Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002346.1 Hibiscus syriacus cultivar Beakdansim tig00004788_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: 176006
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:11406 original size:15 final size:15
Alignment explanation
Indices: 11386--11415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11376 ATTAAACAAA
*
11386 TTTAAATATTTAAAT
1 TTTAAATACTTAAAT
11401 TTTAAATACTTAAAT
1 TTTAAATACTTAAAT
11416 AATTTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAATACTTAAAT
Found at i:11754 original size:21 final size:21
Alignment explanation
Indices: 11725--11777 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11715 ATTCTGACTA
11725 TCGCATTGCGATTTACCAAAT
1 TCGCATTGCGATTTACCAAAT
* * *
11746 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCAAAT
*
11767 TCGCAATGCGA
1 TCGCATTGCGA
11778 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTACCAAAT
Found at i:11792 original size:20 final size:20
Alignment explanation
Indices: 11767--11819 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
11757 TTTTCCTAAT
11767 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
11787 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
11807 TCGCAATGCGAAT
1 TCGCAATGCGAAT
11820 TTGACTATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:12056 original size:22 final size:22
Alignment explanation
Indices: 12002--12056 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11992 TCACTCTCTA
* *
12002 CGGCAAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCGC
** *
12024 CGAAGATATCCGTCCCCATCGC
1 CGGCGAAATCCGTCCCCATCGC
12046 CGGCGAAATCC
1 CGGCGAAATCC
12057 CTCACAACCA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.16
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCGC
Found at i:12395 original size:20 final size:19
Alignment explanation
Indices: 12370--12492 Score: 103
Period size: 19 Copynumber: 6.5 Consensus size: 19
12360 TTCTAAACTT
*
12370 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACG-AAATG
12390 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACG-AAATG
** *
12410 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-A-CGAAATG
*
12431 AAAACCGC-A-ACG--A-G
1 AAAATCGCAACACGAAATG
* *
12445 AGAATCGCAACGCGAAATG
1 AAAATCGCAACACGAAATG
*
12464 AAAATCGCAACGCGAAATG
1 AAAATCGCAACACGAAATG
12483 AAAATCGCAA
1 AAAATCGCAA
12493 TACGCGAAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 15
0.76 0.11 0.14
Matches are distributed among these distances:
14 7 0.08
15 2 0.02
16 2 0.02
17 1 0.01
18 2 0.02
19 29 0.35
20 29 0.35
21 11 0.13
22 1 0.01
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACACGAAATG
Found at i:12499 original size:21 final size:19
Alignment explanation
Indices: 12370--12512 Score: 107
Period size: 20 Copynumber: 7.5 Consensus size: 19
12360 TTCTAAACTT
**
12370 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
12390 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
12410 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
*
12431 AAAACCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
12445 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
12464 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
12483 AAAATCGCAATACGCGAAACC
1 AAAATCGC-A-ACGCGAAATG
12504 AAAATCGCA
1 AAAATCGCA
12513 TTGCGATTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
14 9 0.09
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 27 0.27
20 30 0.30
21 28 0.28
22 1 0.01
ACGTcount: A:0.49, C:0.22, G:0.19, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:12535 original size:19 final size:17
Alignment explanation
Indices: 12513--12572 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 17
12503 CAAAATCGCA
12513 TTGCGATTTACATTTCGTG
1 TTGCGATTT-CATTTCG-G
*
12532 TTGCGA-TTC-TCTC-G
1 TTGCGATTTCATTTCGG
12546 TTGCGATTTTCATTTCGCG
1 TTGCGA-TTTCATTTCG-G
12565 TTGCGATT
1 TTGCGATT
12573 CTCTCGTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
14 7 0.21
16 6 0.18
17 4 0.12
18 4 0.12
19 13 0.38
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (17 bp):
TTGCGATTTCATTTCGG
Found at i:12550 original size:14 final size:14
Alignment explanation
Indices: 12531--12585 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
12521 TACATTTCGT
12531 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
*
12545 GTTGCGATTTTCATTTCGC
1 GTTGCGA--TTC---TCTC
12564 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
12578 GTTGCGAT
1 GTTGCGAT
12586 AGTCATTTCC
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:0.24, T:0.44
Consensus pattern (14 bp):
GTTGCGATTCTCTC
Found at i:12560 original size:33 final size:33
Alignment explanation
Indices: 12513--12594 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
12503 CAAAATCGCA
* *
12513 TTGCGATTTACATTTCGTGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
12546 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
12579 TTGCGATAGTCATTTC
1 TTGCGATTTTCATTTC
12595 CACATTGCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:12611 original size:20 final size:21
Alignment explanation
Indices: 12579--12634 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
12569 GATTCTCTCG
**
12579 TTGCGATAGTCATTTC-CACA
1 TTGCGATTTTCATTTCTCACA
* *
12599 TTGCGATTTTCA-TTCTCTCG
1 TTGCGATTTTCATTTCTCACA
12619 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
12635 AACCAAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.46
Consensus pattern (21 bp):
TTGCGATTTTCATTTCTCACA
Found at i:12752 original size:25 final size:26
Alignment explanation
Indices: 12698--12752 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
12688 TTATGTTTAT
* *
12698 TGTTTTTGGTATATCTTCACATTGTA
1 TGTTTTTGATATATCTTAACATTGTA
12724 -GTTTTTGATATATC-TAAC-TTGGTA
1 TGTTTTTGATATATCTTAACATT-GTA
12748 TGTTT
1 TGTTT
12753 ATTGTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.24
25 17 0.68
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.55
Consensus pattern (26 bp):
TGTTTTTGATATATCTTAACATTGTA
Found at i:14516 original size:94 final size:93
Alignment explanation
Indices: 14326--14701 Score: 564
Period size: 94 Copynumber: 4.1 Consensus size: 93
14316 TAGATTGCTT
* *
14326 AGTAAATTTATTTGGTTGCTGCCAA-TACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTA-TGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
14386 TATTTGTCTTTTGTTTTGTCTTTTGGTTGA
65 TATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
14416 AGTAAATTTATTCGGTTGTTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
14481 ATTTATTTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
14510 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
14575 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
14604 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
14669 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
14697 AGTAA
1 AGTAA
14702 TGCAATCCAT
Statistics
Matches: 265, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
