Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008799.1 Hibiscus syriacus cultivar Beakdansim tig00111949_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: 108279
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3192 original size:15 final size:15
Alignment explanation
Indices: 3169--3200 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3159 TGAAATGAAT
3169 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
3184 AATGTATGTATGCAA
1 AATGAATGTATGCAA
3199 AA
1 AA
3201 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:8504 original size:3 final size:3
Alignment explanation
Indices: 8498--8530 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
8488 TTATTTTTTT
*
8498 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8531 AATGAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9178 original size:49 final size:49
Alignment explanation
Indices: 9106--9204 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
9096 TTTGATTTTT
*
9106 AGACGACGGTAATGAAAATGGTTTGAAACTGAATGGGTTTTGTGTGAAA
1 AGACGACGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
*
9155 AGACGAGGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
1 AGACGACGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
9204 A
1 A
9205 AACCCATGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.27
Consensus pattern (49 bp):
AGACGACGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
Found at i:13492 original size:35 final size:34
Alignment explanation
Indices: 13407--13493 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
13397 ATTTGGTATT
*
13407 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
13441 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
13479 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
13494 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:14095 original size:18 final size:18
Alignment explanation
Indices: 14072--14112 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14062 AAAGGCGATG
*
14072 GCGGTATCATATATGGCT
1 GCGGTATCATAAATGGCT
*
14090 GCGGTATCATAAATGGTT
1 GCGGTATCATAAATGGCT
14108 GCGGT
1 GCGGT
14113 GACTGCTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (18 bp):
GCGGTATCATAAATGGCT
Found at i:18583 original size:26 final size:26
Alignment explanation
Indices: 18519--18583 Score: 62
Period size: 29 Copynumber: 2.4 Consensus size: 26
18509 AAATATTAGA
*
18519 AATAAA-AATAAAAATAGACTCCTAAT
1 AATAAATAA-AAAAATAGACTCATAAT
18545 AATTAATATTAAAAAAATA-ACCTCATAAT
1 AA-TAA-A-TAAAAAAATAGA-CTCATAAT
18574 AATAAATAAA
1 AATAAATAAA
18584 GGAAAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
26 6 0.18
27 4 0.12
28 5 0.15
29 16 0.48
30 2 0.06
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
AATAAATAAAAAAATAGACTCATAAT
Found at i:19136 original size:39 final size:37
Alignment explanation
Indices: 19044--19139 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 37
19034 CTTTAACTTC
*
19044 AAAA-TATAAAAAATAATTATAAACTATAAATATATTA
1 AAAATTATAAAAAA-AATTATAAACTATAAATAAATTA
*
19081 AATATATTA-AATAAAAAATTATTAACTA-AAATTAAAATATA
1 AA-A-ATTATAA-AAAAAATTATAAACTATAAA-T-AAAT-TA
19122 AAAATTATAAAAAAAATT
1 AAAATTATAAAAAAAATT
19140 GACCTAAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
37 2 0.04
38 4 0.08
39 27 0.55
40 12 0.24
41 4 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (37 bp):
AAAATTATAAAAAAAATTATAAACTATAAATAAATTA
Found at i:19137 original size:26 final size:25
Alignment explanation
Indices: 19044--19139 Score: 70
Period size: 26 Copynumber: 3.7 Consensus size: 25
19034 CTTTAACTTC
19044 AAAATATAAAAAATAATTATAAACTATA
1 AAAATATAAAAAA-AATTA-AAA-TATA
* * * *
19072 AATATATTAAATATATT-AAATA-A
1 AAAATATAAAAAAAATTAAAATATA
**
19095 AAAATTATTAACTAAAATTAAAATATA
1 AAAA-TA-TAAAAAAAATTAAAATATA
19122 AAAATTATAAAAAAAATT
1 AAAA-TATAAAAAAAATT
19140 GACCTAAATC
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 9 0.17
26 14 0.27
27 11 0.21
28 10 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAATATAAAAAAAATTAAAATATA
Found at i:19886 original size:19 final size:21
Alignment explanation
Indices: 19845--19886 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
19835 AATTATATAT
*
19845 AATAAATATTAAATTCGAACA
1 AATAAATATTAAATTAGAACA
*
19866 AATAAAT-TT-AATTAGACCA
1 AATAAATATTAAATTAGAACA
19885 AA
1 AA
19887 AAAAGACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 2 0.11
21 7 0.37
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAAATATTAAATTAGAACA
Found at i:20018 original size:14 final size:14
Alignment explanation
Indices: 19999--20028 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19989 TTAGATTTTT
*
19999 TTAAAATTACATTA
1 TTAAAAATACATTA
20013 TTAAAAATACATTA
1 TTAAAAATACATTA
20027 TT
1 TT
20029 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:20130 original size:11 final size:11
Alignment explanation
Indices: 20114--20157 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
20104 TCGAGCTCAA
20114 AATCGAGCTTC
1 AATCGAGCTTC
*
20125 AATCGAGCTTG
1 AATCGAGCTTC
*
20136 AGTCTTGAGCTTC
1 AATC--GAGCTTC
20149 AATCGAGCT
1 AATCGAGCT
20158 CCTGAAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (11 bp):
AATCGAGCTTC
Found at i:26125 original size:18 final size:19
Alignment explanation
Indices: 26096--26138 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
26086 GAATTTAAAA
26096 AAAAAATCAGAAAAATTAC
1 AAAAAATCAGAAAAATTAC
26115 AAAAAAT-AGAAAAATTAC
1 AAAAAATCAGAAAAATTAC
26133 AAAAAA
1 AAAAAA
26139 AATTGGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAATCAGAAAAATTAC
Found at i:26209 original size:15 final size:17
Alignment explanation
Indices: 26178--26210 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
26168 TGTATTTTTT
26178 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
26195 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
26210 A
1 A
26211 AAAAAACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:27824 original size:15 final size:15
Alignment explanation
Indices: 27806--27845 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
27796 TTACATCATA
*
27806 ATCAATAGTTTCAGC
1 ATCAATAGTTTCAAC
27821 ATCAATAGTTTCAAC
1 ATCAATAGTTTCAAC
27836 ATCAATAGTT
1 ATCAATAGTT
27846 GCAGGTGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (15 bp):
ATCAATAGTTTCAAC
Found at i:28963 original size:21 final size:20
Alignment explanation
Indices: 28877--29034 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
28867 AAATGACCAA
**
28877 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
28896 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
28916 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
28936 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
28957 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
28978 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
28998 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
