Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_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: 2284295
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:8123 original size:16 final size:16
Alignment explanation
Indices: 8104--8140 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
8094 TTAAATTATT
8104 TTTAAATAATTTAATG
1 TTTAAATAATTTAATG
8120 TTTAAATAATTTAATG
1 TTTAAATAATTTAATG
8136 TTTAA
1 TTTAA
8141 TTTAATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAAATAATTTAATG
Found at i:12302 original size:3 final size:3
Alignment explanation
Indices: 12294--12321 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12284 AGATGAGGAG
12294 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
12322 AGGGTCGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14127 original size:18 final size:18
Alignment explanation
Indices: 14104--14138 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14094 TATATGATTT
14104 ACAAA-TCAAACTACAATC
1 ACAAATTCAAACT-CAATC
14122 ACAAATTCAAACTCAAT
1 ACAAATTCAAACTCAAT
14139 TCTAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
ACAAATTCAAACTCAATC
Found at i:14463 original size:30 final size:33
Alignment explanation
Indices: 14398--14467 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 33
14388 GAGTTTGTAT
*
14398 TATATAATTAATATAAAAAATATAAAAAATTTTA
1 TATATAATTAATATAAAAAATAT-AAAAATATTA
14432 TATATAATT-A-ATAAAAAATAT-AAAATATTA
1 TATATAATTAATATAAAAAATATAAAAATATTA
14462 TATATA
1 TATATA
14468 TATATCGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 14 0.40
32 11 0.31
33 1 0.03
34 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TATATAATTAATATAAAAAATATAAAAATATTA
Found at i:14471 original size:34 final size:34
Alignment explanation
Indices: 14398--14469 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 34
14388 GAGTTTGTAT
14398 TATATAATTAATATAAAAAATATAAAAAATTTTA
1 TATATAATTAATATAAAAAATATAAAAAATTTTA
* *
14432 TATATAATT-A-ATAAAAAATATAAAATATTATA
1 TATATAATTAATATAAAAAATATAAAAAATTTTA
14464 TATATA
1 TATATA
14470 TATCGGGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 26 0.72
33 1 0.03
34 9 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
TATATAATTAATATAAAAAATATAAAAAATTTTA
Found at i:17295 original size:21 final size:21
Alignment explanation
Indices: 17262--17301 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17252 TTATTATTTT
17262 TTATCCATCTTTAAATTTTGA
1 TTATCCATCTTTAAATTTTGA
* *
17283 TTATTCATTTTTAAATTTT
1 TTATCCATCTTTAAATTTT
17302 ATCAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (21 bp):
TTATCCATCTTTAAATTTTGA
Found at i:22550 original size:30 final size:30
Alignment explanation
Indices: 22514--22575 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
22504 GATCAAATGT
22514 AACTCTTGGTTCTATGACGGGTGCATCTCG
1 AACTCTTGGTTCTATGACGGGTGCATCTCG
* * *
22544 AACTCTTGGTTCTTTGACGGGTTCATGTCG
1 AACTCTTGGTTCTATGACGGGTGCATCTCG
22574 AA
1 AA
22576 GTTCCAAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (30 bp):
AACTCTTGGTTCTATGACGGGTGCATCTCG
Found at i:23188 original size:85 final size:85
Alignment explanation
Indices: 23039--23198 Score: 284
Period size: 85 Copynumber: 1.9 Consensus size: 85
23029 ACAGTTTTAA
* *
23039 TGCCAATAAGCAACCAATTATCAGAATGGTCGATGAGAAAGCAAATGCACCCATCCTGATAAATT
1 TGCCAATAAGCAACCAATTATCAGAATGGTCGATGAGAAAGCAAATGCACCCACCCTGACAAATT
23104 TAGGAACTAACTGTTTTGAG
66 TAGGAACTAACTGTTTTGAG
* *
23124 TGCCGATAAGCAACCAATTATCAGAATGGTCGATGAGAAAGCAAATGCACCCACCCTGGCAAATT
1 TGCCAATAAGCAACCAATTATCAGAATGGTCGATGAGAAAGCAAATGCACCCACCCTGACAAATT
23189 TAGGAACTAA
66 TAGGAACTAA
23199 ATAAATATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (85 bp):
TGCCAATAAGCAACCAATTATCAGAATGGTCGATGAGAAAGCAAATGCACCCACCCTGACAAATT
TAGGAACTAACTGTTTTGAG
Found at i:26304 original size:30 final size:30
Alignment explanation
Indices: 26270--26401 Score: 212
Period size: 30 Copynumber: 4.4 Consensus size: 30
26260 GGTTCTTCGG
* *
26270 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
26300 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
26330 GACCTCTGGATAGTTACCGAGGATTTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
26360 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
26389 GACCTCTGGATAG
1 GACCTCTGGATAG
26402 GTCCTTCGGG
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
29 20 0.21
30 76 0.79
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:29249 original size:26 final size:26
Alignment explanation
Indices: 29214--29265 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29204 AATGTTTTCA
29214 AAGAAGCAGCTTTTCTTTCATTTCTT
1 AAGAAGCAGCTTTTCTTTCATTTCTT
29240 AAGAAGCAGCTTTTCTTTCATTTCTT
1 AAGAAGCAGCTTTTCTTTCATTTCTT
29266 TTGCTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (26 bp):
AAGAAGCAGCTTTTCTTTCATTTCTT
Found at i:37978 original size:21 final size:21
Alignment explanation
Indices: 37936--37978 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37926 TTTCTGGGTT
* * *
37936 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
37957 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
37978 A
1 A
37979 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:38077 original size:65 final size:67
Alignment explanation
Indices: 37958--38107 Score: 250
Period size: 65 Copynumber: 2.3 Consensus size: 67
37948 ACCCATTCAA
37958 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
38023 -G
66 GG
* *
38024 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
38088 GGG
66 -GG
*
38091 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
38108 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 31 0.39
66 31 0.39
67 17 0.22
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:38777 original size:149 final size:149
Alignment explanation
Indices: 38586--38889 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
38576 GGGTAGAGGG
38586 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
38651 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
38716 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
38735 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
38800 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
38865 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
38884 TCTACG
1 TCTACG
38890 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:38912 original size:23 final size:23
Alignment explanation
Indices: 38868--38912 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38858 ATCATTATAT
*
38868 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
38891 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
38913 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:44948 original size:21 final size:21
Alignment explanation
Indices: 44906--44948 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44896 TTTCTGGGTT
* * *
44906 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
44927 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
44948 A
1 A
44949 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:45064 original size:66 final size:68
Alignment explanation
Indices: 44928--45078 Score: 261
Period size: 67 Copynumber: 2.2 Consensus size: 68
44918 ACCCATTCAA
44928 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
44993 -GG
66 GGG
* *
44995 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
45059 GGG
66 GGG
*
45062 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
45079 ATGAGAAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 31 0.39
67 49 0.61
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:45749 original size:149 final size:149
Alignment explanation
Indices: 45558--45861 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
45548 GGGTAGAGGG
45558 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
45623 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
45688 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
45707 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
45772 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
45837 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
45856 TCTACG
1 TCTACG
45862 GGGCACCTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:47066 original size:60 final size:60
Alignment explanation
Indices: 46990--47102 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
46980 AATGTTCCCC
*
46990 GACTATACAGTATTGCTTTATTAAGTCCCTCGACTATTAAAAGTTAAAAAATGATCATTT
1 GACTATACAGTATTGCTTTATTAAGTCCCTCGACTATCAAAAGTTAAAAAATGATCATTT
* * * * *
47050 GACTATAGAGTGTTGCTTTATTGAGTCTCTCGACTATCAAAAGTTACAAAATG
1 GACTATACAGTATTGCTTTATTAAGTCCCTCGACTATCAAAAGTTAAAAAATG
47103 GCCGCCGACT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (60 bp):
GACTATACAGTATTGCTTTATTAAGTCCCTCGACTATCAAAAGTTAAAAAATGATCATTT
Found at i:53799 original size:2 final size:2
Alignment explanation
Indices: 53792--53872 Score: 141
Period size: 2 Copynumber: 42.0 Consensus size: 2
53782 ATTTTATACA
53792 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
53834 AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53873 TATTTATTCA
Statistics
Matches: 76, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 3 0.04
2 73 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54967 original size:2 final size:2
Alignment explanation
Indices: 54960--55034 Score: 95
Period size: 2 Copynumber: 39.5 Consensus size: 2
54950 TACTTTTTAT
*
54960 TA TA TA TA TA TA TA T- TA T- TA T- TA T- TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
54998 TA TG TA CA 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 T
55035 TTCTATTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60708 original size:37 final size:37
Alignment explanation
Indices: 60667--60783 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 37
60657 AAACAAGGAG
60667 TTGTCTCACTCAAGACTA-ATT-TACTCAAAACAAAGTT
