Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005960.1 Hibiscus syriacus cultivar Beakdansim tig00014004_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: 221916
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:13315 original size:2 final size:2
Alignment explanation
Indices: 13303--13344 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
13293 TAGATTGTTA
13303 AT AT A- 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
13344 A
1 A
13345 AAATAAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17883 original size:2 final size:2
Alignment explanation
Indices: 17878--17902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17868 TTTTTGGCCA
17878 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17903 AAAACTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19181 original size:19 final size:20
Alignment explanation
Indices: 19140--19181 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
19130 TTTACATTTG
*
19140 ATATAAATACAATATTAACTT
1 ATATAAATACAATA-TAAATT
*
19161 ATATGAATACAATA-AAATT
1 ATATAAATACAATATAAATT
19180 AT
1 AT
19182 GATTAGCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATAAATACAATATAAATT
Found at i:22119 original size:13 final size:13
Alignment explanation
Indices: 22082--22130 Score: 64
Period size: 13 Copynumber: 3.6 Consensus size: 13
22072 ATGTTGTTAT
22082 TATTTAATTGTTTG
1 TATTTAA-TGTTTG
22096 -ACTTGTAATGTTTG
1 TA-TT-TAATGTTTG
22110 TATTTAATGTTTG
1 TATTTAATGTTTG
22123 TATTTAAT
1 TATTTAAT
22131 TATTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 18 0.56
14 10 0.31
15 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.59
Consensus pattern (13 bp):
TATTTAATGTTTG
Found at i:24705 original size:19 final size:19
Alignment explanation
Indices: 24683--24728 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
24673 CTGCCTAAAC
24683 CTTAAAACCCTAAA-CCTAA
1 CTTAAAACCC-AAATCCTAA
24702 CTTAAAACCCAAATCCTAA
1 CTTAAAACCCAAATCCTAA
24721 CTTAAAAC
1 CTTAAAAC
24729 TTTAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (19 bp):
CTTAAAACCCAAATCCTAA
Found at i:25845 original size:22 final size:22
Alignment explanation
Indices: 25803--25869 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
25793 ATGTTAACAT
* *
25803 GAAGATATAATTTTAACATAAA
1 GAAGATATAATATTAATATAAA
25825 -AAGATATAATAGTTAATATAAA
1 GAAGATATAATA-TTAATATAAA
* *
25847 GAA-ATCTAATATTAATATCAA
1 GAAGATATAATATTAATATAAA
25868 GA
1 GA
25870 GATGCTATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 21 0.54
22 16 0.41
23 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.31
Consensus pattern (22 bp):
GAAGATATAATATTAATATAAA
Found at i:28767 original size:2 final size:2
Alignment explanation
Indices: 28760--28800 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
28750 TAATAATTTA
28760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28801 CACGAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29018 original size:28 final size:28
Alignment explanation
Indices: 28978--29038 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
28968 AATTTTATAT
* *
28978 GCACATGCACACACACGCACGTACACGC
1 GCACATGCACACACACGCACATACACAC
*
29006 GCACATGCACACACACGTACATACACAC
1 GCACATGCACACACACGCACATACACAC
29034 GCACA
1 GCACA
29039 CCCCACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.41, G:0.15, T:0.08
Consensus pattern (28 bp):
GCACATGCACACACACGCACATACACAC
Found at i:29358 original size:60 final size:60
Alignment explanation
Indices: 29287--29409 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
29277 TAGAGTGAAT
* * * * *
29287 GTCATAATTTAGGGATAAAATTGAAATGTTCAAAAGTTTCA-AGATTAGTTTAAAATGATA
1 GTCATAATTTAGGGATAAAATTAAAATATTCAAAAGTTT-ATAGACTAATTTAAAATGAGA
* ** *
29347 GTCATAGTTTAGGGATAATTTTAAAATATTTAAAAGTTTATAGACTAATTTAAAATGAGA
1 GTCATAATTTAGGGATAAAATTAAAATATTCAAAAGTTTATAGACTAATTTAAAATGAGA
29407 GTC
1 GTC
29410 GTACTTTAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 52 0.98
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (60 bp):
GTCATAATTTAGGGATAAAATTAAAATATTCAAAAGTTTATAGACTAATTTAAAATGAGA
Found at i:30658 original size:12 final size:12
Alignment explanation
Indices: 30637--30670 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30627 ACCACATTTC
*
30637 CAATACCAAACA
1 CAATATCAAACA
30649 CAATATCAAACA
1 CAATATCAAACA
*
30661 CAATCTCAAA
1 CAATATCAAA
30671 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:30847 original size:24 final size:24
Alignment explanation
Indices: 30796--30849 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30786 GTATTCGAAA
*
30796 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
30820 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
30844 TTTGAT
1 TTTGAT
30850 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:33143 original size:18 final size:18
Alignment explanation
Indices: 33111--33145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33101 AGCAAAAGGC
**
33111 AATCAAAATTGCAATCAA
1 AATCAAAATCCCAATCAA
33129 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
33146 CAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:33489 original size:20 final size:20
Alignment explanation
Indices: 33464--33545 Score: 119
Period size: 20 Copynumber: 4.1 Consensus size: 20
33454 CGCGAAATAA
*
33464 GCGTTGCGAATTTGAATTTC
1 GCGTTGCGAATTTGACTTTC
*
33484 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTC
*
33504 GCGTAGCGAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
* *
33524 GCGTTGCGCATTTGACTATC
1 GCGTTGCGAATTTGACTTTC
33544 GC
1 GC
33546 ATATTTCGCG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTC
Found at i:33524 original size:40 final size:40
Alignment explanation
Indices: 33464--33545 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
33454 CGCGAAATAA
*
33464 GCGTTGCGAATTTGAATTTCGCGTTGCGAATTTGACTATC
1 GCGTAGCGAATTTGAATTTCGCGTTGCGAATTTGACTATC
* *
33504 GCGTAGCGAATTTGACTTTCGCGTTGCGCATTTGACTATC
1 GCGTAGCGAATTTGAATTTCGCGTTGCGAATTTGACTATC
33544 GC
1 GC
33546 ATATTTCGCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (40 bp):
GCGTAGCGAATTTGAATTTCGCGTTGCGAATTTGACTATC
Found at i:33669 original size:25 final size:25
Alignment explanation
Indices: 33631--33679 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33621 AAATCAATTA
*
33631 AACATTGTTGTGGGTACATTATTTC
1 AACATTGTTATGGGTACATTATTTC
33656 AACATTGTTATGGGTACATTATTT
1 AACATTGTTATGGGTACATTATTT
33680 GGAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTC
Found at i:34086 original size:6 final size:6
Alignment explanation
Indices: 34067--34105 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
34057 GTAATTGGAG
* * *
34067 TTTGAA TTTAAA TTTCAA TTTGAG TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTT
34106 CAATATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (6 bp):
TTTGAA
Found at i:34086 original size:24 final size:24
Alignment explanation
Indices: 34059--34109 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
34049 TTTCATATGT
34059 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTGAATTTAAATTTC
* *
34083 AATTTGAGTTTGAATTTGAATTTC
1 AATTGGAGTTTGAATTTAAATTTC
34107 AAT
1 AAT
34110 ATAAATTCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (24 bp):
AATTGGAGTTTGAATTTAAATTTC
Found at i:34453 original size:39 final size:39
Alignment explanation
Indices: 34410--34496 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
34400 TCCGATGCTC
34410 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
* *
34449 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
34488 ATCAAAATC
1 ATCAAAATC
34497 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
Found at i:36323 original size:21 final size:21
Alignment explanation
Indices: 36299--36394 Score: 97
Period size: 21 Copynumber: 4.6 Consensus size: 21
36289 GGCAGGACCA
*
36299 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGAGAGGGGCCT
* * *
36320 CTTGAACGATGGGAAGGGCTT
1 CTTGAACGATGAGAGGGGCCT
*
36341 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAACGATGAGAGGGGCCT
*
36362 CTTGAACGAT-AGAAGGCGCCT
1 CTTGAACGATGAG-AGGGGCCT
*
36383 CTTGAATGATGA
1 CTTGAACGATGA
36395 TAGGTGCATC
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.05
21 55 0.92
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:36392 original size:42 final size:42
Alignment explanation
Indices: 36299--36394 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
36289 GGCAGGACCA
* * *
36299 CTTGAACGATGACAGGGGCCTCTTGAACGATGGGAAGGGCTT
1 CTTGAATGATGACAGGGGCCTCTTGAACGATGAGAAGGGCCT
*
36341 CTTCG-ATGATGAGAGGGGCCTCTTGAACGAT-AGAAGGCGCCT
1 CTT-GAATGATGACAGGGGCCTCTTGAACGATGAGAAGG-GCCT
36383 CTTGAATGATGA