29020 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
29035 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:29025 original size:20 final size:20
Alignment explanation
Indices: 28937--29053 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
28927 ATCAGTTTCC
* *
28937 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
28957 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
28977 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
28998 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
29020 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
29039 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
29054 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:29063 original size:20 final size:20
Alignment explanation
Indices: 29021--29230 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
29011 GCGAATATTA
* *
29021 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
29041 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
29061 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
29081 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
29101 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
29121 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
29141 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
29161 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
29181 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
29201 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
29221 AAATCACAAC
1 AAATCGCAAC
29231 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 159 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:29953 original size:24 final size:24
Alignment explanation
Indices: 29914--29960 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29904 AAATTTGGTC
29914 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
29938 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
29961 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:32491 original size:33 final size:34
Alignment explanation
Indices: 32440--32775 Score: 297
Period size: 33 Copynumber: 9.7 Consensus size: 34
32430 CGGAAATTAC
*
32440 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
32473 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
32507 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
32540 AATCGTAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
32573 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGC-GAAATGAA
*
32612 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
32645 AATCGCAATGCGAAATGAAAATCGCAA--C--AA-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
32678 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
32716 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
32749 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--CG--ATGAAAATCGCAA
32776 CGAGAGAATC
Statistics
Matches: 259, Mismatches: 15, Indels: 53
0.79 0.05 0.16
Matches are distributed among these distances:
32 1 0.00
33 138 0.53
34 46 0.18
35 10 0.04
36 6 0.02
37 7 0.03
38 41 0.16
39 10 0.04
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:32549 original size:19 final size:19
Alignment explanation
Indices: 32454--32775 Score: 353
Period size: 19 Copynumber: 18.4 Consensus size: 19
32444 GCAACGAGAG
32454 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
32473 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
32487 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
32507 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
32521 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
32540 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
32559 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
32573 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
32592 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
32612 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
32626 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
32645 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
32664 AATCGCAA--C--AA-GAG
1 AATCGCAATGCGAAATGAA
32678 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
32697 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
32716 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
32730 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
32749 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
32768 AATCGCAA
1 AATCGCAA
32776 CGAGAGAATC
Statistics
Matches: 257, Mismatches: 14, Indels: 64
0.77 0.04 0.19
Matches are distributed among these distances:
14 62 0.24
15 6 0.02
16 10 0.04
17 8 0.03
18 8 0.03
19 134 0.52
20 29 0.11
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:32609 original size:105 final size:105
Alignment explanation
Indices: 32482--32797 Score: 607
Period size: 105 Copynumber: 3.0 Consensus size: 105
32472 AAATCCCAAC
*
32482 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGTA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
32547 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
66 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32587 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
*
32652 ATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAA
66 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32692 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
32756 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
66 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32796 AT
1 AT
32798 TATAAACGCA
Statistics
Matches: 208, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
104 89 0.43
105 119 0.57
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (105 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:32813 original size:52 final size:52
Alignment explanation
Indices: 32482--32797 Score: 596
Period size: 52 Copynumber: 6.0 Consensus size: 52
32472 AAATCCCAAC
32482 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
32535 ATGAAAATCGTAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32587 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
32640 ATGAAAATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32692 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32744 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
32796 AT
1 AT
32798 TATAAACGCA
Statistics
Matches: 258, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
52 191 0.74
53 67 0.26
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:32916 original size:52 final size:53
Alignment explanation
Indices: 32804--32919 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
32794 AAATTATAAA
32804 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
32857 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
32909 CGCATTGCGAT
1 CGCATTGCGAT
32920 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:32927 original size:19 final size:19
Alignment explanation