1 TTGTCTCACTCAAGAC-AGATTCT-CTCAAAACAAAGTT
* **
60704 TTGTCTCTCTTGAGACAGATTCTCTCAAAACAAAGTT
1 TTGTCTCACTCAAGACAGATTCTCTCAAAACAAAGTT
** *
60741 TTGTCT-ATCTTGAGACAGATTCTCTTAAAACAAA-TT
1 TTGTCTCA-CTCAAGACAGATTCTCTCAAAACAAAGTT
60777 TTGTCTC
1 TTGTCTC
60784 TCTTGAGACA
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
36 9 0.13
37 61 0.86
38 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (37 bp):
TTGTCTCACTCAAGACAGATTCTCTCAAAACAAAGTT
Found at i:60788 original size:36 final size:37
Alignment explanation
Indices: 60693--60810 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
60683 TAATTTACTC
*
60693 AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTC
1 AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTT
*
60730 AAAACAAAGTTTTGTCTATCTTGAGACAGATTCTCTT
1 AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTT
* *
60767 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTT
1 AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTT
*
60803 GAAACAAA
1 AAAACAAA
60811 ATCTTTGAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 32 0.43
37 43 0.57
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (37 bp):
AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTT
Found at i:60928 original size:36 final size:36
Alignment explanation
Indices: 60825--61291 Score: 305
Period size: 36 Copynumber: 13.4 Consensus size: 36
60815 TTGAATCTGT
*
60825 TTTC-CTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
60860 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAT
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
60897 TTTCTCTTAAAACAAATTTAGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
60933 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
60970 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
61006 TTTCCCTTGAAACAAA------ATCT-TTGA-ATCTG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-CAG
* * * * * *
61035 TTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
61071 GTTCTTTTGGAACTAAGTTTTGTCTCTCTTTG-GACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTC-TTGAGACAG
* *
61108 TTTCTCTTGAAA-AATTTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAG
* * **
61144 TTTCCCTTGAAACAAA----ATCT-T-TT-A-ATTTG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-CAG
* * * * *
61173 TTTTTCTTTAAA-AAA-ATTGTCTCCCCTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * * *
61207 GTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
61244 TTTCCCTTTAAACAAATTCTG--TCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
61278 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
61292 CAAAAAACCT
Statistics
Matches: 322, Mismatches: 82, Indels: 57
0.70 0.18 0.12
Matches are distributed among these distances:
28 5 0.02
29 29 0.09
30 5 0.02
31 4 0.01
32 3 0.01
33 1 0.00
34 33 0.10
35 12 0.04
36 118 0.37
37 110 0.34
38 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:60952 original size:73 final size:71
Alignment explanation
Indices: 60824--61282 Score: 355
Period size: 73 Copynumber: 6.6 Consensus size: 71
60814 TTTGAATCTG
*
60824 TTTTC-CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
60888 TTGAGACA
66 TT--GACA
*
60896 TTTTCTCTTAAAACAAATTTAGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
60961 TTTAGACA
66 -TT-GACA
* * * ** * * * **
60969 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG--AAT
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGT-TTTGTCTCT
61032 C-TG---
65 CTTGACA
* * * * *
61035 TTTT-TCTTTAAACAAATTTTCTGTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
61099 TTTGGACA
66 -TT-GACA
* ** * * ** * * * **
61107 GTTTCTCTTGAAAA-ATTTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTT-T-AA
1 TTTTCTCTT-AAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGT-TTTGTCTC
*
61169 T-TTG--T
64 TCTTGACA
* *
61174 TTTTCT-TTAAAA-AAA--TTGTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
61235 TTTAGACA
66 -TT-GACA
* * * *
61243 GTTTCCCTTTAAACAAATTCTGTCT--CTTGAGACAGTTTCT
1 TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
61283 CTTGAAACAC
Statistics
Matches: 296, Mismatches: 66, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
62 3 0.01
63 28 0.09
64 5 0.02
65 44 0.15
66 9 0.03
67 6 0.02
68 1 0.00
69 7 0.02
70 8 0.03
71 16 0.05
72 11 0.04
73 146 0.49
74 12 0.04
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (71 bp):
TTTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
TTGACA
Found at i:61048 original size:138 final size:137
Alignment explanation
Indices: 60896--61291 Score: 595
Period size: 138 Copynumber: 2.9 Consensus size: 137
60886 TCTTGAGACA
* * *
60896 TTTTCTCTTAAAACAAATTTAGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTT-TCTTTAAACAAATTT-GTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
60961 TTTAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCT
64 TTTAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCT
61026 TTGAATCTG
129 TTGAATCTG
61035 TTTTTCTTTAAACAAATTT-TCTGTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTTTCTTTAAACAAATTTGTC--TCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
* * *
61099 TTTGGACAGTTTCTCTTGAAA-AATTTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATC
64 TTTAGACAGTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* *
61163 TTTTAATTTG
128 TTTGAATCTG
*
61173 TTTTTCTTTAAA-AAAATTGTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCTT
1 TTTTTCTTTAAACAAATTTGTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCTT
* * * *
61237 TAGACAGTTTCCCTTTAAACAAATTCTG--TCTCTTGAGACAGTTTCTCTTGAAACA
66 TAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
61292 CAAAAAACCT
Statistics
Matches: 236, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
134 25 0.11
136 65 0.28
137 9 0.04
138 133 0.56
139 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (137 bp):
TTTTTCTTTAAACAAATTTGTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCTT
TAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTT
GAATCTG
Found at i:61067 original size:65 final size:65
Alignment explanation
Indices: 60969--61206 Score: 151
Period size: 65 Copynumber: 3.6 Consensus size: 65
60959 TCTTTAGACA
* * * * * *
60969 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
1 GTTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
* ** * * * **
61034 GTTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAGGTTCTTTTGGAACTAAGT-TTTGTCTCT
1 GTTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
* * * * *
61098 CTTTGGACAGTTTCTCTTGAA-AAATTTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAAT
1 -GTT------TTTCT-TTAAACAAATTTTCTGTC-C-CCTGAGACAGTTTCCCTTGAAACAAAAT
* *
61162 CTTTTAATTT
56 CTTTGAATCT
* *
61172 GTTTTTCTTTAAAAAAATTGTC--TCCCCTGAGACAG
1 GTTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAG
61207 GTTCTTTTGG
Statistics
Matches: 126, Mismatches: 35, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
63 8 0.06
64 8 0.06
65 47 0.37
66 4 0.03
67 11 0.09
71 16 0.13
72 5 0.04
73 22 0.17
74 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (65 bp):
GTTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
Found at i:61078 original size:211 final size:212
Alignment explanation
Indices: 60693--61147 Score: 673
Period size: 211 Copynumber: 2.2 Consensus size: 212
60683 TAATTTACTC
*
60693 AAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTCTCAAAACAAAGTTTTGTCTATCTTGAGACA
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTCAAAACAAAGTTTTGTCTATCTTGAGACA
60758 GATTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
65 GATTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
* * *
60823 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
130 GTTTTCCTTGAAACAAATTTTCTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTC
*
60888 -TTGAGACATTTTCTCTT-
195 TTTG-GACAGTTTCTCTTG
* * * *** * * *
60905 AAAACAAATTTAGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAG
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTCAAAACAAAGTTTTGTCTATCTTGAGACAG
* *
60970 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTG
66 ATTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTG
* * *
61035 TTTTTCTTTAAACAAATTTTCTGTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCT
131 TTTTCCTTGAAACAAATTTTCTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCT
61100 TTGGACAGTTTCTCTTG
196 TTGGACAGTTTCTCTTG
** *
61117 AAAA-ATTTTTTGTCTCTCTTGAGACAATTTC
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTC
61148 CCTTGAAACA
Statistics
Matches: 217, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
211 202 0.93
212 15 0.07
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (212 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTCAAAACAAAGTTTTGTCTATCTTGAGACAG
ATTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTG
TTTTCCTTGAAACAAATTTTCTCTCCCCTGAGACAGGTTCTTTTGGAACTAAGTTTTGTCTCTCT
TTGGACAGTTTCTCTTG
Found at i:62050 original size:12 final size:12
Alignment explanation
Indices: 62029--62073 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
62019 AAATTTATTT
62029 TATA-TAATATA
1 TATATTAATATA
*
62040 TATATTAATATT
1 TATATTAATATA
62052 TATATT-ATATA
1 TATATTAATATA
62063 -ATATATAATAT
1 TATAT-TAATAT
62074 TATTCATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 4 0.14
11 9 0.31
12 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATTAATATA
Found at i:62055 original size:23 final size:23
Alignment explanation
Indices: 62027--62074 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
62017 TTAAATTTAT
62027 TTTATATAATAT-ATATATTAATA
1 TTTATATAATATAATATA-TAATA
*
62050 TTTATATTATATAATATATAATA
1 TTTATATAATATAATATATAATA
62073 TT
1 TT
62075 ATTCATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATATAATATAATATATAATA
Found at i:62059 original size:28 final size:28
Alignment explanation
Indices: 62016--62075 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
