAAATTAAAATATTCAAAAGTTTAG-GGACTAATTTAGAATAACACT
* * * * * * * * *
61308 CATAGTTTAAGGATAAAATTATAATATTTAAAAGTTTATGGACCAGTTTAAAATAACA
1 TATAGTTT-GGGATGAAATTAAAATATTCAAAAGTTTAGGGACTAATTTAGAATAACA
61366 GTCATACTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
59 1 0.01
60 80 0.83
61 15 0.16
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (59 bp):
TATAGTTTGGGATGAAATTAAAATATTCAAAAGTTTAGGGACTAATTTAGAATAACACT
Found at i:62720 original size:19 final size:19
Alignment explanation
Indices: 62682--62720 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62672 TATGTTTGTG
* *
62682 ATTAAAGAACTATAATAAA
1 ATTAAAGAACTAGAAAAAA
62701 ATTAAAGAACTAGAAAAAA
1 ATTAAAGAACTAGAAAAAA
62720 A
1 A
62721 AAACTTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
ATTAAAGAACTAGAAAAAA
Found at i:63632 original size:19 final size:20
Alignment explanation
Indices: 63590--63634 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
63580 TATAATAAAA
63590 AATTATAAAATTATACTCAT
1 AATTATAAAATTATACTCAT
*
63610 AATTATAATAGTT-TACT-AT
1 AATTATAA-AATTATACTCAT
63629 AATTAT
1 AATTAT
63635 TGACACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 12 0.52
21 3 0.13
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTATAAAATTATACTCAT
Found at i:63968 original size:13 final size:14
Alignment explanation
Indices: 63946--63977 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
63936 TCAAACCCTA
63946 AAAAATTAAACAAT
1 AAAAATTAAACAAT
63960 AAAAA-TAAACAAT
1 AAAAATTAAACAAT
63973 AAAAA
1 AAAAA
63978 AAGTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATTAAACAAT
Found at i:63978 original size:14 final size:15
Alignment explanation
Indices: 63944--63978 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
63934 AATCAAACCC
63944 TAAAAAATTAAACAA
1 TAAAAAATTAAACAA
63959 T-AAAAA-TAAACAA
1 TAAAAAATTAAACAA
63972 TAAAAAA
1 TAAAAAA
63979 AGTGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.42
14 10 0.53
15 1 0.05
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAATTAAACAA
Found at i:64069 original size:21 final size:21
Alignment explanation
Indices: 64045--64095 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
64035 AAACATAAGA
64045 AAAATAAATATATGATATATG
1 AAAATAAATATATGATATATG
64066 AAAATAAATATATGATATATG
1 AAAATAAATATATGATATATG
64087 AAAATAAAT
1 AAAATAAAT
64096 GAGAAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATAAATATATGATATATG
Found at i:65270 original size:229 final size:224
Alignment explanation
Indices: 64868--65313 Score: 766
Period size: 229 Copynumber: 2.0 Consensus size: 224
64858 GTAAATTATC
* * *
64868 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATCTTTAGTTAA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATATTTAGTTAA
**
64933 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
66 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGT
64998 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
131 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
65063 CATAAATTACATAACTTTCAAAAAAGTATA
196 CATAAATTACATAACTTT-AAAAAAGTATA
*
65093 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTAAATTATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATT--A-TATTTAG
*
65158 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
62 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
65223 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
127 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
65288 GAAACATAAATTACATAACTTTAAAA
192 GAAACATAAATTACATAACTTTAAAA
65314 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
225 36 0.17
226 15 0.07
228 5 0.02
229 152 0.73
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (224 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATATTTAGTTAA
TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGT
GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
CATAAATTACATAACTTTAAAAAAGTATA
Found at i:65402 original size:20 final size:19
Alignment explanation
Indices: 65379--65424 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
65369 CGATATACCA
65379 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
65399 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
65419 GGTAAA
1 GGTAAA
65425 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:67844 original size:21 final size:21
Alignment explanation
Indices: 67797--67861 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
67787 AAGACAATCA
* *
67797 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
67819 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
67839 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
67860 AG
1 AG
67862 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:69767 original size:16 final size:17
Alignment explanation
Indices: 69746--69791 Score: 67
Period size: 16 Copynumber: 2.7 Consensus size: 17
69736 AAATGTCGAG
69746 TTAATTTTGTATAAGA-
1 TTAATTTTGTATAAGAT
*
69762 TTAATTTTGTATACGAT
1 TTAATTTTGTATAAGAT
69779 TTATATTTTGTAT
1 TTA-ATTTTGTAT
69792 GTGAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.56
17 3 0.11
18 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (17 bp):
TTAATTTTGTATAAGAT
Found at i:70290 original size:199 final size:199
Alignment explanation
Indices: 69908--71077 Score: 2191
Period size: 199 Copynumber: 5.9 Consensus size: 199
69898 CAATATGGCC
* * * *
69908 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
69973 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70038 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
70102 TGGAA
195 TGGAA
*
70107 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70172 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
70237 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
70302 GGAA
196 GGAA
* *
70306 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70371 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
70436 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
**
70500 TAAA
196 GGAA
70504 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
70569 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
70634 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
70699 GGAA
196 GGAA
* *
70703 AACAAGGTGCACCCATAAAGTATTGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70768 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
70833 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
70898 GGAA
196 GGAA
70902 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
70967 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