Indices: 32822--32919 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
32812 GATTCTCTCG
32822 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
32842 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
32861 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
32875 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
32894 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
32913 TTGCGAT
1 TTGCGAT
32920 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:33045 original size:14 final size:14
Alignment explanation
Indices: 33026--33062 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
33016 CATCAATTAC
33026 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
33040 ACAAATCATCTTTT
1 ACAAATCAACTTTT
33054 ACAAATCAA
1 ACAAATCAA
33063 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:35067 original size:33 final size:33
Alignment explanation
Indices: 35021--35113 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
35011 GCGAAACCAA
* *
35021 AATCGCAACGCGAAATGAAAACCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
35054 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
35087 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
35114 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:35078 original size:19 final size:19
Alignment explanation
Indices: 34984--35118 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
34974 TAGTTTACTT
* *
34984 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
35004 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
35023 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
35042 CCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
35056 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
35075 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
35089 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
35108 TCGCAATGCGA
1 TCGCAACGCGA
35119 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:35092 original size:14 final size:14
Alignment explanation
Indices: 35043--35096 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
35033 AAATGAAAAC
*
35043 CGCAACGACAGAAT
1 CGCAACGAAAGAAT
35057 CGCAATGCGAAATGAAAAT
1 CGCAA--CGAAA-G--AAT
35076 CGCAACGAAAGAAT
1 CGCAACGAAAGAAT
35090 CGCAACG
1 CGCAACG
35097 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 15 0.44
16 5 0.15
17 6 0.18
19 8 0.24
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.09
Consensus pattern (14 bp):
CGCAACGAAAGAAT
Found at i:35136 original size:19 final size:19
Alignment explanation
Indices: 35114--35242 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
35104 AAAATCGCAA
35114 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
35133 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
35147 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
35166 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
35180 TGCGATTTTAATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
35199 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
35218 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
35238 TGCGA
1 TGCGA
35243 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:35156 original size:33 final size:33
Alignment explanation
Indices: 35114--35205 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
35104 AAAATCGCAA
35114 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
35147 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
35180 TGCGATTTTAATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
35206 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:35406 original size:93 final size:93
Alignment explanation
Indices: 35290--35665 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
35280 ATGGATTGCA
35290 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
35354 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
35382 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
35447 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
35475 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
35540 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
35568 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
35633 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
35661 TTACT
1 TTACT
35666 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 278 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:37389 original size:14 final size:14
Alignment explanation
Indices: 37370--37460 Score: 65
Period size: 14 Copynumber: 5.7 Consensus size: 14
37360 GTTGAAATGA
37370 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
37384 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
37403 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
37417 AATCGCAACGCGAAATGAAA
1 AATCGCAA--CG--A-G-AG
37437 AATCGCAACGAGAG
1 AATCGCAACGAGAG
37451 AATCGCAACG
1 AATCGCAACG
37461 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
14 29 0.47
15 2 0.03
16 5 0.08
17 2 0.03
18 4 0.06
19 11 0.18
20 9 0.15
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:37446 original size:34 final size:33
Alignment explanation
Indices: 37363--37477 Score: 205
Period size: 33 Copynumber: 3.5 Consensus size: 33
37353 TCTTTTGGTT
37363 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
37395 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
37428 GAAATGAAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATG-AAAATCGCAACGAGAGAATCGCAACGC
37462 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
37478 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
32 6 0.08
33 41 0.52
34 32 0.41
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:37520 original size:14 final size:14
Alignment explanation
Indices: 37501--37557 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
37491 TCGCGTTTCG
37501 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
37515 CGTTGCGATTCTCATTT
1 CGTTGCGATTCTC---T
37532 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
37548 CGTTGCGATT
1 CGTTGCGATT
37558 TTCATTTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 23 0.61
16 1 0.03
17 1 0.03
19 13 0.34
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:37538 original size:33 final size:33
Alignment explanation
Indices: 37496--37565 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
37486 TGGTTTCGCG
37496 TTTCGCGTTGCGATTCTCTCGTTGCGATTCTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTCTCA
*
37529 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTCTCA
37562 TTTC
1 TTTC
37566 TCTCGTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.09, C:0.26, G:0.20, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTCTCA
Found at i:37586 original size:41 final size:41
Alignment explanation
Indices: 37541--37618 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
37531 TCGCGTTGCG
*
37541 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