62006 GAATTCGTCC
*
62016 ATTAAATTTATTTTATATAATATAT-AT
1 ATTAAATTTATATTATATAATATATAAT
62043 ATTAATATTTATATTATATAATATATAAT
1 ATTAA-ATTTATATTATATAATATATAAT
62072 ATTA
1 ATTA
62076 TTCATTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 5 0.17
28 19 0.63
29 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTAAATTTATATTATATAATATATAAT
Found at i:63168 original size:3 final size:3
Alignment explanation
Indices: 63160--63185 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63150 GAATAGGGTT
63160 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
63186 CCATTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:63717 original size:16 final size:16
Alignment explanation
Indices: 63673--63725 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
63663 TTTCATCTTA
* *
63673 TTTTTTACATTATTAT
1 TTTTTTACTTTATTCT
*
63689 TTCTTTTATTTTATTCT
1 TT-TTTTACTTTATTCT
63706 TTTTTTACTTTATTCAT
1 TTTTTTACTTTATTC-T
63723 TTT
1 TTT
63726 CATTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTACTTTATTCT
Found at i:63734 original size:33 final size:33
Alignment explanation
Indices: 63654--63734 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 33
63644 TCATTTATCT
63654 TTTTCATTTTTTCATCTTATTTTTTACATTATTA
1 TTTTCATTTTTT-ATCTTATTTTTTACATTATTA
* *
63688 -TTTCTTTTATTTTAT-TCT-TTTTTTACTTTATTCA
1 TTTTC-ATT-TTTTATCT-TATTTTTTACATTATT-A
63722 TTTTCATTTTTTA
1 TTTTCATTTTTTA
63735 ACCTCTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
33 23 0.59
34 8 0.21
35 8 0.21
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (33 bp):
TTTTCATTTTTTATCTTATTTTTTACATTATTA
Found at i:69745 original size:14 final size:14
Alignment explanation
Indices: 69726--69756 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
69716 ATTAAAATCG
*
69726 AAATAAAAAAGAGT
1 AAATAAAAAAGAAT
69740 AAATAAAAAAGAAT
1 AAATAAAAAAGAAT
69754 AAA
1 AAA
69757 GGAAAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAATAAAAAAGAAT
Found at i:70524 original size:23 final size:24
Alignment explanation
Indices: 70498--70550 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
70488 ATAATATTTC
70498 GAAAAT-AAT-AATAAAAAACTATT
1 GAAAATAAATAAAT-AAAAACTATT
70521 GAAAATAAATAAATAAAAACTATT
1 GAAAATAAATAAATAAAAACTATT
*
70545 AAAAAT
1 GAAAAT
70551 TCAAAACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
GAAAATAAATAAATAAAAACTATT
Found at i:70810 original size:19 final size:20
Alignment explanation
Indices: 70786--70833 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
70776 TTTTATTGTG
*
70786 AGTGGAGGGAGACAAGGA-T
1 AGTGGAGGCAGACAAGGACT
70805 AGTGGAGGCAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
70825 AGTGGAGGC
1 AGTGGAGGC
70834 TTGGTGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.33, C:0.10, G:0.46, T:0.10
Consensus pattern (20 bp):
AGTGGAGGCAGACAAGGACT
Found at i:71649 original size:46 final size:44
Alignment explanation
Indices: 71582--71697 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
71572 CTTTGAATTG
* *
71582 GATATCCTTCG-CTGTAAAGTTGAAATCCAAT-GTTGTTTGTGAG-CAC
1 GATATCCTTCGTC-GTGAAGTTGAAAT-C-ATGGATGTTT-TGAGTC-C
*
71628 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTTGAGTCC
1 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGTTTTGAGTCC
*
71672 AATATCCTTCGTCGTGAAGTTGAAAT
1 GATATCCTTCGTCGTGAAGTTGAAAT
71698 TGGCTCTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
44 31 0.49
45 8 0.13
46 23 0.37
47 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (44 bp):
GATATCCTTCGTCGTGAAGTTGAAATCATGGATGTTTTGAGTCC
Found at i:71854 original size:168 final size:170
Alignment explanation
Indices: 71455--72041 Score: 1090
Period size: 170 Copynumber: 3.5 Consensus size: 170
71445 TGCTGGTGGA
* *
71455 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
*
71520 GTTGAAATTGGCTCTGAATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
71585 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
131 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
*
71625 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTTGAGTCCAATATCCTTCGTCGTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
* *
71690 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCATTCGCTGTGGAGTTGAGCTTT-AAATGGAT
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
71754 ATCCTTCGCTGTAAAGTTGAAATCCAATG-TGTTTGTGAG
131 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
71793 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
71858 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
66 GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
71923 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
131 ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
71963 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGT-GTGAA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
*
72027 GTTGAAATTGACTCT
66 GTTGAAATTGGCTCT
72042 AGCTAGAACC
Statistics
Matches: 405, Mismatches: 10, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
168 129 0.32
169 91 0.22
170 185 0.46
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (170 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAA
GTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGAT
ATCCTTCGCTGTAAAGTTGAAATCCAATGTTGTTTGTGAG
Found at i:72801 original size:11 final size:11
Alignment explanation
Indices: 72785--72818 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
72775 ACCCACCTTA
*
72785 TTTTTTTTTTG
1 TTTTTTTTTTC
72796 TTTTTTTTTTC
1 TTTTTTTTTTC
72807 TTTTTCTTTTTC
1 TTTTT-TTTTTC
72819 GACTTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:79509 original size:38 final size:38
Alignment explanation
Indices: 79433--79510 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
79423 TTAACAGTAG
* * *
79433 ATGCAGCTTTCCCTTTGGTAGAGGATGAGTCACGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTCACCGGTA
*
79471 ATGCAACTTTCCCTTTAGTAGCGGATGAGTC-CTCGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTCAC-CGGTA
79509 AT
1 AT
79511 ACTCCGGGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (38 bp):
ATGCAACTTTCCCTTTAGTAGAGGATGAGTCACCGGTA
Found at i:81794 original size:14 final size:14
Alignment explanation
Indices: 81775--81805 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
81765 ATTAAAATCG
*
81775 AAATAAAAAAGAGT
1 AAATAAAAAAGAAT
81789 AAATAAAAAAGAAT
1 AAATAAAAAAGAAT
81803 AAA
1 AAA
81806 GGAAAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAATAAAAAAGAAT
Found at i:82554 original size:25 final size:25
Alignment explanation
Indices: 82526--82580 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
82516 TAAAAGACAT
82526 ACTATTTCGAAAAT-AAT-AATAAAAA
1 ACTATTT-GAAAATAAATAAAT-AAAA
82551 ACTA-TTGAAAATAAATAAATAAAA
1 ACTATTTGAAAATAAATAAATAAAA
82575 ACTATT
1 ACTATT
82581 AAAAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.22
24 13 0.48
25 8 0.30
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (25 bp):
ACTATTTGAAAATAAATAAATAAAA
Found at i:82562 original size:23 final size:24
Alignment explanation
Indices: 82534--82586 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
82524 ATACTATTTC
82534 GAAAAT-AAT-AATAAAAAACTATT
1 GAAAATAAATAAAT-AAAAACTATT
82557 GAAAATAAATAAATAAAAACTATT
1 GAAAATAAATAAATAAAAACTATT
*
82581 AAAAAT
1 GAAAAT
82587 TCAAAACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
GAAAATAAATAAATAAAAACTATT
Found at i:82847 original size:20 final size:20
Alignment explanation
Indices: 82822--82870 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
82812 TTTTATTGTG
*
82822 AGTGGAGGGAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
82842 AGTGGAGGCAGACAAGGACT
1 AGTGGAGGCAGACAAGGACT
82862 AGTGGAGGC
1 AGTGGAGGC
82871 TTGGTGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.10
Consensus pattern (20 bp):
AGTGGAGGCAGACAAGGACT
Found at i:85658 original size:20 final size:20
Alignment explanation
Indices: 85611--85942 Score: 290
Period size: 20 Copynumber: 16.2 Consensus size: 20
85601 AATGACCAAC
* *
85611 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
85630 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
85650 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* **
85670 AAGATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
85691 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
*
85712 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
**
85732 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
85753 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
*
85774 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTTAG
* **
85794 AAAACCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* *
85815 AAGAATCGAAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
85836 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
**
85856 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* *
85877 AAGAATCGCAACGCGATTAAT
1 AA-AATCGCAACGCGATTTAG
*
85898 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTTAG
* *
85918 AAGATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
85938 AAAAT
1 AAAAT
85943 GAGTAAATTC
Statistics
Matches: 253, Mismatches: 49, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
19 18 0.07
20 158 0.62
21 25 0.10
22 52 0.21
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:85720 original size:42 final size:41
Alignment explanation
Indices: 85611--85942 Score: 306
Period size: 42 Copynumber: 8.1 Consensus size: 41
85601 AATGACCAAC
** *
85611 AAAATCGCAACGCGA-TATCAAAACCGCAACGCGATTT-AG
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTTCAG
* * * *
85650 AAAAGCGCAACGTTGA-AAAGAAGATCGCAACGCGATCTTCCA-
1 AAAATCGCAACG-CGATTAAGAAAATCGCAACGCGAT-TT-CAG
* * * *
85692 AGAATCGCAATGCGATTCATAAAATCGCAACGCGA-TTCAG
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTTCAG
***
85732 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGA-TTCAG