1 CTTGAATGATGA
36395 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 6 0.13
42 40 0.85
43 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (42 bp):
CTTGAATGATGACAGGGGCCTCTTGAACGATGAGAAGGGCCT
Found at i:36829 original size:21 final size:21
Alignment explanation
Indices: 36801--36850 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
36791 ACCATTATCT
* *
36801 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCAACCTCA
*
36822 TGACGTAAAGCACCAACCTCA
1 TCACGTAAAGCACCAACCTCA
36843 TCACGTAA
1 TCACGTAA
36851 TTCCCCTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCAACCTCA
Found at i:37457 original size:17 final size:17
Alignment explanation
Indices: 37435--37476 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
37425 TAAATAATTA
37435 ATTATAATTTTGGAAAC
1 ATTATAATTTTGGAAAC
37452 ATTATAATTTTGGAAAC
1 ATTATAATTTTGGAAAC
37469 ATTATAAT
1 ATTATAAT
37477 ATAGAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (17 bp):
ATTATAATTTTGGAAAC
Found at i:38623 original size:19 final size:20
Alignment explanation
Indices: 38599--38638 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
38589 AAATCACAAC
38599 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
*
38618 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
38638 G
1 G
38639 TGAATTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.10, C:0.17, G:0.25, T:0.47
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCGTT
Found at i:38839 original size:22 final size:22
Alignment explanation
Indices: 38808--38854 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
38798 GAGATAGACA
38808 GATTTCGTCGGAAATGGGGACG
1 GATTTCGTCGGAAATGGGGACG
* *
38830 GATTTTGTCGGAGATGGGGACG
1 GATTTCGTCGGAAATGGGGACG
38852 GAT
1 GAT
38855 GTCGCTGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGACG
Found at i:39007 original size:20 final size:20
Alignment explanation
Indices: 38982--39066 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
38972 GCGTAAAAAC
38982 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
39002 ATTTGACTTAT-GTGTTGCG-
1 ATTTGACTT-TCGCGTTGCGA
* * *
39021 ATTT-ACAAATTCGTGTTGTGA
1 ATTTGAC--TTTCGCGTTGCGA
*
39042 ATTTGACTTTCACGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
39062 ATTTG
1 ATTTG
39067 GAAAATCTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 2 0.04
19 5 0.10
20 38 0.73
21 5 0.10
22 2 0.04
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:50927 original size:3 final size:3
Alignment explanation
Indices: 50919--50958 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
50909 TGAAAAATGA
50919 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
50959 ATGTTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:53177 original size:2 final size:2
Alignment explanation
Indices: 53170--53231 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
53160 TGATTAAACG
53170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53212 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
53232 GCTTAAGCTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59340 original size:22 final size:21
Alignment explanation
Indices: 59298--59337 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59288 GAGTTTATTT
*
59298 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
59319 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
59338 ACAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:66649 original size:43 final size:43
Alignment explanation
Indices: 66601--66945 Score: 248
Period size: 43 Copynumber: 8.1 Consensus size: 43
66591 AACAAAAAAT
* *
66601 GCCGCAATAGGTCAATATCTATTA-CGGCGTTTGTT-TAACAAAC
1 GCCGCAAAAGGTCAATATCTA-TAGCGGCGTTT-TTGGAACAAAC
*
66644 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGGAACAAAC
* * * * * *
66687 GCCGCAAAAAGT-TATGATATATAGCGGCGTTTCTAGAAAAAAC
1 GCCGCAAAAGGTCAAT-ATCTATAGCGGCGTTTTTGGAACAAAC
* * **
66730 GCCGCAAAAGGTC-AGATCTATAGCGGCG-TTATCCAA-AAAC
1 GCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGGAACAAAC
* * *
66770 GCCGCAAAAGAG-C-AGACCTATA-CTGGCGTTTTTAGAACAAAC
1 GCCGCAAAAG-GTCAATATCTATAGC-GGCGTTTTTGGAACAAAC
* * **
66812 GCCGCAAAAGGTC-AGACCTATAGCGGATTTTTTGGACACAAAC
1 GCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGGA-ACAAAC
* * * * *
66855 GCTGCTAAAGGTC-AGA-CATATAACGGCGTTTTTGAACACAAAC
1 GCCGCAAAAGGTCAATATC-TATAGCGGCGTTTTTGGA-ACAAAC
* * * * *
66898 GCCGCAAAAAGTC-AGACCTATAGCAGCGTTTTTGGATAAAAAC
1 GCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGGA-ACAAAC
66941 GCCGC
1 GCCGC
66946 TAATTACCTT
Statistics
Matches: 253, Mismatches: 36, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
39 1 0.00
40 27 0.11
41 12 0.05
42 52 0.21
43 160 0.63
44 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (43 bp):
GCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:66855 original size:125 final size:127
Alignment explanation
Indices: 66640--66945 Score: 318
Period size: 125 Copynumber: 2.4 Consensus size: 127
66630 TTTGTTTAAC
* * * * *
66640 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTTATGAT
1 AAACGCCGCAAAAAGTC-AGACCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGAC
* * *
66705 ATATAGCGGCGTTTCTAGAAAAAACGCCGCAAAAGGTCAGATC-TATAGCGGCG-TTAT-CCAA
65 ATATAGCGGAGTTTCTAGAAAAAACGCCGCAAAAGGTCAGA-CATATAACGGCGTTTATAACAA
* *
66766 AAACGCCGCAAAAGAG-CAGACCTATA-CTGGCGTTTTTAGAACAAACGCCGCAAAAGGTCA-GA
1 AAACGCCGCAAAA-AGTCAGACCTATAGC-GGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGA
* * * * * * * *
66828 CCTATAGCGGATTTTTTGGACACAAACGCTGCTAAAGGTCAGACATATAACGGCGTTTTTGAACA
64 CATATAGCGGAGTTTCTAGA-AAAAACGCCGCAAAAGGTCAGACATATAACGGCGTTTAT-AACA
*
66893 C
127 A
* *
66894 AAACGCCGCAAAAAGTCAGACCTATAGCAGCGTTTTTGGATAAAAACGCCGC
1 AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
66946 TAATTACCTT
Statistics
Matches: 148, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
124 18 0.12
125 64 0.43
126 17 0.11
127 3 0.02
128 35 0.24
129 11 0.07
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (127 bp):
AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATGACA
TATAGCGGAGTTTCTAGAAAAAACGCCGCAAAAGGTCAGACATATAACGGCGTTTATAACAA
Found at i:66948 original size:86 final size:85
Alignment explanation
Indices: 66624--66945 Score: 320
Period size: 86 Copynumber: 3.8 Consensus size: 85
66614 AATATCTATT
* * * *
66624 ACGGCGTTTGTT-TAACAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ACAAAC
1 ACGGCGTTT-TTGAAACAAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTGGACAAAAAC
* * *
66687 GCCGCAAAAAGTTATGATATATA
64 GCCGCAAAAGGTCA-GACATATA
* * * * *
66710 GCGGCGTTTCTAGAAA-AAACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTAT--CCAAAAACG
1 ACGGCGTTT-TTGAAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAAAAACG
*
66771 CCGCAAAAGAG-CAGACCTAT-
65 CCGCAAAAG-GTCAGACATATA
** *
66791 ACTGGCGTTTTT-AGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGATTTTTTGGACACAAAC
1 AC-GGCGTTTTTGA-AACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAAAAAC
* *
66855 GCTGCTAAAGGTCAGACATATA
64 GCCGCAAAAGGTCAGACATATA
* * *
66877 ACGGCGTTTTTGAACACAAACGCCGCAAAAAGTCAGACCTATAGCAGCGTTTTTGGATAAAAACG
1 ACGGCGTTTTTGAA-ACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAAAAACG
66942 CCGC
65 CCGC
66946 TAATTACCTT
Statistics
Matches: 193, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
80 1 0.01
81 4 0.02
82 41 0.21
83 18 0.09
84 5 0.03
85 46 0.24
86 76 0.39
87 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (85 bp):
ACGGCGTTTTTGAAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAAAAACGC
CGCAAAAGGTCAGACATATA
Found at i:70022 original size:41 final size:41
Alignment explanation
Indices: 69938--70270 Score: 334
Period size: 41 Copynumber: 8.0 Consensus size: 41
69928 ACAATCAAAT
* *
69938 TACGAGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAG
1 TACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
*
69980 TACGTGTCTATAGCGGTGTTTGTGTAAAAACGCCACTAAAG
1 TACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
** * *
70021 TACGAATCTATAGCGGTGTTTG-GTATTAAAACGCCACAAAAG
1 TACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
***
70063 TACGTGTCTATAGCGGCGTTTGTGTAAAAATATCACTAAAG
1 TACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
* *
70104 TACGAGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAG
1 TACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
* * * * *
70146 TACATATCTATAGCGGCGTTTGTATAAAAATGCCACTAAAA
1 TACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
* * * *
70187 TAC-TAGTTTATAGCGGCGTTTGTATAAAAACGCCACTACAT
1 TACGT-GTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
* * * *
70228 TACGAT-TCTTTAGCGGCGTTTTTATACAAACGCCACTAAAG