71032 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
71078 CTAATTTAAA
Statistics
Matches: 952, Mismatches: 17, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
198 307 0.32
199 645 0.68
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:70642 original size:397 final size:397
Alignment explanation
Indices: 69908--71077 Score: 2223
Period size: 397 Copynumber: 2.9 Consensus size: 397
69898 CAATATGGCC
* *
69908 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCG-AAC
69973 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70038 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
*
70103 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
70168 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
70233 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
70298 GAATGGAA
390 GAATGGAA
70306 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
70371 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
70436 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
70501 AAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
*
70566 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
70631 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
70696 AATGGAA
391 AATGGAA
* * * *
70703 AACAAGGTGCACCCATAAAGTATTGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
70768 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
70833 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
70898 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
70963 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
71028 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
71078 CTAATTTAAA
Statistics
Matches: 757, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
397 509 0.67
398 248 0.33
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (397 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
AATGGAA
Found at i:71045 original size:596 final size:596
Alignment explanation
Indices: 69908--71077 Score: 2225
Period size: 596 Copynumber: 2.0 Consensus size: 596
69898 CAATATGGCC
*
69908 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
69973 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70038 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
131 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
* *
70103 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
70168 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
70233 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
*
70298 GAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATC
391 GAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATC
70363 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
456 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
70428 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
521 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
70493 AATGAATTAAA
586 AATGAATTAAA
* * *
70504 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
*
70568 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70633 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAA
*
70698 TGGAAAACAAGGTGCACCCATAAAGTATTGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAAGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
70763 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
70828 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAA
*
70893 TGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
390 TGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAT
70958 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
455 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
71023 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
520 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
71078 CTAATTTAAA
Statistics
Matches: 562, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
595 120 0.21
596 442 0.79
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (596 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
GAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATC
ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
AATGAATTAAA
Found at i:72551 original size:18 final size:18
Alignment explanation
Indices: 72530--72591 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
72520 AGCGGTCGCA
72530 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
72548 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
72566 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
72584 GAAGATGA
1 GAAGATGA
72592 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:72554 original size:6 final size:6
Alignment explanation
Indices: 72530--72621 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
72520 AGCGGTCGCA
* * * * * *
72530 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
72578 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
72622 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:72565 original size:3 final size:3
Alignment explanation
Indices: 72545--72625 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
72535 TGAAGCTGAC
* * * * * ** *
72545 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
72593 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
72626 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:72584 original size:36 final size:36
Alignment explanation
Indices: 72533--72609 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
72523 GGTCGCAGAA
*
72533 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
72569 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
72605 GATGA
1 GATGA
72610 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:72625 original size:12 final size:12
Alignment explanation
Indices: 72533--72621 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
72523 GGTCGCAGAA
*
72533 GATGAAGCTGAC
1 GATGAAGATGAC
72545 GATGAAGATGAC
1 GATGAAGATGAC
*
72557 GATGATGATGAC
1 GATGAAGATGAC
* *
72569 GATGAAGCTGGC
1 GATGAAGATGAC
*
72581 GATGAAGATGAT
1 GATGAAGATGAC
* * *
72593 GACGATGATGAT
1 GATGAAGATGAC
* *
72605 GATGATGATGAA
1 GATGAAGATGAC
72617 GATGA
1 GATGA
72622 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:72625 original size:18 final size:18
Alignment explanation
Indices: 72530--72621 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
72520 AGCGGTCGCA
*
72530 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
72548 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
72566 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