1 AAAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTTCAG
*
85774 AAAATCGCAACGCGATTAAGAAAACCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGAT-TT-CAG
* *
85816 AGAATCGAAACGCGATTAAGAAAATCGCAACGCGA-TTCAG
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTTCAG
*** * *
85856 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGA-TTAAT
1 AAAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTTCAG
*
85898 AAAATCGCAACGCGATTAAGAAGATCGCAACGCGA-TTCAG
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTTCAG
85938 AAAAT
1 AAAAT
85943 GAGTAAATTC
Statistics
Matches: 239, Mismatches: 40, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
39 15 0.06
40 81 0.34
41 16 0.07
42 124 0.52
43 3 0.01
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (41 bp):
AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTTCAG
Found at i:85721 original size:62 final size:62
Alignment explanation
Indices: 85611--85933 Score: 456
Period size: 62 Copynumber: 5.3 Consensus size: 62
85601 AATGACCAAC
* * * * * *
85611 AAAATCGCAACGCGAT-AT-CAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACG-CGATTAAG
* * * * *
85670 AAGATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
*
85732 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
* * *
85794 AAAACCGCAACGCGATCTTCCAAGAATCGAAACGCGATTAAGAAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
*
85856 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAATAAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
*
85918 AAGATCGCAACGCGAT
1 AAAATCGCAACGCGAT
85934 TCAGAAAATG
Statistics
Matches: 237, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
59 15 0.06
60 1 0.00
61 5 0.02
62 216 0.91
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.16
Consensus pattern (62 bp):
AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTAAG
Found at i:86053 original size:6 final size:6
Alignment explanation
Indices: 86044--86135 Score: 161
Period size: 6 Copynumber: 15.5 Consensus size: 6
86034 TATTACCATT
86044 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
86092 ACCACG ACCACG AACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG -ACCACG ACCACG ACCACG ACCACG ACCACG ACC
86136 CGAGACGAGA
Statistics
Matches: 85, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.12
6 69 0.81
7 6 0.07
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:86622 original size:6 final size:6
Alignment explanation
Indices: 86613--86661 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
86603 CGCCGCCGTC
86613 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
86661 T
1 T
86662 AATACGTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:86800 original size:20 final size:20
Alignment explanation
Indices: 86753--87015 Score: 217
Period size: 20 Copynumber: 12.8 Consensus size: 20
86743 GAAAGAATTT
**
86753 ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATT-TTCTAA
*
86774 GATCGCGTTGCGATTTTCTTA
1 -ATCGCGTTGCGATTTTCTAA
**
86795 ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATT-TTCTAA
**
86816 GATCGCGTTGCGATTCTT-GGA
1 -ATCGCGTTGCGATT-TTCTAA
*
86837 ATCGCGTTGCGATTTTCTGA
1 ATCGCGTTGCGATTTTCTAA
**
86857 ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATT-TTCTAA
*
86878 GATCGCGTTGCGATTTTCTGA
1 -ATCGCGTTGCGATTTTCTAA
*
86899 ATCGCGTTGCGATTTTCTGA
1 ATCGCGTTGCGATTTTCTAA
**
86919 ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATT-TTCTAA
* *
86940 GATCGCGTTGCGATCTTCT-T
1 -ATCGCGTTGCGATTTTCTAA
* * *
86960 TTCAACGTTGCGCTTTTCTAA
1 ATC-GCGTTGCGATTTTCTAA
* * *
86981 ATCGCGTTGCGGTTTT-GAT
1 ATCGCGTTGCGATTTTCTAA
87000 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
87016 GTTGGTCATT
Statistics
Matches: 200, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
19 20 0.10
20 101 0.50
21 21 0.10
22 58 0.29
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.38
Consensus pattern (20 bp):
ATCGCGTTGCGATTTTCTAA
Found at i:86812 original size:42 final size:42
Alignment explanation
Indices: 86753--86959 Score: 241
Period size: 42 Copynumber: 5.0 Consensus size: 42
86743 GAAAGAATTT
86753 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTA
1 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTA
86795 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGA--TTCTTGGA
1 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTT--A
* ***
86837 ATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATT-TTCTTA
* *
86878 GATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTTTCTGA
1 -ATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATTTTCTTA
*
86919 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTCTT
1 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTT
86960 TTCAACGTTG
Statistics
Matches: 145, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
40 32 0.22
41 10 0.07
42 101 0.70
43 2 0.01
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.37
Consensus pattern (42 bp):
ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTA
Found at i:86860 original size:62 final size:62
Alignment explanation
Indices: 86753--87013 Score: 352
Period size: 62 Copynumber: 4.2 Consensus size: 62
86743 GAAAGAATTT
*
86753 ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
86817 ATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
*
86879 ATCGCGTTGCGATT-TTCTGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
**** * * * * *
86941 ATCGCGTTGCGA-TCTTCTTTTCAACGTTGCGCTTTTCTAAATCGCGTTGCGGTT-TT-G-AT
1 ATCGCGTTGCGATTCTTGGAATC-GCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
87000 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
87014 TTGTTGGTCA
Statistics
Matches: 182, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
59 13 0.07
60 2 0.01
61 7 0.04
62 140 0.77
63 1 0.01
64 19 0.10
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.38
Consensus pattern (62 bp):
ATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
Found at i:86969 original size:42 final size:41
Alignment explanation
Indices: 86751--87013 Score: 209
Period size: 42 Copynumber: 6.4 Consensus size: 41
86741 TTGAAAGAAT
*
86751 TTATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTC
1 TTATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTC
*
86792 TTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTCTTG
1 TT-ATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGA-TCTTC
** * *
86835 GAATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTCTTGGA
1 TTATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGA-TCTT--C
** * *
86877 AGATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTTTC
1 TTATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATCTTC
*
86916 TGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTC
1 T-TATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTC
* * * ** * * *
86958 TTTTCAACGTTGCGCTT-TTCTAA-ATCGCGTTGCGGTTTTG
1 TTATC-GCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTC
*
86998 ATATCGCGTTGCGATT
1 TTATCGCGTTGCGATT
87014 TTGTTGGTCA
Statistics
Matches: 185, Mismatches: 27, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
39 9 0.05
40 49 0.26
41 17 0.09
42 107 0.58
43 3 0.02
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.38
Consensus pattern (41 bp):
TTATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATCTTC
Found at i:92419 original size:33 final size:37
Alignment explanation
Indices: 92356--92436 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 37
92346 GGCCGGTTTT
*
92356 TTATTT-TAAAAATTCAAGTTCGAGTCAAG-TT-GAA
1 TTATTTGTAAAAATTCAAGGTCGAGTCAAGTTTAGAA
*
92390 TTATTTGTAAAAA-T-AAGGTCGAGTTAAGTTTAGAA
1 TTATTTGTAAAAATTCAAGGTCGAGTCAAGTTTAGAA
*
92425 TTA-TGGTAAAAA
1 TTATTTGTAAAAA
92437 AAAGTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 12 0.29
34 17 0.41
35 12 0.29
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (37 bp):
TTATTTGTAAAAATTCAAGGTCGAGTCAAGTTTAGAA
Found at i:99520 original size:22 final size:22
Alignment explanation
Indices: 99463--99514 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
99453 GACTCGTTCG
99463 TTCATTTACTTTCGATAATATA
1 TTCATTTACTTTCGATAATATA
99485 TTCATTTACTTTCGATAATATA
1 TTCATTTACTTTCGATAATATA
99507 TTCATTTA
1 TTCATTTA
99515 TGTTCGTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (22 bp):
TTCATTTACTTTCGATAATATA
Found at i:99536 original size:24 final size:24
Alignment explanation
Indices: 99507--99580 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
99497 CGATAATATA
99507 TTCATTTATGTTCGTTCGTTTATG
1 TTCATTTATGTTCGTTCGTTTATG
*
99531 TTCATTTATGTTCGTTCGTTTATA
1 TTCATTTATGTTCGTTCGTTTATG
** * *
99555 TTTGTTTATGTTCGATCATTTATG
1 TTCATTTATGTTCGTTCGTTTATG
99579 TT
1 TT
99581 TAGATCAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (24 bp):
TTCATTTATGTTCGTTCGTTTATG
Found at i:99795 original size:24 final size:24
Alignment explanation
Indices: 99768--99833 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
99758 GTTGTTGCGG
99768 TTTATGTTCGTTTACGTTTG-TACA
1 TTTATGTTCGTTTACGTTTGAT-CA
* * *
99792 TTTATGTTCATTTGCGTTTGATCG
1 TTTATGTTCGTTTACGTTTGATCA
* *
99816 TTTGTGTTCGTTGACGTT
1 TTTATGTTCGTTTACGTT
99834 CGTTTATTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (24 bp):
TTTATGTTCGTTTACGTTTGATCA
Found at i:105078 original size:37 final size:37
Alignment explanation
Indices: 105019--105105 Score: 133
Period size: 37 Copynumber: 2.4 Consensus size: 37
105009 TTTTCACCCT
105019 AAATCCGAACCCGACCTAACCCGAATATCACACTTAAA
1 AAATCCG-ACCCGACCTAACCCGAATATCACACTTAAA
*
105057 AAATCCGACCCGA-CTCGACCCGAATATCACACTTAAA
1 AAATCCGACCCGACCT-AACCCGAATATCACACTTAAA
105094 AAA-CCGACCCGA
1 AAATCCGACCCGA
105106 ACAAAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 11 0.23
37 29 0.62
38 7 0.15
ACGTcount: A:0.40, C:0.36, G:0.10, T:0.14
Consensus pattern (37 bp):
AAATCCGACCCGACCTAACCCGAATATCACACTTAAA