1 TACG-TGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
70269 TA
1 TA
70271 TAGTATTTTG
Statistics
Matches: 245, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
40 7 0.03
41 146 0.60
42 83 0.34
43 9 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (41 bp):
TACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
Found at i:70049 original size:83 final size:83
Alignment explanation
Indices: 69938--70270 Score: 454
Period size: 83 Copynumber: 4.0 Consensus size: 83
69928 ACAATCAAAT
*
69938 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGTGTTTGT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
*
70003 GTAAAAACGCCACTAAAG
66 ATAAAAACGCCACTAAAG
* *
70021 TACGAATCTATAGCGGTGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
* ***
70086 GTAAAAATATCACTAAAG
66 ATAAAAACGCCACTAAAG
* *
70104 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACATATCTATAGCGGCGTTTGT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
* *
70169 ATAAAAATGCCACTAAAA
66 ATAAAAACGCCACTAAAG
* * * * * * * *
70187 TACTAGTTTATAGCGGCGTTT-GTATAAAAACGCCACTACATTACGAT-TCTTTAGCGGCGTTTT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACG-TGTCTATAGCGGCGTTTG
*
70250 TATACAAACGCCACTAAAG
65 TATAAAAACGCCACTAAAG
70269 TA
1 TA
70271 TAGTATTTTG
Statistics
Matches: 223, Mismatches: 26, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
82 51 0.23
83 172 0.77
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (83 bp):
TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
ATAAAAACGCCACTAAAG
Found at i:71466 original size:2 final size:2
Alignment explanation
Indices: 71459--71538 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
71449 GATTTCTTGC
71459 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71539 TCGCTTTTCA
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73511 original size:21 final size:20
Alignment explanation
Indices: 73485--73523 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
73475 GTCTTATCTC
73485 TTGCGTTTTAGGTTGTTTTAA
1 TTGCGTTTTAGGTT-TTTTAA
*
73506 TTGCGTTTTTGGTTTTTT
1 TTGCGTTTTAGGTTTTTT
73524 GTCGGCGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.23, T:0.64
Consensus pattern (20 bp):
TTGCGTTTTAGGTTTTTTAA
Found at i:83116 original size:18 final size:18
Alignment explanation
Indices: 83094--83138 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
83084 AGAGTCATCT
83094 TCATCATCAGAACCACT-
1 TCATCATCAGAACCACTA
* *
83111 TCCATCTTCAGAATCACTA
1 T-CATCATCAGAACCACTA
83130 TCATCATCA
1 TCATCATCA
83139 TCCTCACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.29
Consensus pattern (18 bp):
TCATCATCAGAACCACTA
Found at i:86366 original size:2 final size:2
Alignment explanation
Indices: 86359--86389 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86349 ATTTGAAATA
86359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86390 AATTCACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92809 original size:149 final size:149
Alignment explanation
Indices: 92540--92991 Score: 780
Period size: 149 Copynumber: 3.0 Consensus size: 149
92530 GAGTCGAGGG
* * * * * * * *
92540 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGCACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
* *
92604 AATTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
92669 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
92688 TCTACGCGGTCCTTCAGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
92753 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
92818 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
92837 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
92902 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
92967 TAGGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
92986 TCTACG
1 TCTACG
92992 TGCACTTCGG
Statistics
Matches: 289, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
148 47 0.16
149 242 0.84
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:93013 original size:22 final size:22
Alignment explanation
Indices: 92971--93013 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
92961 TTATTATAGG
**
92971 GCACTACGGTGCAATTCTACGT
1 GCACTACGGTGCAATGATACGT
*
92993 GCACTTCGGTGCAATGATACG
1 GCACTACGGTGCAATGATACG
93014 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (22 bp):
GCACTACGGTGCAATGATACGT
Found at i:97095 original size:30 final size:30
Alignment explanation
Indices: 97036--97124 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
97026 CCCGAAGGAC
* * *
97036 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
97065 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
97095 CTGTCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
97125 ACTGTCCATA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 18 0.33
30 36 0.67
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:97131 original size:31 final size:30
Alignment explanation
Indices: 97059--97132 Score: 121
Period size: 30 Copynumber: 2.4 Consensus size: 30
97049 ACACAGACCC
* *
97059 CGGTAACTATCCAGAGGTCATAAAGATCCT
1 CGGTAACTGTCCAAAGGTCATAAAGATCCT
97089 CGGTAACTGTCCAAAGGTCATAAAGATCCT
1 CGGTAACTGTCCAAAGGTCATAAAGATCCT
97119 CGGTAAACTGTCCA
1 CGGT-AACTGTCCA
97133 TATGTTCCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 32 0.78
31 9 0.22
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (30 bp):
CGGTAACTGTCCAAAGGTCATAAAGATCCT
Found at i:97160 original size:31 final size:31
Alignment explanation
Indices: 97120--97220 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
97110 AAAGATCCTC
*
97120 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * * *
97151 GGTATACTGTCCATATATCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
97182 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
97214 GGTAAAC
1 GGTAAAC
97221 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
31 32 0.56
32 25 0.44
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:97213 original size:32 final size:32
Alignment explanation
Indices: 97123--97219 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
97113 GATCCTCGGT
*
97123 AAACTGTCCATATGTTCCTTAGAACATAGGT-
1 AAACTGTCCATATGTTCCGTAGAACATAGGTA
* * *
97154 ATACTGTCCATAT-ATCTCG-AAAGACATAGGTA
1 AAACTGTCCATATGTTC-CGTAGA-ACATAGGTA
97186 AAACTGTCCATATGTTCCGTAGAACATAGGTA
1 AAACTGTCCATATGTTCCGTAGAACATAGGTA
97218 AA
1 AA
97220 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
30 4 0.07
31 21 0.39
32 25 0.46
33 4 0.07
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (32 bp):
AAACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:101935 original size:30 final size:30
Alignment explanation
Indices: 101876--101964 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
101866 CCCGAAGGAC
* * *
101876 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
101905 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
101935 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
101965 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:102000 original size:31 final size:31
Alignment explanation
Indices: 101960--102060 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
101950 AAAGATCCTC
*
101960 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
101991 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
102022 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
102054 GGTAAAC
1 GGTAAAC
102061 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:105206 original size:145 final size:147
Alignment explanation
Indices: 104836--105284 Score: 746
Period size: 146 Copynumber: 3.1 Consensus size: 147
104826 GAGTCGAGGG
* * * * * *
104836 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGCACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACA-TTGTGAAGTCTTGTAAGACACAT
*
104900 ACTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
64 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
104965 TATGGCACTACGGTGCAAT
129 TATGGCACTACGGTGCAAT
104984 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACAT-TGTGAAGTCTTGTAAGACACATA
105048 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGT-GTCCTTATGGACATTATTAT
65 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
105112 ATGGCACTACGGTGC-AT
130 ATGGCACTACGGTGCAAT
105129 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACA-TGTGAAGTCTTGTAAGACACATA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATTGTGAAGTCTTGTAAGACACATA
*
105193 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
65 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
105258 AGGGCACTACGGTGCAAT
130 ATGGCACTACGGTGCAAT
105276 TCTACGCGG
1 TCTACGCGG
105285 CACTACGGTG