37582 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
37619 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:37603 original size:20 final size:21
Alignment explanation
Indices: 37542--37617 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
37532 CGCGTTGCGA
37542 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
37563 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
37583 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
37604 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
37618 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:37739 original size:33 final size:33
Alignment explanation
Indices: 37697--37767 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
37687 AATACTAACT
*
37697 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
37730 TGAAAATCGCAACGACAGAATCGTAATGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
37763 TGAAA
1 TGAAA
37768 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:38001 original size:22 final size:22
Alignment explanation
Indices: 37949--38003 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
37939 TGGTTGTGAG
**
37949 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
37971 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
37993 GGATTTCTTCG
1 GGATTTCTTCG
38004 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:38175 original size:20 final size:20
Alignment explanation
Indices: 38150--38343 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
38140 CTTTAAATAT
38150 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
38170 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
38192 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
38211 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
38231 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
38251 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
38271 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
38291 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
38311 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
38331 CGCGTTGCGATTT
1 CGCGTTGCGATTT
38344 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:38337 original size:60 final size:60
Alignment explanation
Indices: 38150--38343 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
38140 CTTTAAATAT
**
38150 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
38211 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
38271 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
38331 CGCGTTGCGATTT
1 CGCGTTGCGATTT
38344 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:38360 original size:21 final size:21
Alignment explanation
Indices: 38330--38412 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
38320 ATTTTCATAT
*
38330 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
38351 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
38372 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
38393 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
38413 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:38403 original size:42 final size:43
Alignment explanation
Indices: 38310--38408 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
38300 ATTTATGTGT
* *
38310 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
38351 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
38393 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
38409 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:39293 original size:21 final size:23
Alignment explanation
Indices: 39253--39294 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39243 GTTATAAAAC
*
39253 TAAAATTTATGTATGAAATATCA
1 TAAAATATATGTATGAAATATCA
39276 TAAAATATAT-TA-GAAATAT
1 TAAAATATATGTATGAAATAT
39295 TAGAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAAATATATGTATGAAATATCA
Found at i:44821 original size:62 final size:62
Alignment explanation
Indices: 44724--44847 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
44714 TTATTTTTAC
* *
44724 GAATAATCATCGAAAACACCTTTATTGTCGGTTAATGCGCATTTTCATAGATTTCCCATGCA
1 GAATAATCATCGAAAACACCTTCATTGTCAGTTAATGCGCATTTTCATAGATTTCCCATGCA
44786 GAATAATCATCGAAAACACCTTCATTGTCAGTTAATGCGCATTTTCATAGATTTCCCATGCA
1 GAATAATCATCGAAAACACCTTCATTGTCAGTTAATGCGCATTTTCATAGATTTCCCATGCA
44848 AAATCATATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (62 bp):
GAATAATCATCGAAAACACCTTCATTGTCAGTTAATGCGCATTTTCATAGATTTCCCATGCA
Found at i:46484 original size:6 final size:6
Alignment explanation
Indices: 46473--46504 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
46463 GACTCCTGAT
46473 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GA
46505 CTAGTTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:49980 original size:12 final size:12
Alignment explanation
Indices: 49963--49988 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49953 TACTCAGGAC
49963 GACGACGACGAT
1 GACGACGACGAT
49975 GACGACGACGAT
1 GACGACGACGAT
49987 GA
1 GA
49989 TAGTGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.35, T:0.08
Consensus pattern (12 bp):
GACGACGACGAT
Found at i:53995 original size:51 final size:49
Alignment explanation
Indices: 53881--54007 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
53871 ATAATTATAC
** *
53881 AAGGCGCGGTACCTGCACCGCGCCT-TATATAATTATATCAGTTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCG-CTATATATAATTATATCAGTTAAAGGT
* * *
53930 ATGGCGTGGCCCCTGCCCCGCGCTATATATAATTATGTCAGAATTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCAG--TTAAAGGT
* *
53981 AAGGCGCGGCCCCTGACCCACGCTATA
1 AAGGCGCGGCCCCTGCCCCGCGCTATA
54008 CCCCTACGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 2 0.03
49 32 0.49
51 31 0.48
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (49 bp):
AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCAGTTAAAGGT
Found at i:54522 original size:23 final size:23
Alignment explanation
Indices: 54482--54559 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
54472 ACAACAACTG
* * *
54482 GCAAGCACCAATGTATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
54505 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
54528 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
54551 GCAAGCATC
1 GCAAGCATC
54560 CTGCATTAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (23 bp):
GCAAGCATCATTGCATCAATTCA
Found at i:54687 original size:20 final size:20
Alignment explanation
Indices: 54664--54705 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
54654 TATCAAGTAT
* *
54664 AAGCAAACATTATCAAACAG
1 AAGCAAACAATATAAAACAG
54684 AAGCAAACAATATAAAACAG
1 AAGCAAACAATATAAAACAG
54704 AA
1 AA
54706 TAAAGCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.12
Consensus pattern (20 bp):
AAGCAAACAATATAAAACAG
Found at i:57379 original size:18 final size:18
Alignment explanation
Indices: 57288--57379 Score: 87
Period size: 18 Copynumber: 5.2 Consensus size: 18