Found at i:105315 original size:33 final size:35
Alignment explanation
Indices: 105273--105357 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 35
105263 CCTAAACCAG
*
105273 AACCCGAT-C-CAACCTGAATATCACACTTAAAAA
1 AACCCGATCCTCAACCCGAATATCACACTTAAAAA
*
105306 AACCCGATCCTCGACCCGAATATCACACTT-AAAA
1 AACCCGATCCTCAACCCGAATATCACACTTAAAAA
*
105340 AACCTGA-CC-CAACCCGAA
1 AACCCGATCCTCAACCCGAA
105358 CAAAATAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 8 0.17
33 10 0.22
34 11 0.24
35 17 0.37
ACGTcount: A:0.41, C:0.35, G:0.08, T:0.15
Consensus pattern (35 bp):
AACCCGATCCTCAACCCGAATATCACACTTAAAAA
Found at i:105417 original size:251 final size:240
Alignment explanation
Indices: 104978--105572 Score: 876
Period size: 251 Copynumber: 2.4 Consensus size: 240
104968 TATAAGGTGA
104978 AATTATATATATTTTTCGGGTCGGT-CCGTTTTTTTCACCCTAAATCCGAACCCGACCTAACCCG
1 AATTATATATA-TTTTCGGGTCGGTCCCGTTTTTTTCACCCTAAA-CCGAACCCGACC-AACCCG
105042 AATATCACACTTAAAAAATCCGACCCGA-CTCGACCCGAATATCACACTTAAAAAACCGACCCGA
63 AATATCACACTTAAAAAA----ACCCGATCTCGACCCGAATATCACACTTAAAAAACCGACCCGA
** *
105106 ACAAAATAAAGTTTCATCTTACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGA-AA
124 ACAAAATAAAGTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCGACCCGACCCGACAA
*
105170 TAATAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
189 -AATAAAAAA--AATTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
*
105225 AATTATATATATTTTCGGGTCGGTCCCGTTTTTTTCACCCTAAACCAGAACCCGATCCAACCTGA
1 AATTATATATATTTTCGGGTCGGTCCCGTTTTTTTCACCCTAAACC-GAACCCGA-CCAACCCGA
105290 ATATCACACTTAAAAAAACCCGATCCTCGACCCGAATATCACACTTAAAAAACCTGACCCAACCC
64 ATATCACACTTAAAAAAACCCGAT-CTCGACCCGAATATCACACTTAAAAAACC-G-----ACCC
105355 GAACAAAATAAAGTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCGACCCGACCCGAC
122 GAACAAAATAAAGTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCGACCCGACCCGA-
*
105420 CCGAAATAAAAAAAATTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
186 -CAAAATAAAAAAAATTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
* *
105476 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCG-ACCCGACCCGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCCGTTTTTTTCACCCTAAA-CCGAACCCGA-CCAACCCGA
105540 ATATCACACTTAAAAAAACCCGATC-CGACCCGA
64 ATATCACACTTAAAAAAACCCGATCTCGACCCGA
105573 CCAAAATAAA
Statistics
Matches: 323, Mismatches: 10, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
243 6 0.02
245 29 0.09
246 16 0.05
247 61 0.19
248 10 0.03
249 1 0.00
250 37 0.11
251 151 0.47
252 2 0.01
253 9 0.03
254 1 0.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (240 bp):
AATTATATATATTTTCGGGTCGGTCCCGTTTTTTTCACCCTAAACCGAACCCGACCAACCCGAAT
ATCACACTTAAAAAAACCCGATCTCGACCCGAATATCACACTTAAAAAACCGACCCGAACAAAAT
AAAGTTTCATCCGACCCGACACGAATATATGAATTAGAAATCCGACCCGACCCGACAAAATAAAA
AAAATTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
Found at i:110314 original size:28 final size:28
Alignment explanation
Indices: 110279--110332 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
110269 CCAATCGTAT
* *
110279 AAAATTCATGAAACTTGTGAGACAAACA
1 AAAATTCATGAAACTAGTGACACAAACA
110307 AAAATTCATGAAACTAGTGACACAAA
1 AAAATTCATGAAACTAGTGACACAAA
110333 GTTGCCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (28 bp):
AAAATTCATGAAACTAGTGACACAAACA
Found at i:113075 original size:2 final size:2
Alignment explanation
Indices: 113068--113098 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113058 TTGTTGTCTT
113068 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 T
113099 TCAACTCAAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118385 original size:15 final size:16
Alignment explanation
Indices: 118360--118390 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
118350 TCGATCCATC
118360 ATGGTTCACTGCTATT
1 ATGGTTCACTGCTATT
118376 ATGG-TCACTGCTATT
1 ATGGTTCACTGCTATT
118391 GCGGAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (16 bp):
ATGGTTCACTGCTATT
Found at i:120614 original size:14 final size:14
Alignment explanation
Indices: 120595--120650 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
120585 CGTTCGTGAA
120595 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
120609 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
120623 CG-T---TTATGTT
1 CGTTCGGTTATGTT
* *
120633 TGTTCGATTATGTT
1 CGTTCGGTTATGTT
120647 CGTT
1 CGTT
120651 TATGTTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
13 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:120623 original size:24 final size:24
Alignment explanation
Indices: 120596--120670 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
120586 GTTCGTGAAC
* *
120596 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
120620 GTTCGTTTATGTTTGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
120644 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
120668 GTT
1 GTT
120671 TAACCCAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:121412 original size:10 final size:10
Alignment explanation
Indices: 121397--121471 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
121387 GGGTCTCCAA
121397 CGTTTATGTT
1 CGTTTATGTT
121407 CGTTTATGTT
1 CGTTTATGTT
121417 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
121428 ATGTTCGTGTT
1 -CGTTTATGTT
121439 CGTTTATGTT
1 CGTTTATGTT
121449 CG----TGTT
1 CGTTTATGTT
121455 CGTTTATGTT
1 CGTTTATGTT
121465 CGTTTAT
1 CGTTTAT
121472 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:121428 original size:16 final size:16
Alignment explanation
Indices: 121403--121467 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
121393 CCAACGTTTA
121403 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
121419 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
121435 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
121451 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
121467 T
1 T
121468 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:121558 original size:16 final size:16
Alignment explanation
Indices: 121537--121569 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
121527 AAAAAAATTT
121537 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
121553 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
121569 T
1 T
121570 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:122011 original size:7 final size:7
Alignment explanation
Indices: 122001--122038 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
121991 GGATAAGCAC
122001 GTGGAAA
1 GTGGAAA
122008 GTGGAAA
1 GTGGAAA
122015 GTGGAAA
1 GTGGAAA
122022 GTGGAAA
1 GTGGAAA
122029 GTGGAAA
1 GTGGAAA
122036 GTG
1 GTG
122039 AAAAAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (7 bp):
GTGGAAA
Found at i:134479 original size:291 final size:291
Alignment explanation
Indices: 133950--134528 Score: 1041
Period size: 291 Copynumber: 2.0 Consensus size: 291
133940 AGGAGAATGC
133950 GATTACAAGTGAGGTTGGAACTCAGGGGGATGTGGCAGAGTTGGTGGTTGAGCAGAAAGAGAAGG
1 GATTACAAGTGAGGTTGGAACTCAGGGGGATGTGGCAGAGTTGGTGGTTGAGCAGAAAGAGAAGG
* * * *
134015 AAGTGTTGAGCGGGGAGAGTGTTGTTGGCGGTGTGGCGTTGGATAAGATTGACGATGGAGGGACT
66 AACTGTTGAGCGGGGAGAGTGTTGGTGGCAGTGTGGCGATGGATAAGATTGACGATGGAGGGACT
* *
134080 GAAATGGGAGGAAAGGCTGATGAATTGAATGGTGGCCTGGAAGTACCTGAAATCAGAGGTACTGG
131 GAAATGGGAGCAAAGGCTGATGAATTGAATGGTGGCCTGGAAGTACCTGAAATCAGAGGTACCGG
* *
134145 AGAAACAGCTGTTCTGAGGGATGATGAAAAGGGAAATCTGAAGTCTGATACTGTAACTGAGATGC
196 AGAAACAGCTGTTCTGAGGGATGAGGAAAAAGGAAATCTGAAGTCTGATACTGTAACTGAGATGC
134210 CTGTAAAAGGTGATACCGATAAGGCACATGT
261 CTGTAAAAGGTGATACCGATAAGGCACATGT
* *
134241 GATTCCAAGTGAGGTTGGAACTCAGGGGGATGTGGCAGAGTTGGTGGTTGAGCAGCAAGAGAAGG
1 GATTACAAGTGAGGTTGGAACTCAGGGGGATGTGGCAGAGTTGGTGGTTGAGCAGAAAGAGAAGG
* *
134306 AACTGTTGAGTGGGGAGAGTGTTGGTGGCAGTGTGGTGATGGATAAGATTGACGATGGAGGGACT
66 AACTGTTGAGCGGGGAGAGTGTTGGTGGCAGTGTGGCGATGGATAAGATTGACGATGGAGGGACT
*
134371 GAAATGGGAGCAAAGTCTGATGAATTGAATGGTGGCCTGGAAGTACCTGAAATCAGAGGTACCGG
131 GAAATGGGAGCAAAGGCTGATGAATTGAATGGTGGCCTGGAAGTACCTGAAATCAGAGGTACCGG
134436 AGAAACAGCTGTTCTGAGGGATGAGGAAAAAGGAAATCTGAAGTCTGATACTGTAACTGAGATGC
196 AGAAACAGCTGTTCTGAGGGATGAGGAAAAAGGAAATCTGAAGTCTGATACTGTAACTGAGATGC
134501 CTGTAAAAGGTGATACCGATAAGGCACA
261 CTGTAAAAGGTGATACCGATAAGGCACA
134529 CGTAGAGGGA
Statistics
Matches: 275, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
291 275 1.00
ACGTcount: A:0.30, C:0.11, G:0.37, T:0.22
Consensus pattern (291 bp):
GATTACAAGTGAGGTTGGAACTCAGGGGGATGTGGCAGAGTTGGTGGTTGAGCAGAAAGAGAAGG
AACTGTTGAGCGGGGAGAGTGTTGGTGGCAGTGTGGCGATGGATAAGATTGACGATGGAGGGACT
GAAATGGGAGCAAAGGCTGATGAATTGAATGGTGGCCTGGAAGTACCTGAAATCAGAGGTACCGG
AGAAACAGCTGTTCTGAGGGATGAGGAAAAAGGAAATCTGAAGTCTGATACTGTAACTGAGATGC
CTGTAAAAGGTGATACCGATAAGGCACATGT
Found at i:139800 original size:17 final size:18
Alignment explanation
Indices: 139764--139804 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
139754 ATATTATGTA
*
139764 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
139782 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
139799 TTTACT
1 TTTACT
139805 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:143136 original size:19 final size:20
Alignment explanation
Indices: 143097--143149 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
143087 ACGGGTCGTG
143097 ACCGGTTAAACCGGTTCAAA
1 ACCGGTTAAACCGGTTCAAA
* *
143117 ATCGGTTAAATCGG-TCAAA
1 ACCGGTTAAACCGGTTCAAA
143136 ACCGG-T-AACCGGTT
1 ACCGGTTAAACCGGTT
143150 TCCAGCGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.18
18 2 0.07
19 9 0.32
20 12 0.43
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (20 bp):
ACCGGTTAAACCGGTTCAAA
Found at i:151149 original size:3 final size:3
Alignment explanation
Indices: 151141--151165 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
151131 GAATTGGGTT
151141 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