Statistics
Matches: 286, Mismatches: 9, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
145 87 0.30
146 97 0.34
147 84 0.29
148 18 0.06
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (147 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATTGTGAAGTCTTGTAAGACACATAC
TTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTATA
TGGCACTACGGTGCAAT
Found at i:105290 original size:23 final size:22
Alignment explanation
Indices: 105259--105320 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 22
105249 CATTATTATA
105259 GGGCACTACGGTGCAATTCTAC
1 GGGCACTACGGTGCAATTCTAC
*
105281 GCGGCACTACGGTGTAATTCTAC
1 G-GGCACTACGGTGCAATTCTAC
* *
105304 GTGCACTTCGGTGCAAT
1 GGGCACTACGGTGCAAT
105321 GATACGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (22 bp):
GGGCACTACGGTGCAATTCTAC
Found at i:106337 original size:20 final size:20
Alignment explanation
Indices: 106307--106435 Score: 73
Period size: 20 Copynumber: 6.3 Consensus size: 20
106297 GTTTCCATAT
*
106307 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
106327 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
** *
106347 TTCGCGTTGCGATTTTCCGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
106370 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
106390 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
* *
106410 TCGCAACGCGATTCTGACTG
1 TCGCAATGCGATTCTGACTA
106430 TCGCAA
1 TCGCAA
106436 CATTGAATTT
Statistics
Matches: 81, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
19 3 0.04
20 54 0.67
21 11 0.14
22 9 0.11
23 3 0.04
24 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:106379 original size:22 final size:22
Alignment explanation
Indices: 106322--106380 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
106312 ACGCGATTCT
106322 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
106344 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
106365 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
106381 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:106436 original size:20 final size:20
Alignment explanation
Indices: 106365--106436 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
106355 GCGATTTTCC
* *
106365 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGATTAT
* *
106385 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAACGCGATTAT
*
106405 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGATTAT
*
106425 GACTGTCGCAAC
1 GACTATCGCAAC
106437 ATTGAATTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTATCGCAACGCGATTAT
Found at i:107308 original size:24 final size:24
Alignment explanation
Indices: 107251--107310 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
107241 TGGTCGGTAT
107251 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
107275 -CCAGACTTTGATCTTGGTCAATAC
1 TCGA-AATTTGATCTTGGTCAATAC
*
107299 TCGAATTTTGAT
1 TCGAAATTTGAT
107311 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:107529 original size:14 final size:14
Alignment explanation
Indices: 107500--107536 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
107490 AGAAAAAGAA
107500 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
107515 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
107529 GAAGAAAA
1 GAAGAAAA
107537 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:109596 original size:18 final size:18
Alignment explanation
Indices: 109573--109607 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109563 AGAAAAAGGC
*
109573 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
109591 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
109608 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:109919 original size:140 final size:140
Alignment explanation
Indices: 109667--109936 Score: 513
Period size: 140 Copynumber: 1.9 Consensus size: 140
109657 AAACGTTGTA
*
109667 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
*
109732 TAATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TAATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
109797 TATGTGTATT
131 TATGTGTATT
109807 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
*
109872 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TAATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
109937 CGCAACGCGA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
TAATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:109932 original size:20 final size:20
Alignment explanation
Indices: 109907--110234 Score: 249
Period size: 20 Copynumber: 17.6 Consensus size: 20
109897 TTACACATTC
*
109907 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
109927 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
109947 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
109966 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
109981 AATTGACTATCGTAACACGA
1 ATTTGACTATCGCAACGCGA
*
110001 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
110020 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
110035 ATTTGTCTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
110055 ATTTGACTATCGCAACG-GA
1 ATTTGACTATCGCAACGCGA
*
110074 TATTTGACTATCGCAACGAGA
1 -ATTTGACTATCGCAACGCGA
*
110095 A----A--ATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
110109 ATTTGACTATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
110129 ATTTGAGTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * *
110149 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
110169 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
110189 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
110203 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
110223 A-TTGACTTTCGC
1 ATTTGACTATCGC
110235 GTTGCGATTT
Statistics
Matches: 243, Mismatches: 39, Indels: 53
0.73 0.12 0.16
Matches are distributed among these distances:
14 40 0.16
15 6 0.02
16 2 0.01
18 2 0.01
19 16 0.07
20 175 0.72
21 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:110002 original size:54 final size:54
Alignment explanation
Indices: 109915--110234 Score: 270
Period size: 54 Copynumber: 5.8 Consensus size: 54
109905 TCATTTGAAT
* *
109915 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* * * *
109969 ATCGCAACGCGAAATTGACTATCGTAACACGAATATGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* * * *
110023 ATCGCAACGCGAATTTGTCTATCGCAATGCGAATTTGACTATCGCAACG-GATA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* * * *** ** * * *
110076 TTTGACTATCGC-AACGAGAAAATCACAACGCGAATTTGACTATTGCAACGCGAATTTGAGT
1 ATCG-C-AACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGC-AA----A-A
* * * *
110137 ATCGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACG-AGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCA-AAA
* * * *
110191 ATCGCAAAGCGTATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
110235 GTTGCGATTT
Statistics
Matches: 204, Mismatches: 51, Indels: 23
0.73 0.18 0.08
Matches are distributed among these distances:
53 14 0.07
54 147 0.72
55 5 0.02
56 1 0.00
58 1 0.00
59 4 0.02
60 30 0.15
61 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:110047 original size:74 final size:74
Alignment explanation
Indices: 109969--110165 Score: 272
Period size: 74 Copynumber: 2.7 Consensus size: 74
109959 CAACTCAAAA
* * * *
109969 ATCGCAACGCGAAATTGACTATCGTAACACGAATATGACTATCGCAACGCA-AAAATCGCAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACG-AGAAAATCACAACGC
*
110033 GAATTTGTCT
65 GAATTTGACT
* *
110043 ATCGCAATGCGAATTTGACTATCGCAAC-GGATATTTGACTATCGCAACGAGAAAATCACAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGA-ATTTGACTATCGCAACGAGAAAATCACAACGC
110107 GAATTTGACT
65 GAATTTGACT
* * *
110117 ATTGCAACGCGAATTTGAGTATCGCAACACGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACG
110166 GGTATTTGAC
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
73 3 0.03
74 103 0.95
75 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGAGAAAATCACAACGCG
AATTTGACT
Found at i:110127 original size:94 final size:94
Alignment explanation
Indices: 110023--110234 Score: 309
Period size: 94 Copynumber: 2.3 Consensus size: 94
110013 CAACGCAAAA
* **
110023 ATCGCAACGCGAATTTGTCTATCGCAATGCGAATTTGACTATCGCAACGGATATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGGATATTTGACTATCGC
* *
110088 AACGAGAAAATCACAACGCGAATTTGACT
66 AACGAGAAAATCACAAAGCGAATTAGACT
* * * *
110117 ATTGCAACGCGAATTTGAGTATCGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGGATATTTGACTATCGC
* *
110182 AACGAGAAAATCGCAAAGCGTATTAGACT
66 AACGAGAAAATCACAAAGCGAATTAGACT
*
110211 ATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGC
110235 GTTGCGATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 9 0.09