57278 ATTTCAAATA
* * *
57288 GTTTGGATTCGGGTTCGG
1 GTTTGGGTTCGGATTTGG
* * *
57306 GTTTGGATT-GGGTTAGG
1 GTTTGGGTTCGGATTTGG
* *
57323 GTTAGGGTTCGAATTTGG
1 GTTTGGGTTCGGATTTGG
*
57341 GTTTGGGTTCGGAATTGG
1 GTTTGGGTTCGGATTTGG
*
57359 GTTTGGGTTCGGATTTTG
1 GTTTGGGTTCGGATTTGG
57377 GTT
1 GTT
57380 CAAGTTTATG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
17 14 0.23
18 48 0.77
ACGTcount: A:0.10, C:0.05, G:0.42, T:0.42
Consensus pattern (18 bp):
GTTTGGGTTCGGATTTGG
Found at i:58161 original size:61 final size:61
Alignment explanation
Indices: 58084--58220 Score: 202
Period size: 61 Copynumber: 2.2 Consensus size: 61
58074 TTTTAGTTTT
* * * *
58084 AAATTTATTTAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTGATATTTC
1 AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
* ** *
58145 AAATTTCTTCAATTTAGTCCAAATTTAATTTTACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
58206 AAATTTATTCAATTT
1 AAATTTATTCAATTT
58221 GATCCTTACA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.48
Consensus pattern (61 bp):
AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
Found at i:58328 original size:11 final size:11
Alignment explanation
Indices: 58307--58451 Score: 51
Period size: 11 Copynumber: 13.0 Consensus size: 11
58297 CTAATGAACT
58307 ATATAATATATA
1 ATAT-ATATATA
*
58319 ATTTATATATA
1 ATATATATATA
58330 ATATATAGT-T-
1 ATATATA-TATA
58340 -TATATATACTA
1 ATATATATA-TA
58351 ATGA-ACTATATA
1 AT-ATA-TATATA
58363 ATATATAGT-T-
1 ATATATA-TATA
58373 -TATATATACTA
1 ATATATATA-TA
58384 ATGAACTATATATA
1 AT--A-TATATATA
*
58398 ATGTATAGT-T-
1 ATATATA-TATA
*
58408 -TATATATACA
1 ATATATATATA
*
58418 ATATAGTTTAT-
1 ATATA-TATATA
58429 ATATACTATATA
1 ATATA-TATATA
*
58441 ATTTATATATA
1 ATATATATATA
58452 TTAATGAACT
Statistics
Matches: 101, Mismatches: 10, Indels: 45
0.65 0.06 0.29
Matches are distributed among these distances:
8 3 0.03
9 17 0.17
10 2 0.02
11 42 0.42
12 21 0.21
13 5 0.05
14 5 0.05
15 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (11 bp):
ATATATATATA
Found at i:58329 original size:18 final size:18
Alignment explanation
Indices: 58306--58585 Score: 146
Period size: 18 Copynumber: 16.3 Consensus size: 18
58296 ACTAATGAAC
58306 TATATAATATATAATTTA
1 TATATAATATATAATTTA
*
58324 TATATAATATATAGTTTA
1 TATATAATATATAATTTA
* *
58342 TATATACTA-ATGAA---C
1 TATATAATATAT-AATTTA
*
58357 TATATAATATATAGTTTA
1 TATATAATATATAATTTA
* *
58375 TATATACTA-ATGAA-CTA
1 TATATAATATAT-AATTTA
* *
58392 TATATAATGTATAGTTTA
1 TATATAATATATAATTTA
*
58410 TATATACA-ATATAGTTTA
1 TATATA-ATATATAATTTA
*
58428 TATATACTATATAATTTA
1 TATATAATATATAATTTA
* *
58446 TATATATTA-ATGAA---C
1 TATATAATATAT-AATTTA
* *
58461 TATATAATGTATAGTTTA
1 TATATAATATATAATTTA
** **
58479 TATATGCTA-ATAAACT-
1 TATATAATATATAATTTA
*
58495 T-TATAATATATAGTTTA
1 TATATAATATATAATTTA
*
58512 TATATATTATATAATTTA
1 TATATAATATATAATTTA
* * *
58530 CATATACTA-ATAA---C
1 TATATAATATATAATTTA
* *
58544 TATATAATATATAGTTTG
1 TATATAATATATAATTTA
** *
58562 TATATACCATATACTTTA
1 TATATAATATATAATTTA
58580 TATATA
1 TATATA
58586 TAGTTTTTAT
Statistics
Matches: 193, Mismatches: 47, Indels: 44
0.68 0.17 0.15
Matches are distributed among these distances:
14 7 0.04
15 25 0.13
16 9 0.05
17 25 0.13
18 126 0.65
19 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATAATATATAATTTA
Found at i:58333 original size:51 final size:51
Alignment explanation
Indices: 58277--58483 Score: 217
Period size: 51 Copynumber: 4.0 Consensus size: 51
58267 ATTAATAAAT
*
58277 TAATATATAGGTTATATATACTAATGAACTATATAATATATAATTTATATA
1 TAATATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATA
*
58328 TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
1 TAATATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATA
* * * *
58379 TACTA-AT--G-AACTATATA-TAATGTATAGTTTATATATACAATATAGTTTATATA
1 TAATATATAGGTTA-TATATACTAATG-A-A--CTATATA-A-TATATAGTTTATATA
* ** * *
58432 TACTATATAATTTATATATATTAATGAACTATATAATGTATAGTTTATATA
1 TAATATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATA
58483 T
1 T
58484 GCTAATAAAC
Statistics
Matches: 132, Mismatches: 12, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
47 6 0.05
48 7 0.05
49 1 0.01
50 2 0.02
51 73 0.55
52 2 0.02
53 25 0.19
54 2 0.02
55 1 0.01
56 7 0.05
57 6 0.05
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (51 bp):
TAATATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATA
Found at i:58361 original size:33 final size:33
Alignment explanation
Indices: 58324--58517 Score: 239
Period size: 33 Copynumber: 5.7 Consensus size: 33
58314 ATATAATTTA
58324 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
58357 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
58390 TATATATAATGTATAGTTTATATATAC-AAT-ATAGTT
1 --TATATAATATATAGTTTATATATACTAATGA-A--C
* *
58426 TATATATACTATATAATTTATATATATTAATGAAC
1 TATATA-A-TATATAGTTTATATATACTAATGAAC
* * *
58461 TATATAATGTATAGTTTATATATGCTAATAAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
58494 TTTATAATATATAGTTTATATATA
1 TATATAATATATAGTTTATATATA
58518 TTATATAATT
Statistics
Matches: 138, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
33 76 0.55
34 11 0.08
35 31 0.22
36 15 0.11
37 4 0.03
38 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:58411 original size:86 final size:84
Alignment explanation
Indices: 58277--58436 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 84
58267 ATTAATAAAT
58277 TAATATATAGGTTATATATACTAATGAACTATATAATATATAATTTATATATA-ATATATAGTTT
1 TAATATATAGGTTATATATACTAATGAACTATATAATATATAATTTATATATACA-ATATAGTTT
58341 ATATATACTAATGAACTATA
65 ATATATACTAATGAACTATA
* * *
58361 TAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTTTATATATACAATATAGTT
1 TAATATATAGGTTATATATACTAATGAAC--TATATAATATATAATTTATATATACAATATAGTT
58426 TATATATACTA
64 TATATATACTA
58437 TATAATTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
84 28 0.40
86 41 0.59
87 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (84 bp):
TAATATATAGGTTATATATACTAATGAACTATATAATATATAATTTATATATACAATATAGTTTA
TATATACTAATGAACTATA
Found at i:58429 original size:104 final size:101
Alignment explanation
Indices: 58306--58535 Score: 325
Period size: 104 Copynumber: 2.2 Consensus size: 101
58296 ACTAATGAAC
*
58306 TATATAATATATAATTTATATATAATATATAGTTTATATATACTAATGAACTATATAATATATAG
1 TATATAA-ATATAATTTATATATAATATATAATTTATATATACTAATGAACTATATAATATATAG
* *
58371 TTTATATATACTAATGAACTATATATAATGTATAGTTTA
65 TTTATATATACTAATAAACT-T-TATAATATATAGTTTA
* * * *
58410 TATATACAATATAGTTTATATATACTATATAATTTATATATATTAATGAACTATATAATGTATAG
1 TATATA-AATATAATTTATATATAATATATAATTTATATATACTAATGAACTATATAATATATAG
*
58475 TTTATATATGCTAATAAACTTTATAATATATAGTTTA
65 TTTATATATACTAATAAACTTTATAATATATAGTTTA
* *
58512 TATATATTATATAATTTACATATA
1 TATATA-AATATAATTTATATATA
58536 CTAATAACTA
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
102 35 0.31
103 1 0.01
104 76 0.67