90 30 0.11
91 3 0.01
92 3 0.01
93 28 0.11
94 201 0.76
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:14816 original size:19 final size:19
Alignment explanation
Indices: 14792--14848 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
14782 TCTTTTGGTT
14792 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
14811 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
14830 GAAACGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
14849 TAAAATCGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:14859 original size:33 final size:34
Alignment explanation
Indices: 14817--14881 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
14807 ACGAGAAATG
*
14817 AAAATCGCAACGCGAAA-CGAAAATCGCAACGAT
1 AAAATCGCAACGCGAAACCAAAAATCGCAACGAT
*
14850 AAAATCGCAACGCGAAACCAAAAATCGTAACG
1 AAAATCGCAACGCGAAACCAAAAATCGCAACG
14882 CGAAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.09
Consensus pattern (34 bp):
AAAATCGCAACGCGAAACCAAAAATCGCAACGAT
Found at i:14875 original size:20 final size:19
Alignment explanation
Indices: 14798--14895 Score: 89
Period size: 19 Copynumber: 5.3 Consensus size: 19
14788 GGTTGAAATG
* **
14798 AAAATCGCAACGAGAAATG
1 AAAATCGCAACGCGAAACA
*
14817 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAACA
*
14836 AAAATCGCAA--CG--A-T
1 AAAATCGCAACGCGAAACA
14850 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAA-CA
*
14870 AAAATCGTAACGCGAAACCA
1 AAAATCGCAACGCGAAA-CA
14890 AAAATC
1 AAAATC
14896 ACAATGCGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 25 0.37
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACA
Found at i:14954 original size:19 final size:19
Alignment explanation
Indices: 14930--15000 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
14920 GCGATTCTCT
* *
14930 CGTTGCGCTTTTTATTTCG
1 CGTTGCGATTTTCATTTCG
14949 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
14968 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
14989 CGTTGCGATTTT
1 CGTTGCGATTTT
15001 AAGTTCCAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 29 0.67
21 14 0.33
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:15472 original size:42 final size:42
Alignment explanation
Indices: 15396--15484 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
15386 GACTCGCCTG
* * *
15396 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCTA-TA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC-ACTA
* * *
15438 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
15480 TCATC
1 TCATC
15485 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
Found at i:16841 original size:14 final size:14
Alignment explanation
Indices: 16822--16854 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16812 ATTGTTTAAT
16822 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
16836 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
16850 TGATT
1 TGATT
16855 GTTTAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:17007 original size:33 final size:33
Alignment explanation
Indices: 16962--17041 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
16952 AAAAATGACT
* * *
16962 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
16995 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
17028 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
17042 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:17021 original size:19 final size:19
Alignment explanation
Indices: 16962--17022 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
16952 AAAAATGACT
*
16962 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
16981 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
16995 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
17014 ATCGCAACG
1 ATCGCAACG
17023 ACAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:17089 original size:33 final size:33
Alignment explanation
Indices: 17047--17158 Score: 188
Period size: 33 Copynumber: 3.4 Consensus size: 33
17037 CGAAACTAAA
* * *
17047 TTCGCGTTGCGATTCCCTCGTTGTGATTTTCAT
1 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
17080 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
17113 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
17146 TTCGCATTGCGAT
1 TTCGCATTGCGAT
17159 AGTCATTTCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
Found at i:17093 original size:19 final size:19
Alignment explanation
Indices: 17065--17178 Score: 86
Period size: 19 Copynumber: 6.5 Consensus size: 19
17055 GCGATTCCCT
*
17065 CGTTGTGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
17084 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
17098 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
17117 CATTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
17131 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* **
17150 CATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTT-CG
17170 CGTTGCGAT
1 CGTTGCGAT
17179 AGACATTAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.26
16 6 0.08
17 6 0.08
19 32 0.44
20 10 0.14
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:17103 original size:14 final size:14
Alignment explanation
Indices: 17084--17140 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
17074 TTTCATTTCG
17084 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
17098 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
17115 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
17131 CGTTGCGATT
1 CGTTGCGATT
17141 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:17177 original size:20 final size:19
Alignment explanation
Indices: 17131--17185 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
17121 GCGATTCTCT
**
17131 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
17150 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
17170 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
17186 AAGATGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:19728 original size:24 final size:24
Alignment explanation
Indices: 19694--19747 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19684 CTGAAAAATC
19694 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
19718 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
19742 ATCAAA
1 ATCAAA
19748 TTTCAAAATA
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:26818 original size:29 final size:29
Alignment explanation
Indices: 26785--26848 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
26775 CATCCGATTA
26785 TTTTTGTGGTTTTATTTTATTCACTCAAC
1 TTTTTGTGGTTTTATTTTATTCACTCAAC
26814 TTTTTGTGGTTTTATTTTATTCACTCAAC
1 TTTTTGTGGTTTTATTTTATTCACTCAAC
26843 TATTTT
1 T-TTTT
26849 TTTTAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.61
Consensus pattern (29 bp):
TTTTTGTGGTTTTATTTTATTCACTCAAC
Found at i:29313 original size:46 final size:46
Alignment explanation
Indices: 29245--29338 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
29235 GAATAGTCCT
* * *
29245 TCCTTCACGATATGATTAGGTTGTAGCAGGCTTAACGCATCAGGGG