94 95 0.91
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (94 bp):
ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGGATATTTGACTATCGC
AACGAGAAAATCACAAAGCGAATTAGACT
Found at i:110253 original size:20 final size:20
Alignment explanation
Indices: 110224--110281 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
110214 GCAACGCGAA
110224 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* * *
110244 TTGTCTTTCGCATTACGATT
1 TTGACTTTCGCGTTGCGATT
* *
110264 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
110282 AAGTATACCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:112464 original size:18 final size:19
Alignment explanation
Indices: 112441--112526 Score: 93
Period size: 20 Copynumber: 4.4 Consensus size: 19
112431 GAAACTTAAA
112441 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
112459 ATCGCAATACGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
112479 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
* * *
112499 ATCACAACGCGAATTTGACT
1 ATCGCAACACGAA-ATGACT
112519 ATCGCAAC
1 ATCGCAAC
112527 GAGAGAATCG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
18 10 0.17
19 2 0.03
20 47 0.80
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:112477 original size:20 final size:20
Alignment explanation
Indices: 112452--112527 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
112442 TCGCAACACG
**
112452 AATGACTATCGCAATACGAA
1 AATGACTATCGCAACGCGAA
112472 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
112492 AATGACTATCACAACGCGAA
1 AATGACTATCGCAACGCGAA
**
112512 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
112528 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:112595 original size:20 final size:21
Alignment explanation
Indices: 112570--112623 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
112560 GCGATTCTTT
112570 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGTCAATATTCG
*
112590 CGTTGCGATAGT-AATTTTCG
1 CGTTGCGATAGTCAATATTCG
*
112610 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
112624 TTAACGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (21 bp):
CGTTGCGATAGTCAATATTCG
Found at i:112605 original size:18 final size:18
Alignment explanation
Indices: 112570--112641 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 18
112560 GCGATTCTTT
112570 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGT--AATTCG
112590 CGTTGCGATAGTAATTTTCG
1 CGTTGCGATAGTAA--TTCG
* * **
112610 TGTTGCGATAGTCATTAA
1 CGTTGCGATAGTAATTCG
*
112628 CGTTGCGAAAGTAA
1 CGTTGCGATAGTAA
112642 ACTATTCTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 15 0.35
20 28 0.65
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (18 bp):
CGTTGCGATAGTAATTCG
Found at i:112805 original size:18 final size:18
Alignment explanation
Indices: 112782--112831 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
112772 TTTACTAAGC
112782 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
112800 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
112818 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
112832 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:114236 original size:20 final size:20
Alignment explanation
Indices: 114211--114270 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
114201 GTGTTACGAC
*
114211 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCATTGCGAT
114231 AGTCAGAATCGCATTGCGAT
1 AGTCAGAATCGCATTGCGAT
*
114251 AGTCATAATCGCATTGCGAT
1 AGTCAGAATCGCATTGCGAT
114271 TTACATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (20 bp):
AGTCAGAATCGCATTGCGAT
Found at i:114277 original size:20 final size:20
Alignment explanation
Indices: 114237--114310 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
114227 CGATAGTCAG
*
114237 AATCGCATTGCGATAGT-CAT
1 AATCGCATTGCGAT-TTACAT
114257 AATCGCATTGCGATTTACAT
1 AATCGCATTGCGATTTACAT
* * *
114277 ATTTGTATTGCGATTTACAT
1 AATCGCATTGCGATTTACAT
* *
114297 ATTTGCATTGCGAT
1 AATCGCATTGCGAT
114311 AGTCTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
AATCGCATTGCGATTTACAT
Found at i:120146 original size:59 final size:55
Alignment explanation
Indices: 120078--120212 Score: 148
Period size: 58 Copynumber: 2.4 Consensus size: 55
120068 TATAATTACG
* * *
120078 AATAATAATAAACCTATATATGATAACTA-ATGGAAATAAGTAGTAGTGCAGTGATACT
1 AATAATAATAAA--TATATA-AATAAATAGATGGAAATAA-TAGTAGTGCAGTGATAAT
* *
120136 AAGTAATAATATATATATAAATAAATAGTGGTGGAAATAATAGTAGTGCAGTGATAAT
1 AA-TAATAATAAATATATAAATAAATA--GATGGAAATAATAGTAGTGCAGTGATAAT
120194 AATAATAAT-AATATATAAA
1 AATAATAATAAATATATAAA
120213 CCATATATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
56 15 0.22
57 13 0.19
58 21 0.31
59 18 0.27
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (55 bp):
AATAATAATAAATATATAAATAAATAGATGGAAATAATAGTAGTGCAGTGATAAT
Found at i:120203 original size:9 final size:10
Alignment explanation
Indices: 120189--120264 Score: 54
Period size: 12 Copynumber: 7.4 Consensus size: 10
120179 TAGTGCAGTG
120189 ATAATAATA-
1 ATAATAATAT
120198 ATAATAATAT
1 ATAATAATAT
120208 ATAA-ACCATAT
1 ATAATA--ATAT
120219 AT-AT-ATAT
1 ATAATAATAT
120227 AT-ATATATAT
1 ATAATA-ATAT
120237 ATATATATATAT
1 ATA-ATA-ATAT
120249 ATATATATATAT
1 ATA-ATA-ATAT
120261 ATAA
1 ATAA
120265 AGTGGATCCA
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.14
9 10 0.17
10 11 0.19
11 7 0.12
12 23 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAATAATAT
Found at i:120220 original size:2 final size:2
Alignment explanation
Indices: 120215--120263 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
120205 TATATAAACC
120215 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
120257 AT AT AT A
1 AT AT AT A
120264 AAGTGGATCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123541 original size:5 final size:5
Alignment explanation
Indices: 123533--123558 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
123523 TATTATTATT
123533 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
123559 GAAACCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:123753 original size:14 final size:14
Alignment explanation
Indices: 123734--123761 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123724 ATTTGTCGAG
123734 TTATAAAATAATTT
1 TTATAAAATAATTT
123748 TTATAAAATAATTT
1 TTATAAAATAATTT
123762 GAAAAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATAAAATAATTT
Found at i:125357 original size:23 final size:23
Alignment explanation
Indices: 125299--125359 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
125289 GAAATGATCG
* *
125299 AAAATATGTCATAAAGGTAGAGA
1 AAAACATGACATAAAGGTAGAGA
* *
125322 AAAACGTGTCATAAAGGTAGA-A
1 AAAACATGACATAAAGGTAGAGA
*
125344 GAATACATGACATAAA
1 -AAAACATGACATAAA
125360 TGCAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (23 bp):
AAAACATGACATAAAGGTAGAGA
Found at i:133103 original size:40 final size:38
Alignment explanation
Indices: 133023--133120 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 38
133013 AAATCAAATG
* *
133023 ATTTATTCCCTTTTACAAAATAGGAAAATAAATCCAACA
1 ATTTATT-TCTTTTACAAAATAGAAAAATAAATCCAACA
* * *
133062 ATTTATTTCATTTTATAAAATAGTAAAAATAAATTCTACA
1 ATTTATTTC-TTTTACAAAATAG-AAAAATAAATCCAACA
133102 ATTTTATTTCTTTTACAAA
1 A-TTTATTTCTTTTACAAA
133121 TAAGAATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 19 0.38
40 22 0.44
41 8 0.16
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (38 bp):
ATTTATTTCTTTTACAAAATAGAAAAATAAATCCAACA
Found at i:133122 original size:39 final size:37
Alignment explanation
Indices: 133023--133122 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 37
133013 AAATCAAATG
* *
133023 ATTTATTCCCTTTTACAAAATAGGAAAATAAATCCAACA
1 ATTTATT-TCTTTTAC-AAATAGAAAAATAAATCCAACA
* * *
133062 ATTTATTTCATTTTATAAAATAGTAAAAATAAATTCTACA
1 ATTTATTTC-TTTTA-CAAATAG-AAAAATAAATCCAACA
133102 ATTTTATTTCTTTTACAAATA
1 A-TTTATTTCTTTTACAAATA
133123 AGAATTATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
38 1 0.02
39 23 0.45
40 19 0.37
41 8 0.16
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTTATTTCTTTTACAAATAGAAAAATAAATCCAACA
Found at i:133278 original size:39 final size:39
Alignment explanation
Indices: 133235--133311 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
133225 TTTTCTTATA
* * * *
133235 CAAAATAGGAAACTAAATTTAACGATTTGTTTCATTTTC
1 CAAAATAGGAAAATAAATCTAACAATTTATTTCATTTTC
*
133274 CAAAATAGGAAAATAAATCTGACAATTTATTTCATTTT
1 CAAAATAGGAAAATAAATCTAACAATTTATTTCATTTT
133312 AAAAGATAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.38
Consensus pattern (39 bp):
CAAAATAGGAAAATAAATCTAACAATTTATTTCATTTTC
Found at i:133367 original size:49 final size:43