105 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (101 bp):
TATATAAATATAATTTATATATAATATATAATTTATATATACTAATGAACTATATAATATATAGT
TTATATATACTAATAAACTTTATAATATATAGTTTA
Found at i:58567 original size:32 final size:32
Alignment explanation
Indices: 58512--58598 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 32
58502 ATATAGTTTA
* * *
58512 TATATATTATATAATTTACATATACTAATA-AC
1 TATATAATATATAGTTTATATATAC-AATATAC
* *
58544 TATATAATATATAGTTTGTATATACCATATAC
1 TATATAATATATAGTTTATATATACAATATAC
* *
58576 TTTAT-ATATATAGTTTTTATATA
1 TATATAATATATAGTTTATATATA
58599 TAGTTCATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 20 0.43
32 27 0.57
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (32 bp):
TATATAATATATAGTTTATATATACAATATAC
Found at i:58601 original size:13 final size:13
Alignment explanation
Indices: 58570--58608 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
58560 TGTATATACC
*
58570 ATATACTTTATAT
1 ATATAGTTTATAT
*
58583 ATATAGTTTTTAT
1 ATATAGTTTATAT
*
58596 ATATAGTTCATAT
1 ATATAGTTTATAT
58609 GTAAACTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:58647 original size:18 final size:18
Alignment explanation
Indices: 58595--58649 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
58585 ATAGTTTTTA
*
58595 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
58615 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
58633 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
58650 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:58652 original size:18 final size:17
Alignment explanation
Indices: 58612--58656 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
58602 TTCATATGTA
58612 AACTATATAGTATATAT
1 AACTATATAGTATATAT
58629 AAACTATATATGTAGTATAT
1 -AACTATATA-GTA-TATAT
58649 -ACTATATA
1 AACTATATA
58657 AATCGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.68
19 3 0.12
20 5 0.20
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (17 bp):
AACTATATAGTATATAT
Found at i:58797 original size:11 final size:10
Alignment explanation
Indices: 58781--58831 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
58771 TATATGGTTT
58781 TTATATATAG
1 TTATATATAG
* *
58791 TTCATATGTAAA
1 TT-ATATAT-AG
58803 TTATATATAG
1 TTATATATAG
58813 -TATATATAG
1 TTATATATAG
58822 TTTATATATA
1 -TTATATATA
58832 TATAGAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 9 0.27
10 3 0.09
11 18 0.55
12 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (10 bp):
TTATATATAG
Found at i:58797 original size:22 final size:20
Alignment explanation
Indices: 58764--58833 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
58754 ATCAACTATA
58764 ATATAGTTATATGGTTTTTAT
1 ATATAGTTATAT-GTTTTTAT
**
58785 ATATAGTTCATATGTAAATTAT
1 ATATAGTT-ATATGT-TTTTAT
*
58807 ATATAGTATATATAGTTTATAT
1 ATATAGT-TATAT-GTTTTTAT
58829 ATATA
1 ATATA
58834 TAGAGTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.25
22 27 0.68
23 3 0.08
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (20 bp):
ATATAGTTATATGTTTTTAT
Found at i:58818 original size:7 final size:6
Alignment explanation
Indices: 58804--58911 Score: 54
Period size: 7 Copynumber: 16.3 Consensus size: 6
58794 ATATGTAAAT
* * * *
58804 TATATA TAGTATA TATAGTT TATATA TATATA GAGTATA TAAATA TAAACTA
1 TATATA TA-TATA TATA-TA TATATA TATATA TA-TATA TATATA TATA-TA
* * * *
58856 TAGTATG TAGTATA TAAATA TAAACTA TAGTTTA TATATA TAGTATA TACTATA
1 TA-TATA TA-TATA TATATA TATA-TA TA-TATA TATATA TA-TATA TA-TATA
58910 TA
1 TA
58912 AATAGTTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
6 31 0.38
7 49 0.60
8 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:58833 original size:15 final size:15
Alignment explanation
Indices: 58808--58850 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
58798 GTAAATTATA
**
58808 TATAGTATATATAGTT
1 TATA-TATATATAGAG
58824 TATATATATATAGAG
1 TATATATATATAGAG
*
58839 TATATAAATATA
1 TATATATATATA
58851 AACTATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
TATATATATATAGAG
Found at i:58858 original size:46 final size:48
Alignment explanation
Indices: 58733--58861 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 48
58723 TAGTATAAAT
* * * *
58733 TATAT-TATATAGTATATAAATATCAACTATAATATAGTTATATGGTTTT
1 TATATATATACAGTATATAAATATAAACTATAGTATAG-TATA-GGTTTA
* * *
58782 TATATATAGTTCA-TATGTAAAT-TATA-TATAGTATA-TATA-GTTTA
1 TATATATA-TACAGTATATAAATATAAACTATAGTATAGTATAGGTTTA
*
58826 TATATATATAGAGTATATAAATATAAACTATAGTAT
1 TATATATATACAGTATATAAATATAAACTATAGTAT
58862 GTAGTATATA
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.03
44 20 0.31
45 3 0.05
46 12 0.19
48 8 0.12
49 7 0.11
50 10 0.16
51 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (48 bp):
TATATATATACAGTATATAAATATAAACTATAGTATAGTATAGGTTTA
Found at i:58877 original size:20 final size:20
Alignment explanation
Indices: 58826--58915 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
58816 ATATAGTTTA
* *
58826 TATATATATAGAGTATATA-
1 TATATAAATATAGTATATAG
* *
58845 AATATAAACTATAGTATGTAG
1 TATATAAA-TATAGTATATAG
*
58866 TATATAAATATA-AACTATAG
1 TATATAAATATAGTA-TATAG
* * *
58886 TTTATATATATAGTATATAC
1 TATATAAATATAGTATATAG
58906 TATATAAATA
1 TATATAAATA
58916 GTTTATATAG
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
19 7 0.13
20 39 0.72
21 8 0.15
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (20 bp):
TATATAAATATAGTATATAG
Found at i:58924 original size:2 final size:2
Alignment explanation
Indices: 58804--58911 Score: 54
Period size: 2 Copynumber: 49.0 Consensus size: 2
58794 ATATGTAAAT
* * *
58804 TA TA TA TA GTA TA TA TA GTT TA TA TA TA TA TA GA GTA TA TA AA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
58847 TA TA AA CTA TA GTA TG TA GTA TA TA AA TA TA AA CTA TA GTT TA TA
1 TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA
58892 TA TA TA GTA TA TA CTA TA TA
1 TA TA TA -TA TA TA -TA TA TA
58912 AATAGTTTAT
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
2 65 0.81
3 15 0.19
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (2 bp):
TA
Found at i:58955 original size:26 final size:26
Alignment explanation
Indices: 58919--58968 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
58909 ATAAATAGTT
58919 TATATAGTTCACTA-ATAAACTATATA
1 TATATAGTTCA-TATATAAACTATATA
*
58945 TATATAGTTCATATGTAAACTATA
1 TATATAGTTCATATATAAACTATA
58969 ATTCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (26 bp):
TATATAGTTCATATATAAACTATATA
Found at i:59012 original size:18 final size:18
Alignment explanation
Indices: 58947--59028 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 18
58937 ACTATATATA
58947 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
58965 TATAATTCATATGTAAATATC
1 TATAGTTCATATGT-AA-A-C
*
58986 AATTATAGTTTATATGTAAAC
1 ---TATAGTTCATATGTAAAC
*
59007 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
59025 TATA
1 TATA
59029 TAGTTTAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 1 0.02