1 TCCTTCACGATATGATCAGGTTGCAGCAGGCTCAACGCATCAGGGG
* * *
29291 TCCTTCGCGATATGATCGGGTTGCAGCAGGCTCAATGCATCAGGGG
1 TCCTTCACGATATGATCAGGTTGCAGCAGGCTCAACGCATCAGGGG
29337 TC
1 TC
29339 TTTGTGCTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
TCCTTCACGATATGATCAGGTTGCAGCAGGCTCAACGCATCAGGGG
Found at i:31883 original size:88 final size:88
Alignment explanation
Indices: 31731--31901 Score: 281
Period size: 88 Copynumber: 1.9 Consensus size: 88
31721 AACTGCTTCA
* *
31731 TAAATCACAACAAAATTCTAGAAAGGAACTCCAGTAAAGTAACATATAAATCCAAGTCCAATTTG
1 TAAATCACAACAAAATTCTAGAAAGGAACTACAGTAAAGAAACATATAAATCCAAGTCCAATTTG
*
31796 AAACTCTAGCATATGGAATTTCG
66 AAACTATAGCATATGGAATTTCG
* *
31819 TAAATCACAACAAAATTCTAGAAAGGAACTATAGTAGAGAAACATATAAATCCAAGTCTC-ATTT
1 TAAATCACAACAAAATTCTAGAAAGGAACTACAGTAAAGAAACATATAAATCCAAGTC-CAATTT
31883 GAAACTATAGCATATGGAA
65 GAAACTATAGCATATGGAA
31902 GAAAAAAATG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 76 0.99
89 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (88 bp):
TAAATCACAACAAAATTCTAGAAAGGAACTACAGTAAAGAAACATATAAATCCAAGTCCAATTTG
AAACTATAGCATATGGAATTTCG
Found at i:38522 original size:37 final size:35
Alignment explanation
Indices: 38471--38690 Score: 154
Period size: 35 Copynumber: 6.1 Consensus size: 35
38461 TAGTTAATGT
38471 TTTTGAAAACTTATATACAATATATAAGTTTT-AAAACA
1 TTTTG-AAACTTATAT--AATATAT-AGTTTTGAAAACA
* * *
38509 TTTTGAAAGTTATATAATATATATTTTTGAAATCA
1 TTTTGAAACTTATATAATATATAGTTTTGAAAACA
* *
38544 TTTTGAAA---ATATAATGTATAGTTTTTAAAAAAACA
1 TTTTGAAACTTATATAATATATAG-TTTT--GAAAACA
* *
38579 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTG--AAACTTATATAATATATAGTTTT-GAAAACA
38618 TTTTGAAAAACTTATAT--TATAT--TTTT-AAAATCA
1 TTTTG--AAACTTATATAATATATAGTTTTGAAAA-CA
*
38651 TTTTTGAAAAC-TATATAATATATAGCTTTGAAAACA
1 -TTTTG-AAACTTATATAATATATAGTTTTGAAAACA
38687 TTTT
1 TTTT
38691 TAAGTATAAT
Statistics
Matches: 155, Mismatches: 10, Indels: 37
0.77 0.05 0.18
Matches are distributed among these distances:
32 20 0.13
33 11 0.07
34 19 0.12
35 29 0.19
36 15 0.10
37 13 0.08
38 24 0.15
39 8 0.05
40 4 0.03
41 12 0.08
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (35 bp):
TTTTGAAACTTATATAATATATAGTTTTGAAAACA
Found at i:38531 original size:35 final size:34
Alignment explanation
Indices: 38484--38714 Score: 151
Period size: 35 Copynumber: 6.6 Consensus size: 34
38474 TGAAAACTTA
*
38484 TATACAATATATAAGTTTTAAAACATTTTGAAAGT
1 TATATAATATAT-AGTTTTAAAACATTTTGAAAGT
* *
38519 TATATAATATATATTTTTGAAATCATTTTGAAA--
1 TATATAATATATAGTTTT-AAAACATTTTGAAAGT
* *
38552 -ATATAATGTATAGTTTTTAAAAAAACATTTTTGAAAAATT
1 TATATAATATATAG-TTTT---AAAACA-TTTTG--AAAGT
*
38592 TATATAATATATAGTTTTAAAAAACATTTTGAAAAACT
1 TATATAATATATAGTTTT--AAAACATTTTG--AAAGT
**
38630 TATAT--TATAT--TTTTAAAATCATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAA-CA-TTTTGAAAGT
* *
38662 TATATAATATATAGCTTTGAAAACATTTT-TAAG-
1 TATATAATATATAG-TTTTAAAACATTTTGAAAGT
38695 --TATAATATATAGTTTTAAAA
1 TATATAATATATAGTTTTAAAA
38715 AATATTTTTT
Statistics
Matches: 164, Mismatches: 15, Indels: 39
0.75 0.07 0.18
Matches are distributed among these distances:
30 7 0.04
31 12 0.07
32 23 0.14
33 6 0.04
34 21 0.13
35 33 0.20
36 12 0.07
37 7 0.04
38 19 0.12
39 8 0.05
40 4 0.02
41 12 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (34 bp):
TATATAATATATAGTTTTAAAACATTTTGAAAGT
Found at i:38644 original size:34 final size:34
Alignment explanation
Indices: 38490--38691 Score: 123
Period size: 36 Copynumber: 5.8 Consensus size: 34
38480 CTTATATACA
* **
38490 ATATATA-AGTTTT-AAAACA-TTTTGAAAGTTAT
1 ATATATATATTTTTAAAAACATTTTTGAAAACT-T
* *
38522 ATAATATATATTTTTGAAATCA-TTTTGAAAA--T
1 AT-ATATATATTTTTAAAAACATTTTTGAAAACTT
* *
38554 ATAATGTATAGTTTTTAAAAAAACATTTTTGAAAAATTT
1 AT-ATATATA-TTTTT--AAAAACATTTTTG-AAAACTT
38593 ATATAATATATAGTTTTAAAAAACA-TTTTGAAAAACTT
1 ATAT-ATATAT--TTTT-AAAAACATTTTTG-AAAACTT
*
38631 ATAT-TATATTTTTAAAATCATTTTTGAAAACTAT
1 ATATATATATTTTTAAAAACATTTTTGAAAACT-T
** *
38665 ATAATATATAGCTTTGAAAACATTTTT
1 AT-ATATATATTTTTAAAAACATTTTT
38692 AAGTATAATA
Statistics
Matches: 140, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
32 12 0.09
33 22 0.16
34 17 0.12
35 20 0.14
36 27 0.19
37 4 0.03
38 19 0.14
39 15 0.11
40 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (34 bp):
ATATATATATTTTTAAAAACATTTTTGAAAACTT
Found at i:38705 original size:108 final size:107
Alignment explanation
Indices: 38470--38691 Score: 240
Period size: 108 Copynumber: 2.0 Consensus size: 107
38460 ATAGTTAATG
* * **
38470 TTTTTGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGAAAGTTATATAATATATATTT
1 TTTTTGAAAA-ATATATATAATATATAAGTTTTAAAACATTTTGAAAACTATATAATATATATTT
* * *
38535 TTGAAATCATTTTGAAAATATAATGTATAGTTTTTAAAAAAACA
65 TTAAAATCATTTTGAAAATATAATATATAGTCTTT-AAAAAACA
*
38579 TTTTTGAAAAATTTATATAATATAT-AGTTTTAAAAAACATTTTGAAAAACT-TAT-AT-TATAT
1 TTTTTGAAAAATATATATAATATATAAGTTTT--AAAACATTTTG-AAAACTATATAATATATAT
*
38640 TTTTAAAATCATTTTTGAAAACTATATAATATATAG-CTTT-GAAAACA
63 TTTTAAAATCA-TTTTG-AAA--ATATAATATATAGTCTTTAAAAAACA
38687 TTTTT
1 TTTTT
38692 AAGTATAATA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
107 21 0.22
108 30 0.31
109 27 0.28
110 7 0.07
111 12 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (107 bp):
TTTTTGAAAAATATATATAATATATAAGTTTTAAAACATTTTGAAAACTATATAATATATATTTT
TAAAATCATTTTGAAAATATAATATATAGTCTTTAAAAAACA
Found at i:38735 original size:31 final size:30
Alignment explanation
Indices: 38662--38736 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
38652 TTTTGAAAAC
*
38662 TATATAATATATAGCTTTGAAAACATTTTT
1 TATATAATATATAGCTTTAAAAACATTTTT
* * *
38692 AAGTATAATATATAGTTTTAAAAAATATTTTT
1 TA-TATAATATATAGCTTT-AAAAACATTTTT
*
38724 TATATATTATATA
1 TATATAATATATA
38737 CGCTATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.03
31 25 0.68
32 11 0.30
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (30 bp):
TATATAATATATAGCTTTAAAAACATTTTT
Found at i:38750 original size:3 final size:3
Alignment explanation
Indices: 38742--38771 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
38732 ATATACGCTA
38742 TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38772 TCTTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:38761 original size:14 final size:14
Alignment explanation
Indices: 38744--38772 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38734 ATACGCTATA
38744 TTATTATTATTATT
1 TTATTATTATTATT
38758 TTATTATTATTATT
1 TTATTATTATTATT
38772 T
1 T
38773 CTTTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:45661 original size:248 final size:247
Alignment explanation
Indices: 45205--46486 Score: 1517
Period size: 248 Copynumber: 5.2 Consensus size: 247
45195 CAGCTTTGAA
* * * * *
45205 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTT
* * * *
45270 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCT
65 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGC-
* *