Alignment explanation
Indices: 133282--133402 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 43
133272 TCCAAAATAG
* *
133282 GAAAATAAATCTGACAATTTATTTCATTT-TAAAAGATAGAATCATATAA
1 GAAAATAAATTTAACAATTTATTTC-TTTATAAAAGAT----TC--ATAA
** *
133331 GAAAATAAATTTAACAATTTATTTCTTTATTCAAGATTCATGA
1 GAAAATAAATTTAACAATTTATTTCTTTATAAAAGATTCATAA
*
133374 GAAAATAAATTTAACAATTTATTTTTTTA
1 GAAAATAAATTTAACAATTTATTTCTTTA
133403 ACAAAATACA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 31 0.48
45 2 0.03
48 3 0.05
49 29 0.45
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (43 bp):
GAAAATAAATTTAACAATTTATTTCTTTATAAAAGATTCATAA
Found at i:133499 original size:115 final size:113
Alignment explanation
Indices: 133373--133588 Score: 258
Period size: 115 Copynumber: 1.9 Consensus size: 113
133363 AAGATTCATG
* * *
133373 AGAAAATAAATTTAACAATTTATTTT-TTTAACAAA-ATACAATAATTTAAGATTCTAAAGAAAA
1 AGAAAAAAAATTCAACAATTTATTTTCCTT-ACAAAGATA-AATAATTTAAGATT-TAAAGAAAA
* *
133436 TAAATTTAACAATTTATTTCTTTTTA-AATGATAGAATCATCTGTGATATTCA
63 TAAATTCAACAATTT-TTT-TTTTTACAAAGATAGAATCATCTGTGATATTCA
* * * * * *
133488 AGAAAAAAAATTCGACACTTTATTTTCCTTACAAAGTTAAATCATTTAAGATTTCAAGGAAATAA
1 AGAAAAAAAATTCAACAATTTATTTTCCTTACAAAGATAAATAATTTAAGATTTAAAGAAAATAA
*
133553 ATTCAACAATTTTTTTTTTTACAAAGTTAGAATCAT
66 ATTCAACAATTTTTTTTTTTACAAAGATAGAATCAT
133589 TCAATATTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
112 6 0.07
113 15 0.17
114 21 0.24
115 40 0.47
116 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (113 bp):
AGAAAAAAAATTCAACAATTTATTTTCCTTACAAAGATAAATAATTTAAGATTTAAAGAAAATAA
ATTCAACAATTTTTTTTTTTACAAAGATAGAATCATCTGTGATATTCA
Found at i:133556 original size:56 final size:56
Alignment explanation
Indices: 133484--133654 Score: 166
Period size: 56 Copynumber: 3.0 Consensus size: 56
133474 ATCTGTGATA
* * * * *
133484 TTCAAGAAAAAAAATTCGACACTTTATTTTCCTTACAAAGTTA-AATCATTTAAGAT
1 TTCAAGGAAATAAATTCAACAATTT-TTTTCCTTACAAAGTTAGAATCATTCAAGAT
** *
133540 TTCAAGGAAATAAATTCAACAATTTTTTTTTTTACAAAGTTAGAATCATTCAATAT
1 TTCAAGGAAATAAATTCAACAATTTTTTTCCTTACAAAGTTAGAATCATTCAAGAT
** * * * *
133596 TCTCAAGGAAATAAATTGTTA-AATTTATTTCTCTAACAAGGTTAAAATCATTCAAGAT
1 T-TCAAGGAAATAAATT-CAACAATTTTTTTC-CTTACAAAGTTAGAATCATTCAAGAT
133654 T
1 T
133655 CTTAATATTT
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
55 15 0.16
56 33 0.35
57 23 0.24
58 23 0.24
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (56 bp):
TTCAAGGAAATAAATTCAACAATTTTTTTCCTTACAAAGTTAGAATCATTCAAGAT
Found at i:133610 original size:57 final size:57
Alignment explanation
Indices: 133359--133612 Score: 214
Period size: 57 Copynumber: 4.4 Consensus size: 57
133349 TTATTTCTTT
* * * *
133359 ATTCAAGA-TTCATGAGAAAATAAATTTAACAATTTATTTTTTTAACAAA-ATACAATA
1 ATTCAAGATTTCA--AGAAAATAAATTCAACAATTTATTTTTTTTACAAAGATAGAATC
* * * *
133416 ATTTAAGATTCTAAAGAAAATAAATTTAACAATTTATTTCTTTTTA-AATGATAGAATC
1 ATTCAAGATT-TCAAGAAAATAAATTCAACAATTTATTT-TTTTTACAAAGATAGAATC
** * * * ** *
133474 A-TCTGTGATATTCAAGAAAAAAAATTCGACACTTTATTTTCCTTACAAAGTTA-AATC
1 ATTC-AAGAT-TTCAAGAAAATAAATTCAACAATTTATTTTTTTTACAAAGATAGAATC
* * *
133531 ATTTAAGATTTCAAGGAAATAAATTCAACAATTT-TTTTTTTTACAAAGTTAGAATC
1 ATTCAAGATTTCAAGAAAATAAATTCAACAATTTATTTTTTTTACAAAGATAGAATC
* *
133587 ATTCAATATTCTCAAGGAAATAAATT
1 ATTCAAGATT-TCAAGAAAATAAATT
133613 GTTAAATTTA
Statistics
Matches: 158, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
55 15 0.09
56 33 0.21
57 62 0.39
58 45 0.28
59 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.38
Consensus pattern (57 bp):
ATTCAAGATTTCAAGAAAATAAATTCAACAATTTATTTTTTTTACAAAGATAGAATC
Found at i:133621 original size:57 final size:57
Alignment explanation
Indices: 133359--133656 Score: 184
Period size: 57 Copynumber: 5.2 Consensus size: 57
133349 TTATTTCTTT
* * * * * *
133359 ATTCAAGATTCAT-GAGAAAATAAATTTAACAATTTATTT-TTTTAACAAA-ATACAATA
1 ATTCAAGATTC-TCAAGGAAATAAATTCAACAATTTATTTCTCTT-ACAAAGTTA-AATC
* * * * * * *
133416 ATTTAAGATTCTAAAGAAAATAAATTTAACAATTTATTTCTTTTTA-AATGATAGAATC
1 ATTCAAGATTCTCAAGGAAATAAATTCAACAATTTATTTC-TCTTACAAAGTTA-AATC
** * * * *
133474 A-TCTGTGATAT-TCAAGAAAAAAAATTCGACACTTTATTT-TCCTTACAAAGTTAAATC
1 ATTC-AAGAT-TCTCAAGGAAATAAATTCAACAATTTATTTCT-CTTACAAAGTTAAATC
* * *
133531 ATTTAAGATT-TCAAGGAAATAAATTCAACAATTT-TTTTTTTTACAAAGTTAGAATC
1 ATTCAAGATTCTCAAGGAAATAAATTCAACAATTTATTTCTCTTACAAAGTTA-AATC
* ** * *
133587 ATTCAATATTCTCAAGGAAATAAATTGTTA-AATTTATTTCTCTAACAAGGTTAAAATC
1 ATTCAAGATTCTCAAGGAAATAAATT-CAACAATTTATTTCTCTTACAAAGTT-AAATC
133645 ATTCAAGATTCT
1 ATTCAAGATTCT
133657 TAATATTTCC
Statistics
Matches: 193, Mismatches: 33, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
55 14 0.07
56 36 0.19
57 69 0.36
58 68 0.35
59 6 0.03
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (57 bp):
ATTCAAGATTCTCAAGGAAATAAATTCAACAATTTATTTCTCTTACAAAGTTAAATC
Found at i:133889 original size:46 final size:44
Alignment explanation
Indices: 133817--133964 Score: 179
Period size: 45 Copynumber: 3.3 Consensus size: 44
133807 TTACCGACCC
* * * *
133817 AATAATCACAAGGAACTAATCCTTTGATTTTAATTTTCACAATCT
1 AATAATCAAAAGGAACTAATCATTTGATTTTACTTTTCACAA-CA
**
133862 AATAATCAAAAAGGAACTAATCATTTGATTTTACTTTTTGCAACA
1 AATAATC-AAAAGGAACTAATCATTTGATTTTACTTTTCACAACA
* * *
133907 CAATAATCAAAAGTAACTAATCTTTTGATTTTACTTTTGACAACCA
1 -AATAATCAAAAGGAACTAATCATTTGATTTTACTTTTCACAA-CA
133953 AATAATCAAAAG
1 AATAATCAAAAG
133965 ACTTGGATTA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
45 51 0.57
46 39 0.43
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (44 bp):
AATAATCAAAAGGAACTAATCATTTGATTTTACTTTTCACAACA
Found at i:148594 original size:9 final size:9
Alignment explanation
Indices: 148580--148604 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
148570 GTACGATAAG
148580 AGTGTTGGA
1 AGTGTTGGA
148589 AGTGTTGGA
1 AGTGTTGGA
148598 AGTGTTG
1 AGTGTTG
148605 CTGCCCAGCT
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:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (9 bp):
AGTGTTGGA
Found at i:149324 original size:45 final size:45
Alignment explanation
Indices: 149270--149356 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
149260 AAGATACCAT
* * * *
149270 TGAGGTGCTGATGCTTTGTGATCTAGACCTCACCTAAGGTACTCG
1 TGAGATGCTGATGCTATGTGACCCAGACCTCACCTAAGGTACTCG
* *
149315 TGAGATGCTGATGCTATGTGACCCAGATCTTACCTAAGGTAC
1 TGAGATGCTGATGCTATGTGACCCAGACCTCACCTAAGGTAC
149357 ATTTAGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (45 bp):
TGAGATGCTGATGCTATGTGACCCAGACCTCACCTAAGGTACTCG
Found at i:150856 original size:30 final size:30
Alignment explanation
Indices: 150822--150886 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
150812 ATCCTTCTTT
*
150822 GTATTCAATTTAGCCACTAACCTTAGTTTA
1 GTATTCAATTTAGCCACTAACATTAGTTTA
* *
150852 GTATTCAATTTAGCCATTTACATTAGTTTA
1 GTATTCAATTTAGCCACTAACATTAGTTTA
150882 GTATT
1 GTATT
150887 TGGTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (30 bp):
GTATTCAATTTAGCCACTAACATTAGTTTA
Found at i:150903 original size:2 final size:2
Alignment explanation
Indices: 150896--150942 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
150886 TTGGTTAAAC
150896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
150938 TA TA T
1 TA TA T
150943 CATTTTTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:153794 original size:15 final size:14
Alignment explanation
Indices: 153774--153821 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
153764 TTTACAAATT
153774 TATTTTAAATCTTTA
1 TATTTTAAAT-TTTA
153789 TATTTT-AATTTTA
1 TATTTTAAATTTTA
*
153802 TAATATTAAATTTT-
1 T-ATTTTAAATTTTA
153816 TATTTT
1 TATTTT
153822 GTTTTTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTAAATTTTA
Found at i:161810 original size:75 final size:75
Alignment explanation
Indices: 161731--161879 Score: 178
Period size: 76 Copynumber: 2.0 Consensus size: 75
161721 ATTAAACTCA
* *
161731 TTTTAGGATAATA-TTTTAAACATTATAT-TTTATCTTT-GTATTTTAGTTTAAATAGGTTTTTG
1 TTTTAGGATAATACTTTT--ACATTATATCTTTAT-TTTAGTATTTTAGTTGAAATAAGTTTTTG
161793 TATTTTAATTAAG
63 TATTTTAATTAAG
* * * * *
161806 TTTTAGGATATTACTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTGAAATAAGTTTTTGTG
1 TTTTAGGATAATACTTTTACATTATATCTTTATTTTA-GTATTTTAGTTGAAATAAGTTTTTGTA
161871 TTTTAATTA
65 TTTTAATTA
161880 GGATTTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
74 10 0.16
75 16 0.25
76 37 0.59
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.58
Consensus pattern (75 bp):
TTTTAGGATAATACTTTTACATTATATCTTTATTTTAGTATTTTAGTTGAAATAAGTTTTTGTAT
TTTAATTAAG
Found at i:162566 original size:19 final size:19
Alignment explanation