151166 ATTTACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:152636 original size:31 final size:31
Alignment explanation
Indices: 152587--152680 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
152577 TCCGAAGGAC
*
152587 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
152618 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
152649 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
152680 C
1 C
152681 CCTCGACCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:156300 original size:29 final size:30
Alignment explanation
Indices: 156261--156317 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
156251 GTCTGAAGTG
*
156261 TCATATGAC-TTTCAAAACA-TTATTCGTGT
1 TCATATAACTTTTC-AAACATTTATTCGTGT
156290 TCATATAACTTTTCAAACATTTATTCGT
1 TCATATAACTTTTCAAACATTTATTCGT
156318 ATAAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.44
Consensus pattern (30 bp):
TCATATAACTTTTCAAACATTTATTCGTGT
Found at i:156646 original size:17 final size:16
Alignment explanation
Indices: 156626--156667 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
156616 AATGCATACT
*
156626 TATACATATATCATTAA
1 TATACAT-TATCAGTAA
*
156643 TATAC-TTATCAGTAC
1 TATACATTATCAGTAA
156658 TATACATTAT
1 TATACATTAT
156668 TAATTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (16 bp):
TATACATTATCAGTAA
Found at i:156965 original size:31 final size:31
Alignment explanation
Indices: 156927--157020 Score: 163
Period size: 31 Copynumber: 3.0 Consensus size: 31
156917 TCCGAAGGAC
*
156927 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
156958 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
156989 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
157020 C
1 C
157021 CCTCGACCCT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 60 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.18
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:157779 original size:64 final size:64
Alignment explanation
Indices: 157641--157802 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 64
157631 TCTTTCAATG
* *
157641 AAAGTATGCATCGATGCACTACTGATGCATCGGTGAATAAAATGCATTTCGATGTTGTTTATTA
1 AAAGTATGCATCGATGCACTACTAATGCATCGATGAATAAAATGCATTTCGATGTTGTTTATTA
*** * * * *
157705 CTGGTATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCA-TTCGATGTT-TTTATTTA
1 AAAGTATGCATCGATGCACTACTAATGCATCGATGAATAAAATGCATTTCGATGTTGTTTA-TT-
157768 A
64 A
*
157769 AAAG-AGTGCATCGATGCACTACCAATGCATCGAT
1 AAAGTA-TGCATCGATGCACTACTAATGCATCGAT
157803 ACACCTTCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
62 4 0.05
63 12 0.15
64 66 0.80
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (64 bp):
AAAGTATGCATCGATGCACTACTAATGCATCGATGAATAAAATGCATTTCGATGTTGTTTATTA
Found at i:161139 original size:12 final size:12
Alignment explanation
Indices: 161119--161151 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
161109 AATAAGTATA
*
161119 ATAAAAAAATTT
1 ATAACAAAATTT
161131 ATAACAAAATTT
1 ATAACAAAATTT
161143 ATAACAAAA
1 ATAACAAAA
161152 AATCGCACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAACAAAATTT
Found at i:161681 original size:34 final size:34
Alignment explanation
Indices: 161633--161699 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
161623 GGAAAAAACA
161633 CCCGTTAATAGTAGTTTACCCTGATAATTAAATG
1 CCCGTTAATAGTAGTTTACCCTGATAATTAAATG
*
161667 CCCGTTAATCGTAGTTTACCCTGATAATTAAAT
1 CCCGTTAATAGTAGTTTACCCTGATAATTAAAT
161700 ACTGCGTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (34 bp):
CCCGTTAATAGTAGTTTACCCTGATAATTAAATG
Found at i:168123 original size:29 final size:29
Alignment explanation
Indices: 168089--168147 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
168079 CCTAAATTAA
168089 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
168118 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
168147 T
1 T
168148 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:172807 original size:28 final size:29
Alignment explanation
Indices: 172774--172831 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
172764 CCTAAATTAA
172774 TTTGATGTCATTGCTTACATCAA-TTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
172802 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
172831 T
1 T
172832 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:196419 original size:19 final size:20
Alignment explanation
Indices: 196378--196423 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
196368 ATTATATATA
*
196378 TTGAAAAAAACACATAAATT
1 TTGAAAAAAACACATAAACT
* *
196398 TTGAAATAAAC-CCTAAACT
1 TTGAAAAAAACACATAAACT
196417 TTGAAAA
1 TTGAAAA
196424 CCTTCATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (20 bp):
TTGAAAAAAACACATAAACT
Found at i:197732 original size:13 final size:13
Alignment explanation
Indices: 197714--197758 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
197704 ACTAACTAAC
*
197714 TGATTTGATTAGT
1 TGATTTGATTAAT
**
197727 TGATTTGAAAAAT
1 TGATTTGATTAAT
197740 TGATTTGATTAAT
1 TGATTTGATTAAT
197753 TG-TTTG
1 TGATTTG
197759 GTAAAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (13 bp):
TGATTTGATTAAT
Found at i:197743 original size:26 final size:27
Alignment explanation
Indices: 197714--197781 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
197704 ACTAACTAAC
197714 TGATTTGATTAGTTGATTT-GAAAAAT
1 TGATTTGATTAGTTGATTTGGAAAAAT
* *
197740 TGATTTGATTAATTG-TTTGGTAAAAT
1 TGATTTGATTAGTTGATTTGGAAAAAT
* *
197766 TTAGTTGA-TAGTTGAT
1 TGATTTGATTAGTTGAT
197782 ATAGGTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (27 bp):
TGATTTGATTAGTTGATTTGGAAAAAT
Found at i:199616 original size:44 final size:44
Alignment explanation
Indices: 199563--199648 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
199553 CAGCTCGTAA
*
199563 TTTGCACCGAAATGCCACATAATTGTCCCGAATGACCACATAGG
1 TTTGCACCGAAATGCCACATAATTGTCCCGAAGGACCACATAGG
* * *
199607 TTTGCACCGAAGTGCCACATATTTGTCCCGAAGGACTACATA
1 TTTGCACCGAAATGCCACATAATTGTCCCGAAGGACCACATA
199649 ATTATCCCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAATGCCACATAATTGTCCCGAAGGACCACATAGG
Found at i:199639 original size:21 final size:22
Alignment explanation
Indices: 199569--199670 Score: 90
Period size: 21 Copynumber: 4.8 Consensus size: 22
199559 GTAATTTGCA
*
199569 CCGAAATG-CCACATAATTGTC
1 CCGAAGTGACCACATAATTGTC
*
199590 CCGAA-TGACCACATAGGTT-TGC
1 CCGAAGTGACCACATA-ATTGT-C
*
199612 ACCGAAGTG-CCACATATTTGTC
1 -CCGAAGTGACCACATAATTGTC
* *
199634 CCGAAG-GACTACATAATTATC
1 CCGAAGTGACCACATAATTGTC
199655 CCGAAG-GACCACATAA
1 CCGAAGTGACCACATAA
199671 AACCCTCGAC
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.04
21 44 0.65
22 6 0.09
23 13 0.19
24 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (22 bp):
CCGAAGTGACCACATAATTGTC
Found at i:199757 original size:13 final size:15
Alignment explanation
Indices: 199729--199760 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
199719 TACTTTGGGC
199729 TATTAATCACATCAT
1 TATTAATCACATCAT
199744 TATT-ATCA-ATCAT
1 TATTAATCACATCAT
199757 TATT
1 TATT
199761 CGAAGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATCACATCAT
Found at i:200358 original size:41 final size:41
Alignment explanation
Indices: 200312--200447 Score: 218
Period size: 41 Copynumber: 3.3 Consensus size: 41
200302 TCATTCTGGC
*
200312 ATCGATACTACCCATACAGTATTGATACCCCTTCAACCGGT
1 ATCGATACTACCCATACAGTATCGATACCCCTTCAACCGGT
* **
200353 ATCGATACTATCCATACAGTATCGATACCCCTTCAACCAAT
1 ATCGATACTACCCATACAGTATCGATACCCCTTCAACCGGT
*
200394 ATCGATACTACTCATACAGTATCGATACCCCTTCAACCGGT
1 ATCGATACTACCCATACAGTATCGATACCCCTTCAACCGGT
*
200435 ATGGATACTACCC
1 ATCGATACTACCC
200448 TTAATAATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.26
Consensus pattern (41 bp):
ATCGATACTACCCATACAGTATCGATACCCCTTCAACCGGT
Found at i:200359 original size:21 final size:21
Alignment explanation
Indices: 200328--200442 Score: 94
Period size: 21 Copynumber: 5.6 Consensus size: 21
200318 ACTACCCATA
*
200328 CAGTATTGATACCCCTTCAAC
1 CAGTATCGATACCCCTTCAAC
* ** *
200349 CGGTATCGATA-CTATCCATA-
1 CAGTATCGATACCCCTTCA-AC
200369 CAGTATCGATACCCCTTCAAC
1 CAGTATCGATACCCCTTCAAC
* **
200390 CAATATCGATACTAC-TCATA-
1 CAGTATCGATACCCCTTCA-AC
200410 CAGTATCGATACCCCTTCAAC
1 CAGTATCGATACCCCTTCAAC
* *
200431 CGGTATGGATAC
1 CAGTATCGATAC
200443 TACCCTTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
20 31 0.44
21 40 0.56
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (21 bp):
CAGTATCGATACCCCTTCAAC
Found at i:200376 original size:20 final size:20
Alignment explanation
Indices: 200351--200421 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
200341 CCTTCAACCG
200351 GTATCGATACTATCCATACA
1 GTATCGATACTATCCATACA
** *
200371 GTATCGATACCCCTTCA-ACCA
1 GTATCGATA-CTATCCATA-CA
*
200392 ATATCGATACTA-CTCATACA
1 GTATCGATACTATC-CATACA
200412 GTATCGATAC
1 GTATCGATAC
200422 CCCTTCAACC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 24 0.62
21 15 0.38
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (20 bp):
GTATCGATACTATCCATACA
Found at i:202812 original size:8 final size:8
Alignment explanation
Indices: 202799--202824 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
202789 CCTGCCACTT
202799 TTTTATTA
1 TTTTATTA
202807 TTTTATTA
1 TTTTATTA
202815 TTTTATTA
1 TTTTATTA
202823 TT
1 TT
202825 CAATTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:206633 original size:15 final size:16
Alignment explanation
Indices: 206609--206644 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
206599 AACTAGAGTA
*
206609 TTTTATTAAAGTAACT
1 TTTTATTAAAATAACT
206625 TTTTA-TAAAATAACT
1 TTTTATTAAAATAACT
206640 TTTTA
1 TTTTA
206645 CTTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTATTAAAATAACT
Found at i:206811 original size:17 final size:17
Alignment explanation
Indices: 206789--206825 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
206779 TCTCTTTGTG
* *