45335 AACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCCCATCATTTGCAGCATAACTTAAG
129 --C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
45400 TCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
191 TCGAGAAGGGTTATCTGCCAAC-AAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
* *
45458 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTC
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
45523 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
* * *
45588 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
131 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
45653 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
196 AAGGGTTATCTGCCAAC-AAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
* *
45706 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTC
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
45771 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
* * * * * * * * * * *
45836 AAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCCA
131 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* * * * * * *
45901 GAAGGGCTACCTGCC-ACCAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-
195 GAAGGGTTATCTGCCAACAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAG
* * * * * * * * **
45952 GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTC
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
* * * * * ** * * * *
46014 GATTACACTCAGCTTCAAGGGCATAACATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCC
66 GACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCC
* *
46079 ACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
130 A--AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * * *
46144 GAGAAGGGCTATCTG-C--CAAAGACCCTCAAATTCGATTACACTCAGCCTCAAG
193 GAGAAGGGTTATCTGCCAACAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
* * * *
46196 GGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTC
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
46261 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
* * * * * * * * * * *
46326 ATGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTG
131 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTC-G
** * * * * *
46391 -GAAGGGTTATCTGTTAGCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-
194 AGAAGGGTTATCTGCCAACAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAG
* * * * * * *
46443 GGCACATCATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
46487 CCAAAGACTC
Statistics
Matches: 879, Mismatches: 134, Indels: 38
0.84 0.13 0.04
Matches are distributed among these distances:
243 54 0.06
244 105 0.12
245 69 0.08
246 108 0.12
247 91 0.10
248 297 0.34
249 38 0.04
252 78 0.09
253 39 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (247 bp):
GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAACAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
Found at i:46335 original size:164 final size:163
Alignment explanation
Indices: 45151--46538 Score: 1658
Period size: 164 Copynumber: 8.4 Consensus size: 163
45141 GCTCAAGGCC
* * * ** * * *
45151 AGAAGGGCTATCTGTCCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTTGAA-GGCACATCAT
1 AGAAGGGCTATCTG-CCA--AAGACCCTCAAGTTCGATTACACTCAGC-TTCAAGGGCATAACAT
* * * * * *
45215 TTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCT
62 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGC-CAC-AAAGACCTTCGAGTTCGACTACGCT
* * *
45280 CAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
125 CAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
* * ** * * * *
45319 AGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCCCAT--CA
1 AGAAGGGCTATCTGC---C-AAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGG-GCATAACA
* * * * * * *
45382 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACA
61 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-AC-AAAGA-CCTTCGAGTTCGACTACG
* * * * * * * *
45446 CTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCT
123 CTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCG
* * ** * * * * *
45488 AGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATT
1 AGAAGGGCTATCTG---CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATT
* * * * * * * *
45552 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCTTTGAGTTCGACTACGCTCAG
63 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
45615 CTCCAAGGCACATCATTTGCAGTATAACTTAAGTCA
128 CTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
* * *
45651 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGCTATCTG-C--C-AAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACAT
**
45716 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTC
62 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACGCTC
45781 AGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
126 AGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
45819 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
* * * *
45884 AGCATAACTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTC
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
45949 CAAGGCACATCATTTGCAGAATAGCTTAAGTCG
131 CAAGGCACATCATTTGCAGAATAGCTTAAGTCG
*
45982 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
* * * * * *
46047 AGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTC
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
46112 CAAGGCACATCATTTGCAGAATAGCTTAAGTCG
131 CAAGGCACATCATTTGCAGAATAGCTTAAGTCG
* *
46145 AGAAGGGCTATCTGCCAAAGACCCTCAAATTCGATTACACTCAGCCTCAAGGGCATAACATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
** *
46210 AGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCT
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT
46275 CCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
130 CCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
*
46309 AGAAGGGCTATCTGCCAATGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
* **
46374 AGCATAACTCAAGGCTGGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCT
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
46439 CCAAGGCACATCATATGCAGCATAGCTTAAGTCG
130 CCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
* * * * *
46473 AGAAGGGCTATCTGCCAAAGACTCC-CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTA
1 AGAAGGGCTATCTGCCAAAGAC-CCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTA
46537 CA
65 CA
46539 TAGCTCATGG
Statistics
Matches: 1106, Mismatches: 90, Indels: 52
0.89 0.07 0.04
Matches are distributed among these distances:
161 1 0.00
163 355 0.32
164 406 0.37
165 40 0.04
166 2 0.00
167 4 0.00
168 222 0.20
169 71 0.06
170 3 0.00
171 1 0.00
172 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (163 bp):
AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAAGGCACATCATTTGCAGAATAGCTTAAGTCG
Found at i:47083 original size:35 final size:34
Alignment explanation
Indices: 47036--47265 Score: 142
Period size: 35 Copynumber: 6.7 Consensus size: 34
47026 TGAAAACTTA
*
47036 TATACAATATATAAGTTTT-AAAACATTTTGAAAGT