Indices: 162537--162586 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
162527 AATCTCTTTA
*
162537 ATTTGTTTATTTAATTATT
1 ATTTTTTTATTTAATTATT
*
162556 -TTTCTTTTATTTAATTCTT
1 ATTT-TTTTATTTAATTATT
162575 ATTTTTTTATTT
1 ATTTTTTTATTT
162587 TAAAAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTTTATTTAATTATT
Found at i:165556 original size:19 final size:19
Alignment explanation
Indices: 165527--165576 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
165517 AATCTATTTA
*
165527 ATTTATTTATTTAATTATT
1 ATTTTTTTATTTAATTATT
*
165546 -TTTCTTTTATTTAATTCTT
1 ATTT-TTTTATTTAATTATT
165565 ATTTTTTTATTT
1 ATTTTTTTATTT
165577 TAAAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTTATTTAATTATT
Found at i:165631 original size:21 final size:20
Alignment explanation
Indices: 165607--165648 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
165597 CCCTTATGTT
165607 TATTACTATTAATATTTATTA
1 TATTACTATTAATATTT-TTA
* *
165628 TATTATTATTATTATTTTTA
1 TATTACTATTAATATTTTTA
165648 T
1 T
165649 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTAATATTTTTA
Found at i:167726 original size:12 final size:12
Alignment explanation
Indices: 167709--167733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
167699 ATATTTTTAA
167709 TAAAATATTATT
1 TAAAATATTATT
167721 TAAAATATTATT
1 TAAAATATTATT
167733 T
1 T
167734 TTTTATCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:167859 original size:23 final size:24
Alignment explanation
Indices: 167824--167882 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
167814 CTACCGTAAA
167824 TATTAAAAAAATATTAATATTTCC
1 TATTAAAAAAATATTAATATTTCC
167848 TATT-AAAAAATATTAATATTT-C
1 TATTAAAAAAATATTAATATTTCC
* *
167870 AAGTAAAAAAATA
1 TATTAAAAAAATA
167883 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 3 0.09
23 25 0.78
24 4 0.12
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
TATTAAAAAAATATTAATATTTCC
Found at i:167903 original size:12 final size:13
Alignment explanation
Indices: 167878--167902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167868 TCAAGTAAAA
167878 AAATAATTTTTTT
1 AAATAATTTTTTT
167891 AAATAATTTTTT
1 AAATAATTTTTT
167903 ATTAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATAATTTTTTT
Found at i:168589 original size:27 final size:27
Alignment explanation
Indices: 168532--168584 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
168522 CATCGCCGGC
**
168532 GAAATCCCTCACAACCATTCAAGGTCA
1 GAAATCCCTCACAACCATTCAAAATCA
*
168559 GAAATCCCTCACAATCATTCAGAAAT
1 GAAATCCCTCACAACCATTCA-AAAT
168585 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCAAAATCA
Found at i:168928 original size:21 final size:20
Alignment explanation
Indices: 168852--168923 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
168842 TTCTAAACTT
*
168852 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
168872 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
168892 ACTATCGCAACGA-GAGGAATG
1 AAAATCGCAAC-ACGA-AAATG
168913 AAAATCGCAAC
1 AAAATCGCAAC
168924 GAGAGAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.50, C:0.19, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:168991 original size:14 final size:14
Alignment explanation
Indices: 168972--169027 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
168962 TTTCATTTCG
168972 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
168986 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
169003 CGCTTTGCGATTCTCT
1 CG--TTGCGATTCTCT
169019 CGTTGCGAT
1 CGTTGCGAT
169028 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 15 0.43
16 7 0.20
17 7 0.20
19 6 0.17
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:168997 original size:33 final size:33
Alignment explanation
Indices: 168955--169076 Score: 154
Period size: 33 Copynumber: 3.5 Consensus size: 33
168945 CAAAATCGCA
168955 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
168988 TTGCGATTTTCATTTCGCTTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
169021 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
169061 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
169077 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
33 45 0.59
34 8 0.11
39 1 0.01
40 22 0.29
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:169053 original size:20 final size:19
Alignment explanation
Indices: 168950--169076 Score: 103
Period size: 20 Copynumber: 7.1 Consensus size: 19
168940 GAAACCAAAA
*
168950 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
168969 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
168983 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
169002 TCGCTTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
169016 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
169035 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
169055 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
169075 TC
1 TC
169077 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 19 0.22
16 5 0.06
17 6 0.07
19 22 0.26
20 32 0.38
21 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:170961 original size:94 final size:93
Alignment explanation
Indices: 170769--171050 Score: 446
Period size: 94 Copynumber: 3.1 Consensus size: 93
170759 TAGATTGCTT
* *
170769 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
170830 ATTTGTCTTTTGTTTTGTCTTTTTGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
170859 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
170924 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
170953 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
171018 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
171046 AGTAA
1 AGTAA
171051 TACAATCCAT
Statistics
Matches: 178, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
90 35 0.20
92 3 0.02
93 27 0.15
94 113 0.63
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:171189 original size:39 final size:38
Alignment explanation
Indices: 171141--171271 Score: 154
Period size: 39 Copynumber: 3.4 Consensus size: 38
171131 TCTTTTGGTT
* *
171141 GAAATGAAAATCGTAACGAGAGAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGA-AATGAAAATCGCAACGC
*
171180 GAAACGAAAATCGCAACGAGAAATGAAAATCCCAACGC
1 GAAACGAAAATCGCAACGAGAAATGAAAATCGCAACGC
* * **
171218 GAAACCAAAAATCGCAACGTGAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGAGAAA-TGAAAATCGCAACGC
* *
171258 GAAACTATAATCGC
1 GAAACGAAAATCGC
171272 GTTGCGATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 20 0.25
39 44 0.55
40 16 0.20
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (38 bp):
GAAACGAAAATCGCAACGAGAAATGAAAATCGCAACGC
Found at i:171190 original size:19 final size:19
Alignment explanation
Indices: 171141--171262 Score: 127
Period size: 20 Copynumber: 6.3 Consensus size: 19
171131 TCTTTTGGTT
* * *
171141 GAAATGAAAATCGTAACGA
1 GAAACGAAAATCGCAACGC
*
171160 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
*
171180 GAAACGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
* *
171199 GAAATGAAAATCCCAACGC
1 GAAACGAAAATCGCAACGC
* *
171218 GAAACCAAAAATCGCAACGT
1 GAAA-CGAAAATCGCAACGC
*
171238 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
171258 GAAAC
1 GAAAC
171263 TATAATCGCG
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 38 0.43
20 51 0.57
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.09
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:171311 original size:14 final size:14
Alignment explanation
Indices: 171292--171346 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
171282 TCATTTCGCA
171292 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
171306 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
171325 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
171339 TTGCGATT
1 TTGCGATT
171347 TTCGTTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:171313 original size:33 final size:33
Alignment explanation
Indices: 171271--171403 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 33
171261 ACTATAATCG
171271 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
171304 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
171337 CGTTGCGATTTTCGTTTCGCATTGCGATTTTTATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCG------ATTCTCT
*
171376 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
171404 AGTCATTTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
33 58 0.65
39 31 0.35
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:171381 original size:20 final size:19
Alignment explanation
Indices: 171268--171427 Score: 133
Period size: 19 Copynumber: 8.8 Consensus size: 19
171258 GAAACTATAA
171268 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