18 32 0.60
19 2 0.04
20 1 0.02
21 2 0.04
22 1 0.02
23 2 0.04
24 12 0.23
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:59126 original size:22 final size:22
Alignment explanation
Indices: 59101--59154 Score: 85
Period size: 20 Copynumber: 2.5 Consensus size: 22
59091 ATATAGTTTA
*
59101 TATAGTTTATATAAATATCAAC
1 TATAGTTTATATAAATATAAAC
59123 TATAG--TATATAAATATAAAC
1 TATAGTTTATATAAATATAAAC
59143 TATAGTTTATAT
1 TATAGTTTATAT
59155 GTAGTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 19 0.66
22 10 0.34
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (22 bp):
TATAGTTTATATAAATATAAAC
Found at i:59206 original size:24 final size:24
Alignment explanation
Indices: 59166--59228 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
59156 TAGTATATAC
* *
59166 TATATAAA-TAGTTTATATAGTTCA
1 TATATAAACTA-TATATATAATTCA
59190 CTA-ATAAACTATATATATAATTCA
1 -TATATAAACTATATATATAATTCA
*
59214 TATGTAAACTATATA
1 TATATAAACTATATA
59229 GTTTATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (24 bp):
TATATAAACTATATATATAATTCA
Found at i:59241 original size:13 final size:13
Alignment explanation
Indices: 59223--59250 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59213 ATATGTAAAC
59223 TATATAGTTTATA
1 TATATAGTTTATA
59236 TATATAGTTTATA
1 TATATAGTTTATA
59249 TA
1 TA
59251 GTTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:59242 original size:211 final size:206
Alignment explanation
Indices: 58997--59444 Score: 507
Period size: 211 Copynumber: 2.1 Consensus size: 206
58987 ATTATAGTTT
58997 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTAAGTATAG-TTTATATATAATTCATAT
1 ATATGTAAACTATA--TAGT-T-TAAACTATATAGTTT-A-TATAGTTTTATATATAATTCATAT
* * *
59061 -CATATGTAAACTATAGT-T-CATATATCAACTATATAGT-TTATATAGTTTATATAAATATCAA
60 GCAAAT-TAAACTATA-TATAC-TATATCAA-TATATA-TAATATATAG--TACATAAATATCAA
*
59122 C-TA-TAGTATATAAATATAAACTATAGTTTATATGTAGTATATACTATATAAATAGTTTATATA
118 CATAGTAGTATATAAATATAAACTATAATTTATA--TA-TATATA-TATATAAATAGTTTATATA
* * *
59185 GTTCACTAATAAACTATATATATAATTC
179 ATTCACTAATAAACTATATAAATAAGTC
* * *
59213 ATATGTAAACTATATAGTTTATA-TATATAGTTTATATAGTTTTTATATATAGTTCATATGTAAA
1 ATATGTAAACTATATAGTTTAAACTATATAGTTTATATAG-TTTTATATATAATTCATATGCAAA
* **
59277 TTATACTATATATACTATATTTATATATATAATATATAGTACATAAATATCAACTATAGTATGTA
65 TTAAACTATATATACTATATCAATATATATAATATATAGTACATAAATATCAAC---A-TA-GTA
59342 GTATATAAATATAAACTATAATTTATATATATATATATATAAATAGTTTATATAATTCACTAATA
125 GTATATAAATATAAACTATAATTTATATATATATATATATAAATAGTTTATATAATTCACTAATA
*
59407 AACTATATAAATAGGTC
190 AACTATATAAATAAGTC
59424 ATATGTAAACTATATAGTTTA
1 ATATGTAAACTATATAGTTTA
59445 CATAATTCAT
Statistics
Matches: 205, Mismatches: 14, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
208 14 0.07
209 6 0.03
210 15 0.07
211 106 0.52
212 13 0.06
213 5 0.02
214 4 0.02
215 28 0.14
216 14 0.07
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (206 bp):
ATATGTAAACTATATAGTTTAAACTATATAGTTTATATAGTTTTATATATAATTCATATGCAAAT
TAAACTATATATACTATATCAATATATATAATATATAGTACATAAATATCAACATAGTAGTATAT
AAATATAAACTATAATTTATATATATATATATATAAATAGTTTATATAATTCACTAATAAACTAT
ATAAATAAGTC
Found at i:59248 original size:22 final size:22
Alignment explanation
Indices: 59223--59271 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
59213 ATATGTAAAC
59223 TATATAGTTTATATATATAGTT
1 TATATAGTTTATATATATAGTT
*
59245 TATATAGTTTTTATATATAGTT
1 TATATAGTTTATATATATAGTT
*
59267 CATAT
1 TATAT
59272 GTAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (22 bp):
TATATAGTTTATATATATAGTT
Found at i:59261 original size:13 final size:13
Alignment explanation
Indices: 59223--59266 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
59213 ATATGTAAAC
*
59223 TATATAGTTTATA
1 TATATAGTTTTTA
59236 TATATAG---TT-
1 TATATAGTTTTTA
59245 TATATAGTTTTTA
1 TATATAGTTTTTA
59258 TATATAGTT
1 TATATAGTT
59267 CATATGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
9 7 0.27
10 1 0.04
12 2 0.08
13 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (13 bp):
TATATAGTTTTTA
Found at i:59343 original size:27 final size:27
Alignment explanation
Indices: 59304--59368 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
59294 TATTTATATA
*
59304 TATAATATATAGTACATAAATATCAAC
1 TATAATATATAGTACATAAATATAAAC
* * *
59331 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTACATAAATATAAAC
*
59358 TATAATTTATA
1 TATAATATATA
59369 TATATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (27 bp):
TATAATATATAGTACATAAATATAAAC
Found at i:59395 original size:2 final size:2
Alignment explanation
Indices: 59278--59382 Score: 54
Period size: 2 Copynumber: 50.0 Consensus size: 2
59268 ATATGTAAAT
* *
59278 TA TA CTA TA TA TA CTA TA TT TA TA TA TA TA -A TA TA TA GTA CA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
59320 TA AA TA TCA -A CTA TA GTA TG TA GTA TA TA AA TA TA AA CTA TA -A
1 TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA
*
59363 TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
59383 AATAGTTTAT
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
1 3 0.04
2 62 0.79
3 13 0.17
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:59482 original size:22 final size:22
Alignment explanation
Indices: 59435--59482 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
59425 TATGTAAACT
*
59435 ATATAGTTTACATAATTCATAT
1 ATATAGTTTACATAATTCATAC
* * *
59457 ATATAGTTTATATAGTTTATAC
1 ATATAGTTTACATAATTCATAC
59479 ATAT
1 ATAT
59483 TCATATGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (22 bp):
ATATAGTTTACATAATTCATAC
Found at i:59639 original size:22 final size:20
Alignment explanation
Indices: 59617--59691 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 20
59607 ATACAATATA
*
59617 TTATTTATAATTGTATATAAT
1 TTATATATAATT-TATATAAT
* *
59638 ATATAAATATAAATTATATAAT
1 -T-TATATATAATTTATATAAT
59660 TTATATATAATTCATATATAAT
1 TTATATATAATT--TATATAAT
59682 TTATAT-TAAT
1 TTATATATAAT
59692 AAGCTATGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.20
21 5 0.11
22 23 0.51
23 8 0.18
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
TTATATATAATTTATATAAT
Found at i:59668 original size:11 final size:11
Alignment explanation
Indices: 59652--59691 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
59642 AAATATAAAT
59652 TATATAATTTA
1 TATATAATTTA
*
59663 TATATAATTCA
1 TATATAATTTA
59674 TATATAATTTA
1 TATATAATTTA
59685 TAT-TAAT
1 TATATAAT
59692 AAGCTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TATATAATTTA
Found at i:59687 original size:46 final size:46
Alignment explanation
Indices: 59598--59686 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
59588 TTAATAAACT
* *
59598 ATATAAATTATACAATATATTATTTATAATTGTATATAATATATAA
1 ATATAAATTATACAATATATTATATATAATTATATATAATATATAA
* *
59644 ATATAAATTATA-TA-AT-TTATATATAATTCATATATAATTTATA
1 ATATAAATTATACAATATATTATATATAATT-ATATATAATATATA