1 TATATAATATAT-AGTTTTAAAAACATTTTGAAA-T
* * *
47071 TATATAATATATATTTTTGAAATCATTTTGAAA-
1 TATATAATATATAGTTTTAAAAACATTTTGAAAT
*
47104 -ATATAATGTATAGTTTTTAAAAAAACATTTTTGAAAAATT
1 TATATAATATATAG-TTTT--AAAAACA-TTTTG--AAA-T
47144 TATATAATATATAGTTTTAAAAAACATTTTGAAAAACT
1 TATATAATATATAGTTTT-AAAAACATTTTG--AAA-T
* *
47182 TATAT--TATAT--TTTTAAAATCATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAAACA-TTTTG-AAAT
* * *
47214 TATAT-A-ATATAGCTTTGAAAACATTTT-TAA-
1 TATATAATATATAGTTTTAAAAACATTTTGAAAT
*
47244 -GTATAATATATAGTTTTAAAAA
1 TATATAATATATAGTTTTAAAAA
47266 ATATTTTTAT
Statistics
Matches: 161, Mismatches: 18, Indels: 36
0.75 0.08 0.17
Matches are distributed among these distances:
29 3 0.02
30 1 0.01
31 15 0.09
32 20 0.12
33 18 0.11
34 22 0.14
35 29 0.18
36 10 0.06
38 19 0.12
39 8 0.05
40 4 0.02
41 12 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (34 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAT
Found at i:47161 original size:41 final size:38
Alignment explanation
Indices: 47023--47224 Score: 152
Period size: 35 Copynumber: 5.6 Consensus size: 38
47013 TAGTTAATGT
47023 TTTTG-AAAACTTATATACAATATATAAGTTTT--AAAACA
1 TTTTGAAAAACTTATAT--AATATAT-AGTTTTAAAAAACA
* ** *
47061 TTTTG--AAAGTTATATAATATATA-TTTTTGAAATCA
1 TTTTGAAAAACTTATATAATATATAGTTTTAAAAAACA
*
47096 TTTTG--AAA---ATATAATGTATAGTTTTTAAAAAAACA
1 TTTTGAAAAACTTATATAATATATAG-TTTT-AAAAAACA
*
47131 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTGAAAAACTTATATAATATATAGTTTTAAAAAACA
*
47170 TTTTGAAAAACTTATAT--TATAT--TTTT-AAAATCA
1 TTTTGAAAAACTTATATAATATATAGTTTTAAAAAACA
47203 TTTTTG-AAAAC-TATATAATATA
1 -TTTTGAAAAACTTATATAATATA
47225 GCTTTGAAAA
Statistics
Matches: 141, Mismatches: 9, Indels: 32
0.77 0.05 0.18
Matches are distributed among these distances:
32 16 0.11
33 15 0.11
34 18 0.13
35 25 0.18
36 10 0.07
37 9 0.06
38 24 0.17
39 8 0.06
40 4 0.03
41 12 0.09
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (38 bp):
TTTTGAAAAACTTATATAATATATAGTTTTAAAAAACA
Found at i:47225 original size:109 final size:109
Alignment explanation
Indices: 47022--47234 Score: 258
Period size: 109 Copynumber: 2.0 Consensus size: 109
47012 ATAGTTAATG
* **
47022 TTTTTGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGAAAGTTATATAATATATATTT
1 TTTTTGAAAAATTATATACAATATATAAGTTTTAAAACATTTTGAAAACTATATAATATATATTT
* * * *
47087 TTGAAATCATTTTGAAAATATAATGTATAGTTTTTAAAAAAACA
66 TTAAAATCATTTTGAAAATATAATATATAGCTTTGAAAAAAACA
*
47131 TTTTTGAAAAATT-TATATAATATAT-AGTTTTAAAAAACATTTTGAAAAACT-TAT-AT-TATA
1 TTTTTGAAAAATTATATACAATATATAAGTTTT--AAAACATTTTG-AAAACTATATAATATATA
47191 TTTTTAAAATCATTTTTGAAAACTAT-ATAATATAGCTTTGAAAA
63 TTTTTAAAATCA-TTTTGAAAA-TATAAT-ATATAGCTTTGAAAA
47235 CATTTTTAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
107 21 0.23
108 24 0.27
109 41 0.46
110 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (109 bp):
TTTTTGAAAAATTATATACAATATATAAGTTTTAAAACATTTTGAAAACTATATAATATATATTT
TTAAAATCATTTTGAAAATATAATATATAGCTTTGAAAAAAACA
Found at i:47239 original size:34 final size:35
Alignment explanation
Indices: 47124--47265 Score: 127
Period size: 34 Copynumber: 4.1 Consensus size: 35
47114 TAGTTTTTAA
*
47124 AAAAACATTTTTGAAAAATTTATATAATATATAGTTTT
1 AAAAACATTTTTGAAAAA-CTATAT-A-ATATAGTTTT
* *
47162 AAAAAACA-TTTTGAAAAACT-TATATTATATTTTT
1 -AAAAACATTTTTGAAAAACTATATAATATAGTTTT
* *
47196 AAAATCATTTTTG-AAAACTATATAATATAGCTTT
1 AAAAACATTTTTGAAAAACTATATAATATAGTTTT
* **
47230 GAAAACATTTTT-AAGTA-TA-AT-ATATAGTTTT
1 AAAAACATTTTTGAAAAACTATATAATATAGTTTT
47261 AAAAA
1 AAAAA
47266 ATATTTTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
31 13 0.15
32 2 0.02
33 14 0.16
34 36 0.41
35 1 0.01
36 3 0.03
37 1 0.01
38 10 0.11
39 7 0.08
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (35 bp):
AAAAACATTTTTGAAAAACTATATAATATAGTTTT
Found at i:47306 original size:13 final size:13
Alignment explanation
Indices: 47288--47315 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47278 ATACGCTATA
47288 TTATTATTATTAT
1 TTATTATTATTAT
47301 TTATTATTATTAT
1 TTATTATTATTAT
47314 TT
1 TT
47316 CTTTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:48550 original size:3 final size:3
Alignment explanation
Indices: 48542--48567 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48532 TTATTTACTT
48542 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
48568 TTTTTTGATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50367 original size:46 final size:46
Alignment explanation
Indices: 50279--50377 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 46
50269 GAGCTTTTAC
* ** * *
50279 TTGAGGAAATTGGAGTTAAGTCTAGAGATATAACTTAGTTCAATTA
1 TTGAGGAAAATGGAGTTAAGTCTAGAGATATAACAAAATTCAATAA
* * * *
50325 TTGAGGAAAATGGAGTTAAGTTTAGGGATTTAGCAAAATTCAATAA
1 TTGAGGAAAATGGAGTTAAGTCTAGAGATATAACAAAATTCAATAA
*
50371 CTGAGGA
1 TTGAGGA
50378 TGGGTAGGAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (46 bp):
TTGAGGAAAATGGAGTTAAGTCTAGAGATATAACAAAATTCAATAA
Found at i:53674 original size:115 final size:115
Alignment explanation
Indices: 53538--53772 Score: 454
Period size: 115 Copynumber: 2.1 Consensus size: 115
53528 AACCCTATAT
*
53538 ATATATATATATATATATAAATTTGTTTTTATATCAGCTTGCTTCTATTAATTGCTTATGTATCA
1 ATATATATATATATATATAAATTTGTTTTTATATCAGCTTGCTTCTATTAATTGCTTATGCATCA
53603 AATTTATGCATGATTTTGCATCGAGTGTGATGGAAACTAGAAACTCTTAC
66 AATTTATGCATGATTTTGCATCGAGTGTGATGGAAACTAGAAACTCTTAC
53653 ATATATATATATATATATAAATTTGTTTTTATATCAGCTTGCTTCTATTAATTGCTTATGCATCA
1 ATATATATATATATATATAAATTTGTTTTTATATCAGCTTGCTTCTATTAATTGCTTATGCATCA
53718 AATTTATGCATGATTTTGCATCGAGTGTGATGGAAACTAGAAACTCTTAC
66 AATTTATGCATGATTTTGCATCGAGTGTGATGGAAACTAGAAACTCTTAC
53768 A-ATAT
1 ATATAT
53773 GATCATGAAG
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
114 4 0.03
115 115 0.97
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (115 bp):
ATATATATATATATATATAAATTTGTTTTTATATCAGCTTGCTTCTATTAATTGCTTATGCATCA
AATTTATGCATGATTTTGCATCGAGTGTGATGGAAACTAGAAACTCTTAC
Found at i:65094 original size:8 final size:8
Alignment explanation
Indices: 65081--65147 Score: 80
Period size: 8 Copynumber: 8.1 Consensus size: 8
65071 TGCTTCATAC
65081 ATGCATGT
1 ATGCATGT
**
65089 ATGCATAC
1 ATGCATGT
65097 ATGCATGT
1 ATGCATGT
*
65105 ATGCACATGC
1 ATG--CATGT
65115 ATGCATGT
1 ATGCATGT
65123 ATGCATGT
1 ATGCATGT
65131 ATGCATGT
1 ATGCATGT
*
65139 ATGTATGT
1 ATGCATGT
65147 A
1 A
65148 CAATTATAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 43 0.86
10 7 0.14
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (8 bp):
ATGCATGT
Found at i:65103 original size:4 final size:4
Alignment explanation
Indices: 65080--65137 Score: 57
Period size: 4 Copynumber: 15.0 Consensus size: 4
65070 TTGCTTCATA
* * * *
65080 CATG CATG TATG CATA CATG CATG TATG CA-- CATG CATG CATG TATG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
*
65126 CATG TATG CATG
1 CATG CATG CATG
65138 TATGTATGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.05