206789 TTTTTCCCAAAAGGGTT
1 TTTTTCACAAAAGGATT
206806 TTTTTCACAAAAGGATT
1 TTTTTCACAAAAGGATT
206823 TTT
1 TTT
206826 CACGTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (17 bp):
TTTTTCACAAAAGGATT
Found at i:218856 original size:28 final size:28
Alignment explanation
Indices: 218813--218905 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
218803 ATCGGATCGG
*
218813 CCGGTTCAACCGGGAACCGTTGTCTAGT
1 CCGGTTCAACCGGGAACCGCTGTCTAGT
*
218841 CCGGTTCAACCAGGAACCGCTGTCTAGT
1 CCGGTTCAACCGGGAACCGCTGTCTAGT
218869 CCGGTTCAACCGGGAACCGCTGTCTAGT
1 CCGGTTCAACCGGGAACCGCTGTCTAGT
218897 CCGGTTCAA
1 CCGGTTCAA
218906 ACTACACCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (28 bp):
CCGGTTCAACCGGGAACCGCTGTCTAGT
Found at i:228305 original size:133 final size:136
Alignment explanation
Indices: 228148--228398 Score: 384
Period size: 133 Copynumber: 1.9 Consensus size: 136
228138 CTTAATAAAA
* * *
228148 TTTTCAATTATAACCGATTGTAATCTTTTTTAAATCTTATATTAATCGGTTATATCTTATACT-C
1 TTTTCAATTACAACCGATTATAATCTTTTTTAAATCTTATATTAATCGATTATATCTTATACTCC
* **
228212 TC-CTCT-TTTTTTCATTTCGTTTAGAAACAAC-ATTTCATTTTGTTAAAAAAAGAAACTATTAT
66 CCTCTCTCTTTTTTCATTTCGTTTAGAAAC-ACTATTTCATACTGTTAAAAAAAGAAACTATTAT
228274 TTTTTAT
130 TTTTTAT
* *
228281 TTTTCAATTACAACCGATTATAATCTTTTTTTAATCTTATATTAATTGATTATATCTTATACTCC
1 TTTTCAATTACAACCGATTATAATCTTTTTTAAATCTTATATTAATCGATTATATCTTATACTCC
*
228346 CCTCTCTCTTTTTTCCTTTCGTTTAGAAACACTATTTCATACTGTTAAAAAAA
66 CCTCTCTCTTTTTTCATTTCGTTTAGAAACACTATTTCATACTGTTAAAAAAA
228399 ATATTTTAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
133 58 0.55
134 2 0.02
135 6 0.06
136 39 0.37
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (136 bp):
TTTTCAATTACAACCGATTATAATCTTTTTTAAATCTTATATTAATCGATTATATCTTATACTCC
CCTCTCTCTTTTTTCATTTCGTTTAGAAACACTATTTCATACTGTTAAAAAAAGAAACTATTATT
TTTTAT
Found at i:230002 original size:23 final size:23
Alignment explanation
Indices: 229976--230021 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
229966 TAAGAAGAAT
229976 TATAATTAAAAGTTAAAACTAAA
1 TATAATTAAAAGTTAAAACTAAA
* * *
229999 TATAATTATAATTTAAAATTAAA
1 TATAATTAAAAGTTAAAACTAAA
230022 ATTAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TATAATTAAAAGTTAAAACTAAA
Found at i:230009 original size:29 final size:28
Alignment explanation
Indices: 229973--230041 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
229963 AATTAAGAAG
229973 AATTATAATTAAAAGTTAAAACTAAATAT
1 AATTATAATTAAAA-TTAAAACTAAATAT
* *
230002 AATTATAATTTAAAATTAAAATTAAATGT
1 AATTATAA-TTAAAATTAAAACTAAATAT
*
230031 AATTAGAATTA
1 AATTATAATTA
230042 TAGGATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.08
29 27 0.75
30 6 0.17
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
AATTATAATTAAAATTAAAACTAAATAT
Found at i:237021 original size:42 final size:42
Alignment explanation
Indices: 236962--237058 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
236952 CCCCACTTCG
* * * *
236962 AGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACACCC
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
*
237004 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACG
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
237046 AGAGCCATCACCT
1 AGAGCCATCACCT
237059 ATTCCATCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
Found at i:237652 original size:21 final size:21
Alignment explanation
Indices: 237624--237681 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
237614 GATTCACCTG
237624 TCATCGTTCAAAAGGCCACTC
1 TCATCGTTCAAAAGGCCACTC
* * *
237645 TTATCGTTCAATAGGCCCCTC
1 TCATCGTTCAAAAGGCCACTC
*
237666 TCATCGTTCAAGAGGC
1 TCATCGTTCAAAAGGC
237682 TCCTCCCACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (21 bp):
TCATCGTTCAAAAGGCCACTC
Found at i:238661 original size:18 final size:18
Alignment explanation
Indices: 238635--238675 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
238625 AAGTGAAGCC
* *
238635 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
238653 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
238671 GATTT
1 GATTT
238676 CCTTTTGCTT
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:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:240721 original size:3 final size:3
Alignment explanation
Indices: 240713--240746 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
240703 TCTTTGGAGA
240713 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
240747 AGGGTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:247469 original size:20 final size:21
Alignment explanation
Indices: 247444--247589 Score: 63
Period size: 20 Copynumber: 6.9 Consensus size: 21
247434 TATTTCGTTT
*
247444 GAAGAAGAAATAAAAAAAAAAGA
1 GAAGAA-AAAT-AATAAAAAAGA
*
247467 GAA-AAAAATAATAAAAATGA
1 GAAGAAAAATAATAAAAAAGA
* *
247487 GAAGAAGAAA-AATGAGAAA-A
1 GAAGAA-AAATAATAAAAAAGA
* * * *
247507 -ATGAAAAATGATGGAAAATGA
1 GAAGAAAAATAAT-AAAAAAGA
* *
247528 -AA-AAAAAAAAAAAAAAAGAA
1 GAAGAAAAATAATAAAAAAG-A
247548 GAA-AAATAATAATAAAAAAGA
1 GAAGAAA-AATAATAAAAAAGA
* *
247569 GAAAGAAGAAAAAAGAAAAAA
1 G-AAGAA-AAATAATAAAAAA
247590 TAAAAAAGAA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
18 3 0.03
19 11 0.12
20 24 0.26
21 21 0.23
22 18 0.19
23 15 0.16
24 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (21 bp):
GAAGAAAAATAATAAAAAAGA
Found at i:247524 original size:17 final size:16
Alignment explanation
Indices: 247479--247531 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
247469 AAAAAATAAT
*
247479 AAAAATGAGAAGAA-G
1 AAAAATGAGAAAAATG
247494 AAAAATGAGAAAAATG
1 AAAAATGAGAAAAATG
*
247510 AAAAATGATGGAAAATG
1 AAAAATGA-GAAAAATG
247527 AAAAA
1 AAAAA
247532 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.38
16 9 0.26
17 12 0.35
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (16 bp):
AAAAATGAGAAAAATG
Found at i:247548 original size:58 final size:57
Alignment explanation
Indices: 247459--247611 Score: 146
Period size: 58 Copynumber: 2.6 Consensus size: 57
247449 AGAAATAAAA
** * * *
247459 AAAAAAGAGAAAAAAATAATAAAAATGAGAAGAAGAAA-AATGAGAAAAATGAAAAATGATG
1 AAAAAAGA-AAAAAAA-AA-AAAAAAAAGAAGAA-AAATAATAAGAAAAAAGAAAAA-GAAG
* * * *
247520 GAAAATGAAAAAAAAAAAAAAAAAAGAAGAAAAATAATAATAAAAAAGAGAAAGAAG
1 AAAAAAGAAAAAAAAAAAAAAAAAAGAAGAAAAATAATAAGAAAAAAGAAAAAGAAG
*
247577 AAAAAAGAAAAAATAAAAAAGAAAAAGAAAGAAAA
1 AAAAAAGAAAAAA-AAAAAAAAAAAAG-AAGAAAA
247612 TAAATAAAGG
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
57 17 0.22
58 38 0.49
59 9 0.12
60 7 0.09
61 6 0.08
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (57 bp):
AAAAAAGAAAAAAAAAAAAAAAAAAGAAGAAAAATAATAAGAAAAAAGAAAAAGAAG
Found at i:247565 original size:30 final size:30
Alignment explanation
Indices: 247521--247619 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 30
247511 AAAATGATGG
*
247521 AAAATGAAAA-AAAAAA-AAAAAAAAGAAGA
1 AAAATAAAAATAAAAAAGAAAAAAAAGAA-A
* * *
247550 AAAATAATAATAAAAAAGAGAAAGAAGAAA
1 AAAATAAAAATAAAAAAGAAAAAAAAGAAA
247580 AAAGA-AAAAATAAAAAAGAAAAAGAAAGAAA
1 AAA-ATAAAAATAAAAAAGAAAAA-AAAGAAA
247611 ATAAATAAA
1 A-AAATAAA
247620 GGGGGGTTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 8 0.14
30 26 0.46
31 18 0.32
32 5 0.09
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (30 bp):
AAAATAAAAATAAAAAAGAAAAAAAAGAAA
Found at i:249152 original size:55 final size:55
Alignment explanation
Indices: 248933--249431 Score: 515
Period size: 55 Copynumber: 9.3 Consensus size: 55
248923 TCGAGTCCTA
* *
248933 CTCTGAA-GTAATAGGGAGCGGACACGTTTGTTGAAGA----TCGAGTTCTATACT
1 CTCTGAACG-AATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * *
248984 CTCTGAAGGAATAGAGAGCGGAC-CTGTTT-TATG-AGATTGTTCGAGTTCTATACT
1 CTCTGAACGAATAGGGAGCAGACAC-GTTTGT-TGAAGATTGTTCGAGTCCTATACT
* ** *
249038 C-CTGAACGAATAGGAAGCAGAC-CCATT-TTGAAGATTGTTGGAGTCCTATACT
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * * * * *
249090 CTCTGAAGGAATAGGAAGCGGACCCGTTTTTTTAAAATTGTTCGAGTCCTATACT
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * *
249145 CTATGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTCTTATACT
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * *
249200 C-CTTGAACGAATAGGGAGCATACACGTTTGCTGAAGATTGTTCGAGTCTTATACT
1 CTC-TGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * * *
249255 CCCTAAATGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTATACT
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * *
249310 CCCTGAACGAATAGGGAGCAGATACGTTTGCTGAAGATTGTTCGAGTCTTATACT
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
* * * * *
249365 CCCTAAATGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTATA--
1 CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
249418 C-CTGAACGAATAGG
1 CTCTGAACGAATAGG
249432 AAATGGACTC
Statistics
Matches: 396, Mismatches: 39, Indels: 25
0.86 0.08 0.05
Matches are distributed among these distances:
50 5 0.01
51 28 0.07
52 35 0.09
53 38 0.10
54 18 0.05
55 271 0.68
56 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
CTCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
Found at i:249297 original size:165 final size:164
Alignment explanation
Indices: 248942--249418 Score: 596
Period size: 165 Copynumber: 2.9 Consensus size: 164
248932 ACTCTGAAGT
* *
248942 AATAGGGAGCGGACACGTTTGTTGAAGA----TCGAGTTCTATACTCTCTGAAGGAATAGAGAGC
1 AATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGC
* * *
249003 GGAC-CTGTTT-TATG-AGATTGTTCGAGT-TCTATACTCCTGAACGAATAGGAAGCAGACCCAT
66 GGACAC-GTTTGT-TGAAGATTGTTCGAGTCT-TATACTCCTGAACGAATAGGGAGCAGACACGT
* * * *
249064 TT--TGAAGATTGTTGGAGTCCTATACTCTCTGAAGG
128 TTGCTGAAGATTGTTCGAGTCTTATACTCCCTAAAGG
* * * * * *
249099 AATAGGAAGCGGACCCGTTTTTTTAAAATTGTTCGAGTCCTATACTCTATGAAGGAATAGGGAGC
1 AATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGC
*
249164 GGACACGTTTGTTGAAGATTGTTCGAGTCTTATACTCCTTGAACGAATAGGGAGCATACACGTTT
66 GGACACGTTTGTTGAAGATTGTTCGAGTCTTATACTCC-TGAACGAATAGGGAGCAGACACGTTT