171287 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
171301 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
171320 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
171334 TCTCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTCATT
* *
171353 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
171372 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
**
171392 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
171413 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
171428 AAGTTCCAGA
Statistics
Matches: 110, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
14 19 0.17
16 6 0.05
17 6 0.05
19 49 0.45
20 16 0.15
21 14 0.13
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:171396 original size:72 final size:66
Alignment explanation
Indices: 171271--171403 Score: 203
Period size: 72 Copynumber: 1.9 Consensus size: 66
171261 ACTATAATCG
171271 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
171336 T
66 T
*
171337 CGTTGCGATTTTCGTTTCGCATTGCGATTTTTATTCTCTCGTTGCGATTTTCATTTCGCGTTGCG
1 CGTTGCGATTTTCATTTCGCATTGCG------ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCG
171402 AT
60 AT
171404 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
66 25 0.42
72 35 0.58
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
T
Found at i:171904 original size:21 final size:21
Alignment explanation
Indices: 171880--171946 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
171870 TCATTCCTCG
171880 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
171901 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
171922 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
171943 AGAG
1 AGAG
171947 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:171904 original size:42 final size:42
Alignment explanation
Indices: 171828--171946 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 42
171818 GACTCGCCTG
* * * * *
171828 TCATCTCTC-AAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATC-CTCGAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
171870 TCATTCCTCG-AGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCA-TCCTCGAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
171912 TCATCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGA-GTCCCCTCCCACCGTTCAAGAG
171947 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 4 0.06
42 56 0.88
43 4 0.06
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCCTCGAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:173317 original size:14 final size:14
Alignment explanation
Indices: 173298--173333 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
173288 ATTGTTTAAT
173298 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
173312 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
173326 TGATTTGT
1 TGATTTGT
173334 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:173511 original size:19 final size:19
Alignment explanation
Indices: 173440--173505 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
173430 AAAAATGACT
*
173440 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
173459 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
173473 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
173492 ATCGCAACGTGAAA
1 ATCGCAACGCGAAA
173506 CTAAAAGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:175812 original size:24 final size:24
Alignment explanation
Indices: 175778--175831 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
175768 CTAAAAAATC
175778 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
175802 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
175826 ATCAAA
1 ATCAAA
175832 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:175845 original size:24 final size:24
Alignment explanation
Indices: 175778--175845 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
175768 CTAAAAAATC
* * *
175778 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
175802 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
175826 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
175846 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:176756 original size:20 final size:20
Alignment explanation
Indices: 176687--176862 Score: 235
Period size: 20 Copynumber: 8.7 Consensus size: 20
176677 CGATAGTCAG
* * *
176687 AATCTCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
* *
176707 AATTCGCATTGCGATTTTCCT
1 AA-TCGCATTGCGATTTACGT
*
176728 AATTCGCATTGCAATTTACGT
1 AA-TCGCATTGCGATTTACGT
176749 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
176769 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
176789 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * *
176809 AACCGCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
176829 AATTCGCATTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
*
176850 ATTCGCATTGCGA
1 AATCGCATTGCGA
176863 ATTAGGAAAA
Statistics
Matches: 142, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
20 89 0.63
21 53 0.37
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:176883 original size:21 final size:21
Alignment explanation
Indices: 176859--176904 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
176849 TATTCGCATT
176859 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTAGG-AAATCGCAAC
*
176880 GCGAATTTAGGAAATCGCAAT
1 GCGAATTTAGGAAATCGCAAC
176901 GCGA
1 GCGA
176905 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGGAAATCGCAAC
Found at i:184194 original size:4 final size:4
Alignment explanation
Indices: 184185--184210 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
184175 TATTATACAT
184185 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
184211 ATCATAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:184603 original size:34 final size:34
Alignment explanation
Indices: 184560--184644 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
184550 ATAATGTGTA
184560 AGGTAATGTAACATTCCGATAATCTTATTCCCAG
1 AGGTAATGTAACATTCCGATAATCTTATTCCCAG
184594 AGGTAATGTAACATTCCGATAATCTTATTCCCAG
1 AGGTAATGTAACATTCCGATAATCTTATTCCCAG
*
184628 AGGTAATGTTACATTCC
1 AGGTAATGTAACATTCC
184645 ATGAACCAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (34 bp):
AGGTAATGTAACATTCCGATAATCTTATTCCCAG
Found at i:185303 original size:28 final size:28
Alignment explanation
Indices: 185265--185334 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
185255 TCGGTGAGCG
*
185265 TAACGAACAACGAGACGAGCGATGAGAT
1 TAACGAGCAACGAGACGAGCGATGAGAT
* *
185293 TAACGAGCAACGAAACGATCGATGAGAT
1 TAACGAGCAACGAGACGAGCGATGAGAT
185321 TAACGAGCAACGAG
1 TAACGAGCAACGAG
185335 TAGAGTAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.43, C:0.19, G:0.27, T:0.11
Consensus pattern (28 bp):
TAACGAGCAACGAGACGAGCGATGAGAT
Found at i:185412 original size:67 final size:67
Alignment explanation
Indices: 185314--185469 Score: 222
Period size: 67 Copynumber: 2.3 Consensus size: 67
185304 GAAACGATCG
* **
185314 ATGAGATTAACGAGCAACGAGTAGAGTAACAAATTTTCTTAACGAGCATGAGTCGAGCAAAATTT
1 ATGAGATTAACGAGCAACGAGTAGAGCAACAAATTTTCTTAAAAAGCATGAGTCGAGCAAAATTT
185379 TA
66 TA
* * * * *
185381 ATGAGTTTAATGAGCAATGAGTTGAGCAACAAATTTTTTTAAAAAGCATGAGTCGAGCAAAATTT
1 ATGAGATTAACGAGCAACGAGTAGAGCAACAAATTTTCTTAAAAAGCATGAGTCGAGCAAAATTT
*
185446 TC
66 TA
*
185448 ATGAGCTTAACGAGCAACGAGT
1 ATGAGATTAACGAGCAACGAGT
185470 CAAGCACTGC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (67 bp):
ATGAGATTAACGAGCAACGAGTAGAGCAACAAATTTTCTTAAAAAGCATGAGTCGAGCAAAATTT
TA
Found at i:185575 original size:18 final size:19
Alignment explanation
Indices: 185540--185576 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
185530 CACAGAATGT
185540 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
185560 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
185577 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:194337 original size:20 final size:20
Alignment explanation
Indices: 194312--194352 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
194302 ACCTCAAATG
*
194312 TTGCATTATGTTATGAAGGA
1 TTGCATTATGTTACGAAGGA
194332 TTGCATTATGTTACGAAGGA
1 TTGCATTATGTTACGAAGGA
194352 T
1 T
194353 CAAACTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCATTATGTTACGAAGGA
Found at i:195584 original size:26 final size:26
Alignment explanation
Indices: 195551--195607 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
195541 TTTGCAAAAG
195551 CCATGGAACAGTGGCCCTTCTATAGC
1 CCATGGAACAGTGGCCCTTCTATAGC
195577 CCATGGAACAGTGGCCCTTCTATAGC
1 CCATGGAACAGTGGCCCTTCTATAGC
195603 CCATG
1 CCATG
195608 AATGACATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (26 bp):
CCATGGAACAGTGGCCCTTCTATAGC
Done.