4 40 0.95
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (4 bp):
CATG
Found at i:65118 original size:26 final size:26
Alignment explanation
Indices: 65084--65135 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
65074 TTCATACATG
*
65084 CATGTATGCATACATGCATGTATGCA
1 CATGCATGCATACATGCATGTATGCA
**
65110 CATGCATGCATGTATGCATGTATGCA
1 CATGCATGCATACATGCATGTATGCA
65136 TGTATGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (26 bp):
CATGCATGCATACATGCATGTATGCA
Found at i:68902 original size:35 final size:35
Alignment explanation
Indices: 68856--68930 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
68846 AAAATACATT
*
68856 AATTTAGGGTTTAGAATGTAATTAAGGTATTTTGG
1 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGG
* * *
68891 AATTTGGGGTTTATAATGTAATTAAAGTGTTTTGG
1 AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGG
68926 AATTT
1 AATTT
68931 TTAAACATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATGTAATTAAAGTATTTTGG
Found at i:71351 original size:2 final size:2
Alignment explanation
Indices: 71338--71373 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
71328 AGGAAAATGA
*
71338 AT AT AC 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
71374 GGAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:75989 original size:16 final size:17
Alignment explanation
Indices: 75965--75997 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
75955 TCTCTTTAAA
*
75965 GTTTTGGAT-AAAATGG
1 GTTTCGGATCAAAATGG
75981 GTTTCGGATCAAAATGG
1 GTTTCGGATCAAAATGG
75998 TGTAGCTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (17 bp):
GTTTCGGATCAAAATGG
Found at i:88608 original size:42 final size:42
Alignment explanation
Indices: 88561--88645 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
88551 GACGACTTTA
*
88561 TTCAGACAAAGTATCCAGATGAATCTATGACACTAACTTAAG
1 TTCAGACAAAGAATCCAGATGAATCTATGACACTAACTTAAG
88603 TTCAGACAAAGAATCCAGATGAATCTATGACACTAACTTAAG
1 TTCAGACAAAGAATCCAGATGAATCTATGACACTAACTTAAG
88645 T
1 T
88646 CTTCTTCCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (42 bp):
TTCAGACAAAGAATCCAGATGAATCTATGACACTAACTTAAG
Found at i:89915 original size:2 final size:2
Alignment explanation
Indices: 89860--89895 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
89850 AAATGGACAG
89860 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
89896 TAATAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91354 original size:17 final size:18
Alignment explanation
Indices: 91323--91356 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91313 TTACTTGCTA
*
91323 TTTTTAAATATTATTTAT
1 TTTTTAAATAATATTTAT
91341 TTTTTAAA-AATATTTA
1 TTTTTAAATAATATTTA
91357 GAAGTCGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTAAATAATATTTAT
Found at i:93705 original size:19 final size:20
Alignment explanation
Indices: 93681--93721 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
93671 TAACTGATCC
93681 AACTTAAT-TCAAAGAAATG
1 AACTTAATCTCAAAGAAATG
* *
93700 AACTTACTCTCAAAGTAATG
1 AACTTAATCTCAAAGAAATG
93720 AA
1 AA
93722 TGTAGGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (20 bp):
AACTTAATCTCAAAGAAATG
Found at i:94493 original size:15 final size:16
Alignment explanation
Indices: 94457--94495 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
94447 AGAGCCTCTG
* *
94457 AATCATTCAGTATTTA
1 AATCATTCAGCACTTA
94473 AATCATTCAGCACTT-
1 AATCATTCAGCACTTA
94488 AATCATTC
1 AATCATTC
94496 TGAAGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (16 bp):
AATCATTCAGCACTTA
Found at i:94754 original size:24 final size:24
Alignment explanation
Indices: 94727--94778 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
94717 AACACCAATC
*
94727 TTGACATAGATCTGATTAAGAAAT
1 TTGACATAGATCGGATTAAGAAAT
*
94751 TTGACATAGATCGGATTAAGAAGT
1 TTGACATAGATCGGATTAAGAAAT
94775 TTGA
1 TTGA
94779 ACACTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TTGACATAGATCGGATTAAGAAAT
Found at i:106227 original size:26 final size:26
Alignment explanation
Indices: 106198--106270 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
106188 ATATTTTTTT
106198 AAATAGAATAAATATAAA-TATAAATA
1 AAATA-AATAAATATAAATTATAAATA
** *
106224 AAAT-TTTAAAATATAAATTATCAATA
1 AAATAAAT-AAATATAAATTATAAATA
106250 AAATAAAT-AAT-T-AATTATAAA
1 AAATAAATAAATATAAATTATAAA
106271 AATTCAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 8 0.21
24 2 0.05
25 12 0.32
26 15 0.39
27 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
AAATAAATAAATATAAATTATAAATA
Found at i:106269 original size:19 final size:19
Alignment explanation
Indices: 106210--106271 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
106200 ATAGAATAAA
106210 TATAAATATAAATAA--AAT
1 TATAAA-ATAAATAATTAAT
* *
106228 TTTAAAATATA-AATT-AT
1 TATAAAATAAATAATTAAT
*
106245 CAATAAAATAAATAATTAAT
1 -TATAAAATAAATAATTAAT
106265 TATAAAA
1 TATAAAA
106272 ATTCAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 13 0.39
19 10 0.30
20 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAATAAATAATTAAT
Found at i:113768 original size:21 final size:20
Alignment explanation
Indices: 113683--113839 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
113673 ATGACCAACA
** *
113683 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
113702 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
113722 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
113742 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
113763 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
113784 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
113805 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
113825 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
113840 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:113868 original size:20 final size:20
Alignment explanation
Indices: 113806--113999 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
113796 CGATTTTCCA
* ** *
113806 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
113826 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
113846 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
113866 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
113886 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
113906 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
113926 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
113946 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
113966 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
113987 AAATCGCAACGCG
1 AAATCGCAACGCG
114000 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:113890 original size:60 final size:60
Alignment explanation
Indices: 113806--113999 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
113796 CGATTTTCCA
* ** * *
113806 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
113866 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
113926 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
113987 AAATCGCAACGCG