72584 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
72602 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
72620 GA
1 GA
72622 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:73752 original size:20 final size:20
Alignment explanation
Indices: 73727--73765 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73717 TAATATATTG
*
73727 TAAAGTATCTATCCTTTTTA
1 TAAAGTATCTATACTTTTTA
*
73747 TAAAGTGTCTATACTTTTT
1 TAAAGTATCTATACTTTTT
73766 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TAAAGTATCTATACTTTTTA
Found at i:74714 original size:181 final size:182
Alignment explanation
Indices: 74067--74766 Score: 1168
Period size: 182 Copynumber: 3.9 Consensus size: 182
74057 CTTTCAACAT
* * * * * *
74067 ATTATAAT-AAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* * *
74131 GGTCTACAACCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGTCCATATTGGAA-GAA
66 GGTCTACAACCTATATCGACACTTTATAATATTG--TCGGTACTTTATGTCCAGATTGGAATAAA
74195 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
129 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
74249 ATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATA-CGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
74313 GGTCTACAACCTATATCGACACTTTATAATATTGTCGGTACTTTATGTCCAGATTGGAAAAAAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTCGGTACTTTATGTCCAGATTGGAATAAAAA
74378 TGTGTCGATACGATTTAAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 TGTGTCGATACGATTT-AAAAAAGTGTCGACATTTTACACATCGGAACCCATA
74431 ATTATAAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
1 ATTAT-AATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
74496 A-GTCTACAACCTATATCGACACTTTATAATA-TGTCGGTACTTTATGTCCAGATTGGAATAAAA
65 AGGTCTACAACCTATATCGACACTTTATAATATTGTCGGTACTTTATGTCCAGATTGGAATAAAA
74559 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
130 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
74612 ATTATAATGTAATAGATAATTTTGTAATAT-ACCGGTATAAATATACC-GTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
74675 GGTCTACAACCTATATCGACAC-TTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAT--A
66 GGTCTACAACCTATATCGACACTTTATAATA-T-TGTCGGTACTTTATGTCCAGATTGGAATAAA
*
74737 AATGTGTCGATACCATTTAAAAAAGTGTCG
129 AATGTGTCGATACGATTTAAAAAAGTGTCG
74767 GTAATTTGAA
Statistics
Matches: 496, Mismatches: 13, Indels: 21
0.94 0.02 0.04
Matches are distributed among these distances:
178 24 0.05
179 68 0.14
180 49 0.10
181 89 0.18
182 146 0.29
183 102 0.21
184 18 0.04
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (182 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTCGGTACTTTATGTCCAGATTGGAATAAAAA
TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:77250 original size:25 final size:25
Alignment explanation
Indices: 77216--77271 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
77206 TTATCATTAA
77216 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
77241 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
77266 ATTTAG
1 ATTTAG
77272 TATACATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:77906 original size:23 final size:23
Alignment explanation
Indices: 77875--77921 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
77865 ACAACAAATC
77875 AATTAAACA-TGTGTGGGTACATT
1 AATTAAACATTGT-TGGGTACATT
*
77898 AATTGAACATTGTTGGGTACATT
1 AATTAAACATTGTTGGGTACATT
77921 A
1 A
77922 TTTGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (23 bp):
AATTAAACATTGTTGGGTACATT
Found at i:78228 original size:18 final size:18
Alignment explanation
Indices: 78207--78243 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78197 GTAATTGGAG
78207 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
78225 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
78243 T
1 T
78244 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:78251 original size:24 final size:24
Alignment explanation
Indices: 78199--78245 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
78189 TTTCATATGT
* *
78199 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
78223 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
78246 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:78545 original size:38 final size:38
Alignment explanation
Indices: 78502--78582 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
78492 ATGCTCATCA
*
78502 AAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
*
78540 AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
1 AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
78578 AAATC
1 AAATC
78583 TACAACTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (38 bp):
AAATCCAAAGCTCATATGATGCCAAGCAAAAGGAAATC
Found at i:79454 original size:23 final size:23
Alignment explanation
Indices: 79425--79472 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
79415 AAATAGGTAA
*
79425 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAGTACATT
*
79448 ATATAAGCGCTACCTAGTATATT
1 ATATAAGCGCTACCTAGTACATT
79471 AT
1 AT
79473 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTACATT
Found at i:80671 original size:19 final size:19
Alignment explanation
Indices: 80647--80688 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
80637 GTTGTTTCAA
80647 GTTGATTGTCTTTGTGAAG
1 GTTGATTGTCTTTGTGAAG
80666 GTTGATTGTCTTTGTGAAG
1 GTTGATTGTCTTTGTGAAG
80685 GTTG
1 GTTG
80689 TTCTTCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.48
Consensus pattern (19 bp):
GTTGATTGTCTTTGTGAAG
Found at i:81772 original size:6 final size:6
Alignment explanation
Indices: 81757--81787 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
81747 GAAATGATGA
*
81757 TAATGC TAATGG TAATGC TAATGC TAATGC T
1 TAATGC TAATGC TAATGC TAATGC TAATGC T
81788 GGTACTGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (6 bp):
TAATGC
Found at i:83589 original size:9 final size:9
Alignment explanation
Indices: 83577--83601 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
83567 AATAATGTCA
83577 TGATGTGGT
1 TGATGTGGT
83586 TGATGTGGT
1 TGATGTGGT
83595 TGATGTG
1 TGATGTG
83602 CATGTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (9 bp):
TGATGTGGT
Found at i:85212 original size:17 final size:17
Alignment explanation
Indices: 85190--85229 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
85180 CTTCTTAAGA
85190 GACCCAGAGTGCTCGCC
1 GACCCAGAGTGCTCGCC
85207 GACCCAGAGTGCTCGCC
1 GACCCAGAGTGCTCGCC
85224 GACCCA
1 GACCCA
85230 ACCCTCCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.42, G:0.28, T:0.10
Consensus pattern (17 bp):
GACCCAGAGTGCTCGCC
Done.