59687 TTAATAAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 11 0.29
44 14 0.37
45 1 0.03
46 12 0.32
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (46 bp):
ATATAAATTATACAATATATTATATATAATTATATATAATATATAA
Found at i:59764 original size:18 final size:18
Alignment explanation
Indices: 59741--59809 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
59731 TATATAGTAT
*
59741 TAGTTTATACATGATATA
1 TAGTTTATACATAATATA
59759 TAGTTTATACATAATATA
1 TAGTTTATACATAATATA
* * *
59777 TA-TATATA-TTTATATA
1 TAGTTTATACATAATATA
*
59793 TAGTATATA-ATAATATA
1 TAGTTTATACATAATATA
59810 AATAAACTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
16 8 0.18
17 17 0.39
18 19 0.43
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TAGTTTATACATAATATA
Found at i:59777 original size:2 final size:2
Alignment explanation
Indices: 59754--59853 Score: 55
Period size: 2 Copynumber: 49.5 Consensus size: 2
59744 TTTATACATG
* * *
59754 AT AT AT AGT TT AT AC AT A- AT AT AT AT AT AT AT TT AT AT AT AGT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
59797 AT AT A- AT A- AT AT AA AT AA ACT AT AC AA ACT AT AT AGT TT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT
59838 AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
59854 GTTGTTTCAA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
1 4 0.05
2 64 0.86
3 6 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:61112 original size:14 final size:15
Alignment explanation
Indices: 61089--61155 Score: 91
Period size: 16 Copynumber: 4.4 Consensus size: 15
61079 TAATTGAAAT
* *
61089 TATTAAATAT-TAAA
1 TATTATATATATATA
61103 TATTATATATATATA
1 TATTATATATATATA
61118 TATATATATATATATA
1 TAT-TATATATATATA
61134 TATATATATATATATA
1 TAT-TATATATATATA
61150 TATTAT
1 TATTAT
61156 TTAGCTTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
14 9 0.18
15 9 0.18
16 31 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATATATATATA
Found at i:61113 original size:2 final size:2
Alignment explanation
Indices: 61102--61152 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
61092 TAAATATTAA
61102 AT AT -T 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
61143 AT AT AT AT AT
1 AT AT AT AT AT
61153 TATTTAGCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:65353 original size:10 final size:10
Alignment explanation
Indices: 65338--65363 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
65328 AAATTAAAAC
65338 AATGTAATGA
1 AATGTAATGA
65348 AATGTAATGA
1 AATGTAATGA
65358 AATGTA
1 AATGTA
65364 TAATGCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (10 bp):
AATGTAATGA
Found at i:66180 original size:23 final size:24
Alignment explanation
Indices: 66154--66206 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
66144 CTGCGGATAA
* *
66154 AGTTTCAAT-ATAAAAATGGGTGG
1 AGTTTCAATAAAAAAAATGGGTAG
*
66177 AGTTTCAGTAAAAAAAATGGGTAG
1 AGTTTCAATAAAAAAAATGGGTAG
66201 AGTTTC
1 AGTTTC
66207 GTACTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (24 bp):
AGTTTCAATAAAAAAAATGGGTAG
Found at i:68348 original size:23 final size:23
Alignment explanation
Indices: 68305--68350 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
68295 AAAACATAAA
* *
68305 TAAAAAGAATAATGTGTCAATTT
1 TAAAAAAAATAATGTGCCAATTT
68328 TAAAAAAAATAA-GTGACCAATTT
1 TAAAAAAAATAATGTG-CCAATTT
68351 GTCAATACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (23 bp):
TAAAAAAAATAATGTGCCAATTT
Found at i:68512 original size:18 final size:19
Alignment explanation
Indices: 68470--68514 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
68460 TTTGGTTCAC
* *
68470 GGAATATAAGATTACCGGT
1 GGAATAAAAGATTACCAGT
68489 GGGAATAAAAGATTACCAGT
1 -GGAATAAAAGATTACCAGT
68509 -GAATAA
1 GGAATAA
68515 GATTATTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
20 17 0.74
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.22
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGT
Found at i:70020 original size:19 final size:19
Alignment explanation
Indices: 69996--70033 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
69986 TGACTGCGAA
69996 TGGCTCTGACTTAATTATC
1 TGGCTCTGACTTAATTATC
70015 TGGCTCTGACTTAATTATC
1 TGGCTCTGACTTAATTATC
70034 GATTGCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (19 bp):
TGGCTCTGACTTAATTATC
Found at i:73948 original size:15 final size:15
Alignment explanation
Indices: 73928--73957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73918 GATTAATATA
73928 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
73943 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
73958 GTATTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:78769 original size:14 final size:14
Alignment explanation
Indices: 78750--78776 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78740 AACAGACTAT
78750 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
78764 TCTGTTTTCTACA
1 TCTGTTTTCTACA
78777 CATTGAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:84642 original size:21 final size:23
Alignment explanation
Indices: 84618--84668 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
84608 AAGGAATCGA
84618 TCCCCCCTTG-A-GGGAACCAAT
1 TCCCCCCTTGAAGGGGAACCAAT
* *
84639 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCTTGAAGGGGAACCAAT
84662 TCCCCCC
1 TCCCCCC
84669 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20
Consensus pattern (23 bp):
TCCCCCCTTGAAGGGGAACCAAT
Found at i:88037 original size:24 final size:24
Alignment explanation
Indices: 88005--88060 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
87995 CATGCTATTT
88005 TTCATTCAGTTCAAAAATTTTAAC
1 TTCATTCAGTTCAAAAATTTTAAC
*
88029 TTCATTCAGTTCAAAATTTTTAAC
1 TTCATTCAGTTCAAAAATTTTAAC
88053 TTCATTCA
1 TTCATTCA
88061 AATAGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TTCATTCAGTTCAAAAATTTTAAC
Found at i:89387 original size:15 final size:15
Alignment explanation
Indices: 89367--89398 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
89357 GTTCAGCAAC
89367 TAAGCCCTTTTCAAG
1 TAAGCCCTTTTCAAG
89382 TAAGCCCTTTTCAAG
1 TAAGCCCTTTTCAAG
89397 TA
1 TA
89399 GAAGGTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (15 bp):
TAAGCCCTTTTCAAG
Found at i:91519 original size:19 final size:21
Alignment explanation
Indices: 91495--91534 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
91485 TGACTAGTTT
91495 ATATTT-TTTA-TAATTATTG
1 ATATTTATTTATTAATTATTG
91514 ATATTTAATTTATTAATTATT
1 ATATTT-ATTTATTAATTATT
91535 AATTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATTTATTTATTAATTATTG
Found at i:103590 original size:21 final size:22
Alignment explanation
Indices: 103554--103598 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
103544 ATCAGGATTG
103554 GTGGCGACTCTTCGAAACATAT
1 GTGGCGACTCTTCGAAACATAT
103576 GTGGCGACT-TTCGAAACATAT
1 GTGGCGACTCTTCGAAACATAT
103597 GT
1 GT
103599 TTTTTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (22 bp):
GTGGCGACTCTTCGAAACATAT
Done.