1 AAATCGCAACGCG
114000 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:114452 original size:33 final size:33
Alignment explanation
Indices: 114384--114454 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
114374 TTCACTTAGA
* *
114384 TTTCATTTCGCGTTACGATTATGTCGTTGCAAT
1 TTTCATTTCGCGTTACGATTATCTCATTGCAAT
* * * *
114417 TTTCATTTCGCGTTGCTATTCTCTCATTGCGAT
1 TTTCATTTCGCGTTACGATTATCTCATTGCAAT
114450 TTTCA
1 TTTCA
114455 AGTTAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTATCTCATTGCAAT
Found at i:114577 original size:20 final size:20
Alignment explanation
Indices: 114534--114642 Score: 106
Period size: 21 Copynumber: 5.7 Consensus size: 20
114524 GCAGAAGAGC
*
114534 CGCAACGAGATAAATGAAAAT
1 CGCAACGAGA-GAATGAAAAT
***
114555 CGCAACGAGAGAATGACTGT
1 CGCAACGAGAGAATGAAAAT
114575 CGCAACGAGAGAAATGAAAAT
1 CGCAACGAGAG-AATGAAAAT
114596 CGCAAC--GAG-A-G--AAT
1 CGCAACGAGAGAATGAAAAT
*
114610 CGCAACGCGA-AATGAAAAT
1 CGCAACGAGAGAATGAAAAT
114629 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
114643 CGCAACGCGA
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.12
16 4 0.06
17 2 0.03
19 15 0.21
20 20 0.28
21 22 0.31
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
CGCAACGAGAGAATGAAAAT
Found at i:114591 original size:41 final size:37
Alignment explanation
Indices: 114534--114649 Score: 136
Period size: 33 Copynumber: 3.2 Consensus size: 37
114524 GCAGAAGAGC
*
114534 CGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACTGT
1 CGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT-A---T
114575 CGCAACGAGAGAAATGAAAATCGCAACGAGAG-A-AT
1 CGCAACGAGAGAAATGAAAATCGCAACGAGAGAATAT
*
114610 CGCAAC--GCGAAATGAAAATCGCAACGAGAG-A-AT
1 CGCAACGAGAGAAATGAAAATCGCAACGAGAGAATAT
114643 CGCAACG
1 CGCAACG
114650 CGAAACCAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
33 32 0.44
35 7 0.10
38 1 0.01
40 1 0.01
41 31 0.43
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.10
Consensus pattern (37 bp):
CGCAACGAGAGAAATGAAAATCGCAACGAGAGAATAT
Found at i:114612 original size:14 final size:14
Alignment explanation
Indices: 114593--114649 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
114583 GAGAAATGAA
114593 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
114607 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
114626 AATCGCAACGAGAG
1 AATCGCAACGAGAG
114640 AATCGCAACG
1 AATCGCAACG
114650 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:114625 original size:33 final size:33
Alignment explanation
Indices: 114585--114665 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
114575 CGCAACGAGA
114585 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
114618 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
114651 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
114666 TTGCGATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:114720 original size:19 final size:19
Alignment explanation
Indices: 114661--114743 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
114651 GAAACCAAAA
*
114661 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
114679 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
114693 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
114712 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
114731 TCGCGTTGCGATT
1 TCGCGTTGCGATT
114744 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
18 10 0.18
19 30 0.54
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:114743 original size:52 final size:51
Alignment explanation
Indices: 114661--114765 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 51
114651 GAAACCAAAA
114661 TCGCATTGCGATTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
114712 TCGCGTTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATT-TCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
114764 TC
1 TC
114766 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 12 0.23
52 40 0.77
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (51 bp):
TCGCATTGCGATTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:116751 original size:92 final size:93
Alignment explanation
Indices: 116455--116829 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
116445 TAGATTGCTT
*
116455 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116520 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
116548 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
116613 TTTGTCTTTATTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
116641 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116705 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
116733 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116798 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
116825 AGTAA
1 AGTAA
116830 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 97 0.35
93 181 0.65
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:116768 original size:185 final size:185
Alignment explanation
Indices: 116455--116829 Score: 716
Period size: 185 Copynumber: 2.0 Consensus size: 185
116445 TAGATTGCTT
116455 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116520 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
116585 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTATTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTATTTTGTCTTTTGGTTG-A
*
116641 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116705 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
116770 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTATTTTGTCTTTTGGTTGA
116825 AGTAA
1 AGTAA
116830 TGCAATCCAT
Statistics
Matches: 187, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 6 0.03
185 137 0.73
186 44 0.24
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTATTTTGTCTTTTGGTTGA
Found at i:116917 original size:19 final size:19
Alignment explanation
Indices: 116877--117005 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
116867 TAGTTTACTT
* *
116877 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
116897 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
116916 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
116935 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
116949 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
116968 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
116982 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
117001 TCGCA
1 TCGCA
117006 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:116956 original size:33 final size:32
Alignment explanation
Indices: 116913--117005 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
116903 CGCGAAACCA
**
116913 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
116945 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
116978 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
117006 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:117003 original size:52 final size:52
Alignment explanation