*
249229 GCTGAAGATTGTTCGAGTCTTATACTCCCTAAATG
130 GCTGAAGATTGTTCGAGTCTTATACTCCCTAAAGG
* * * * *
249264 AATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGC
1 AATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGC
* * * * *
249329 AGATACGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTAAATGAATAGGGAGCAGACACGTTT
66 GGACACGTTTGTTGAAGATTGTTCGAGTCTTATACT-CCTGAACGAATAGGGAGCAGACACGTTT
249394 GCTGAAGATTGTTCGAGTCTTATAC
130 GCTGAAGATTGTTCGAGTCTTATAC
249419 CTGAACGAAT
Statistics
Matches: 274, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
157 23 0.08
161 40 0.15
162 23 0.08
163 23 0.08
165 163 0.59
166 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (164 bp):
AATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGC
GGACACGTTTGTTGAAGATTGTTCGAGTCTTATACTCCTGAACGAATAGGGAGCAGACACGTTTG
CTGAAGATTGTTCGAGTCTTATACTCCCTAAAGG
Found at i:252189 original size:14 final size:16
Alignment explanation
Indices: 252154--252190 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
252144 GAAATCATTG
252154 AAAATTATATAGAAAT
1 AAAATTATATAGAAAT
*
252170 AAAATTATGTA-AAA-
1 AAAATTATATAGAAAT
252184 AAAATTA
1 AAAATTA
252191 GAGATGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAATTATATAGAAAT
Found at i:252385 original size:20 final size:20
Alignment explanation
Indices: 252360--252573 Score: 112
Period size: 20 Copynumber: 10.6 Consensus size: 20
252350 AAAATTAAAT
252360 TCGTGTTGCGAATTCGAAAA
1 TCGTGTTGCGAATTCGAAAA
*
252380 TCGTGTTGCGAAAAT--AAAA
1 TCGTGTTGCG-AATTCGAAAA
* * *
252399 TTCGCGTTGCGATTTAGAAAA
1 -TCGTGTTGCGAATTCGAAAA
* *** *
252420 TCTTGTTGCGAAAAGGAAAC
1 TCGTGTTGCGAATTCGAAAA
* * *** *
252440 TTGTGTTGGGAAAAAGAAAT
1 TCGTGTTGCGAATTCGAAAA
*
252460 TCGCGTTGCGAATTC-AGAAA
1 TCGTGTTGCGAATTCGA-AAA
* *
252480 TCGAGTTACGAATTC-ATAAA
1 TCGTGTTGCGAATTCGA-AAA
* * *
252500 TCGAGTTGCGAATTTGAAAT
1 TCGTGTTGCGAATTCGAAAA
* *
252520 TCCGTGTTGCGAATTTGAAAT
1 T-CGTGTTGCGAATTCGAAAA
*
252541 TCCGTGTTGCGAATTTGGAAAA
1 T-CGTGTTGCGAA-TTCGAAAA
*
252563 TCGCGTTGCGA
1 TCGTGTTGCGA
252574 GAAAAAAATT
Statistics
Matches: 153, Mismatches: 33, Indels: 15
0.76 0.16 0.07
Matches are distributed among these distances:
19 7 0.05
20 91 0.59
21 48 0.31
22 7 0.05
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (20 bp):
TCGTGTTGCGAATTCGAAAA
Found at i:252400 original size:40 final size:40
Alignment explanation
Indices: 252344--252553 Score: 133
Period size: 40 Copynumber: 5.2 Consensus size: 40
252334 AAATAAAAGT
* *
252344 TGTTGC-AAAATTAAATTCGTGTTGCGAATTCGAAAATCG
1 TGTTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCG
* * *
252383 TGTTGCGAAAATAAAATTCGCGTTGCGATTTAGAAAATCT
1 TGTTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCG
* * * ** *
252423 TGTTGCGAAAAGGAAACTT-GTGTTGGGAAAAAGAAATTCG
1 TGTTGCGAAAA-TAAAATTCGTGTTGCGAATTAGAAAATCG
* * * * *
252463 CGTTGCG-AATTCAGAAA-TCGAGTTACGAATTCA-TAAATCG
1 TGTTGCGAAAAT-A-AAATTCGTGTTGCGAATT-AGAAAATCG
* ** * * *
252503 AGTTGCGAATTTGAAATTCCGTGTTGCGAATTTGAAATTCCG
1 TGTTGCGAAAATAAAATT-CGTGTTGCGAATTAGAAAAT-CG
252545 TGTTGCGAA
1 TGTTGCGAA
252554 TTTGGAAAAT
Statistics
Matches: 126, Mismatches: 34, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
39 13 0.10
40 80 0.63
41 23 0.18
42 10 0.08
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (40 bp):
TGTTGCGAAAATAAAATTCGTGTTGCGAATTAGAAAATCG
Found at i:252478 original size:21 final size:20
Alignment explanation
Indices: 252454--252636 Score: 106
Period size: 20 Copynumber: 9.0 Consensus size: 20
252444 GTTGGGAAAA
*
252454 AGAAATTCGCGTTGCGAATT
1 AGAAATTCGAGTTGCGAATT
*
252474 CAGAAA-TCGAGTTACGAATT
1 -AGAAATTCGAGTTGCGAATT
*
252494 CATAAA-TCGAGTTGCGAATT
1 -AGAAATTCGAGTTGCGAATT
* *
252514 TGAAATTCCGTGTTGCGAATT
1 AGAAATT-CGAGTTGCGAATT
* *
252535 TGAAATTCCGTGTTGCGAATTT
1 AGAAATT-CGAGTTGCGAA-TT
* * * *
252557 GGAAAATCGCGTTGCGAGA-A
1 AGAAATTCGAGTTGCGA-ATT
* * *
252577 AAAAATTCGCGTTGCGATTGT
1 AGAAATTCGAGTTGCGAAT-T
*
252598 AGAAACT-GAGTTGCGAATT
1 AGAAATTCGAGTTGCGAATT
* *
252617 TGAAAATT-GTGTTGCGAATT
1 AG-AAATTCGAGTTGCGAATT
252637 TGGAGTTCGT
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
19 5 0.04
20 69 0.52
21 50 0.38
22 8 0.06
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (20 bp):
AGAAATTCGAGTTGCGAATT
Found at i:252571 original size:42 final size:41
Alignment explanation
Indices: 252455--252640 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 41
252445 TTGGGAAAAA
* ** *
252455 GAAATTCGCGTTGCGAATTCAG-AAATCGAGTTACGAATTCAT
1 GAAATTCGTGTTGCGAATTTGGAAAATCGAGTTGCGAATT--T
* * *
252497 -AAA-TCGAGTTGCGAATTT-GAAATTCCGTGTTGCGAATTT
1 GAAATTCGTGTTGCGAATTTGGAAAAT-CGAGTTGCGAATTT
* **
252536 GAAATTCCGTGTTGCGAATTTGGAAAATCGCGTTGCGAGA-AA
1 GAAATT-CGTGTTGCGAATTTGGAAAATCGAGTTGCGA-ATTT
* * * *
252578 AAAATTCGCGTTGCG-ATTGTAGAAACT-GAGTTGCGAATTT
1 GAAATTCGTGTTGCGAATT-TGGAAAATCGAGTTGCGAATTT
252618 GAAAATT-GTGTTGCGAATTTGGA
1 G-AAATTCGTGTTGCGAATTTGGA
252641 GTTCGTATTG
Statistics
Matches: 113, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
39 3 0.03
40 40 0.35
41 37 0.33
42 27 0.24
43 6 0.05
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (41 bp):
GAAATTCGTGTTGCGAATTTGGAAAATCGAGTTGCGAATTT
Found at i:252630 original size:20 final size:20
Alignment explanation
Indices: 252356--252638 Score: 86
Period size: 20 Copynumber: 13.9 Consensus size: 20
252346 TTGCAAAATT
*
252356 AAATTCGTGTTGCGAATTCGA
1 AAATT-GTGTTGCGAATTTGA
* **
252377 AAATCGTGTTGCGAAAAT-A
1 AAATTGTGTTGCGAATTTGA
*
252396 AAATTCGCGTTGCG-ATTTAGA
1 AAATT-GTGTTGCGAATTT-GA
***
252417 AAATCT-TGTTGCGAAAAGGA
1 AAAT-TGTGTTGCGAATTTGA
* * ***
252437 AACTTGTGTTGGGAAAAAG-
1 AAATTGTGTTGCGAATTTGA
* *
252456 AAATTCGCGTTGCGAA-TTCA
1 AAATT-GTGTTGCGAATTTGA
* * * *
252476 GAAATCGAGTTACGAA-TTCA
1 -AAATTGTGTTGCGAATTTGA
* *
252496 TAAATCGAGTTGCGAATTTG-
1 -AAATTGTGTTGCGAATTTGA
252516 AAATTCCGTGTTGCGAATTTG-
1 AAATT--GTGTTGCGAATTTGA
252537 AAATTCCGTGTTGCGAATTTGGA
1 AAATT--GTGTTGCGAATTT-GA
* * **
252560 AAATCGCGTTGCGAGA--AAA
1 AAATTGTGTTGCGA-ATTTGA
*
252579 AAATTCGCGTTGCG-A-TTGTA
1 AAATT-GTGTTGCGAATTTG-A
* *
252599 GAAACTGAGTTGCGAATTTGA
1 -AAATTGTGTTGCGAATTTGA
252620 AAATTGTGTTGCGAATTTG
1 AAATTGTGTTGCGAATTTG
252639 GAGTTCGTAT
Statistics
Matches: 201, Mismatches: 40, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.00
19 21 0.10
20 106 0.53
21 63 0.31
22 6 0.03
23 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (20 bp):
AAATTGTGTTGCGAATTTGA
Found at i:252633 original size:60 final size:60
Alignment explanation
Indices: 252364--252634 Score: 223
Period size: 60 Copynumber: 4.5 Consensus size: 60
252354 TTAAATTCGT
* *
252364 GTTGCGAATTCGAAAATCGTGTTGCGAAAATAAAATTCGCGTTGCG-ATTTAGAAAATCT-T
1 GTTGCGAATTTGAAAATCGTGTTGCGAAAA-AAAATTCGCGTTGCGAATTTAG-AAATCTGA
*** * * * *
252424 GTTGCGAAAAGGAAACTTGTGTTGGGAAAAAGAAATTCGCGTTGCGAATTCAGAAATC-GA
1 GTTGCGAATTTGAAAATCGTGTTGCGAAAAA-AAATTCGCGTTGCGAATTTAGAAATCTGA
* * * *** * * *
252484 GTTACGAA-TTCATAAATCGAGTTGCGAATTTGAAATTCCGTGTTGCGAATTT-GAAATTCCGT
1 GTTGCGAATTTGA-AAATCGTGTTGCGAA-AAAAAATT-CGCGTTGCGAATTTAGAAA-TCTGA
*
252546 GTTGCGAATTTGGAAAATCGCGTTGCGAGAAAAAAATTCGCGTTGCG-ATTGTAGAAA-CTGA
1 GTTGCGAATTT-GAAAATCGTGTTGCGA-AAAAAAATTCGCGTTGCGAATT-TAGAAATCTGA
*
252607 GTTGCGAATTTGAAAATTGTGTTGCGAA
1 GTTGCGAATTTGAAAATCGTGTTGCGAA
252635 TTTGGAGTTC
Statistics
Matches: 165, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
59 3 0.02
60 84 0.51
61 35 0.21
62 17 0.10
63 24 0.15
64 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (60 bp):
GTTGCGAATTTGAAAATCGTGTTGCGAAAAAAAATTCGCGTTGCGAATTTAGAAATCTGA
Found at i:253353 original size:6 final size:6
Alignment explanation
Indices: 253342--253370 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
253332 ACAGTAAGTT
253342 CTCTCC CTCTCC CTCTCC CTCTCC CTCTC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTC
253371 TAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:254787 original size:30 final size:30
Alignment explanation
Indices: 254751--254810 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
254741 GAGCATTGTT
254751 AACCAATAGCAGATGAGGTAAAGTAAGTTC
1 AACCAATAGCAGATGAGGTAAAGTAAGTTC
254781 AACCAATAGCAGATGAGGTAAAGTAAGTTC
1 AACCAATAGCAGATGAGGTAAAGTAAGTTC
254811 GGGGGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (30 bp):
AACCAATAGCAGATGAGGTAAAGTAAGTTC
Found at i:255165 original size:3 final size:3
Alignment explanation
Indices: 255150--255237 Score: 69
Period size: 3 Copynumber: 31.0 Consensus size: 3
255140 TTTATCCATT
* * * *
255150 TTA TTA ATA TTA TTA TTA -AA TTA -TA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
255196 TCA TTA -TA TTT TTA TT- TTA TTA -TA TTA TTT TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
255238 ATATATTAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 9 0.14
3 57 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:255216 original size:31 final size:33
Alignment explanation
Indices: 255141--255224 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 33
255131 TACTATTTTT
255141 TTATCCATTTTATTAATATTATTATTAAATTATA
1 TTAT-CATTTTATTAATATTATTATTAAATTATA
*
255175 TTATCA--TTATTAATATTATTA-T-CATTATA
1 TTATCATTTTATTAATATTATTATTAAATTATA
* *
255204 TTTTTATTTTATT-ATATTATT
1 TTATCATTTTATTAATATTATT
255225 TTTTTTATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 10 0.22
30 9 0.20
31 20 0.44
33 2 0.04
34 4 0.09
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (33 bp):
TTATCATTTTATTAATATTATTATTAAATTATA
Found at i:255229 original size:16 final size:17
Alignment explanation
Indices: 255198--255235 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
255188 TATTATTATC
255198 ATTATA-TTTTTATTTT
1 ATTATATTTTTTATTTT
255214 ATTATATTATTTT-TTTT
1 ATTATATT-TTTTATTTT
255231 ATTAT
1 ATTAT
255236 TAATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTATATTTTTTATTTT
Done.