Indices: 116877--117005 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
116867 TAGTTTACTT
**
116877 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
116929 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
116982 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
117006 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:117023 original size:19 final size:19
Alignment explanation
Indices: 117001--117135 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
116991 GAAACCAAAA
*
117001 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
117020 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
117036 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
117053 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
117069 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
117086 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
117105 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
117125 TCGTGTTGCGA
1 TCGCGTTGCGA
117136 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:117042 original size:14 final size:14
Alignment explanation
Indices: 117023--117079 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
117013 TTTCATTTCG
117023 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
117037 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
117054 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
117070 CGTTGCGATT
1 CGTTGCGATT
117080 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:117048 original size:33 final size:33
Alignment explanation
Indices: 117006--117098 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
116996 CAAAATCGCA
*
117006 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
117039 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
117072 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
117099 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:119076 original size:14 final size:14
Alignment explanation
Indices: 119057--119092 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
119047 ATTGTTTAAT
119057 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
119071 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
119085 TGATTTGT
1 TGATTTGT
119093 GTAATTGATG
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:119259 original size:33 final size:33
Alignment explanation
Indices: 119217--119334 Score: 164
Period size: 33 Copynumber: 3.4 Consensus size: 33
119207 GCGAAATGAA
119217 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
119250 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--A-GAG
119289 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
119323 AATCGCAATGCG
1 AATCGCAATGCG
119335 TTTATAATTT
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
33 28 0.37
34 13 0.17
35 2 0.03
36 1 0.01
37 1 0.01
38 2 0.03
39 13 0.17
40 16 0.21
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:119286 original size:20 final size:19
Alignment explanation
Indices: 119199--119316 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
119189 AAAAATGACT
119199 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
119218 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
119237 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
119251 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
119270 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
119290 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
119310 ATCGCAA
1 ATCGCAA
119317 CGAGAGAATC
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 39 0.43
20 36 0.40
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:119348 original size:73 final size:72
Alignment explanation
Indices: 119199--119334 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 72
119189 AAAAATGACT
119199 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
119263 AATGAAA
66 AATGAAA
119270 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCG
119335 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 10 0.16
72 19 0.30
73 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (72 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
AATGAAA
Found at i:119378 original size:33 final size:33
Alignment explanation
Indices: 119341--119493 Score: 150
Period size: 33 Copynumber: 4.5 Consensus size: 33
119331 TGCGTTTATA
119341 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
119374 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
119414 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
119445 ATTTTGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
119478 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
119494 TTCATTTCGC
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
31 8 0.08
32 5 0.05
33 51 0.54
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:119387 original size:19 final size:19
Alignment explanation
Indices: 119363--119579 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
119353 GATTCTCTCG
119363 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
119382 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
119401 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
119415 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
119434 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
*
119453 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
119467 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
119486 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
119505 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
119519 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
119539 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
119553 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
119572 TTGCGATT
1 TTGCGATT
119580 CTCTCGTTGC
Statistics
Matches: 167, Mismatches: 10, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 29 0.17
16 22 0.13
17 20 0.12
18 3 0.02
19 81 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:119398 original size:52 final size:52
Alignment explanation
Indices: 119341--119551 Score: 404
Period size: 52 Copynumber: 4.0 Consensus size: 52
119331 TGCGTTTATA
119341 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
119393 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
119445 ATTTTGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
119497 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
119550 AT
1 AT
119552 GTTGGGATTT
Statistics
Matches: 156, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 139 0.89
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:119601 original size:33 final size:33
Alignment explanation
Indices: 119382--119593 Score: 234
Period size: 33 Copynumber: 6.2 Consensus size: 33
119372 TCATTTCGCA
119382 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
119415 TTGCGATTTTCATTTCGCATTGCGATTTTCAT-T
1 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
* * * *
119448 TTGC-A-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCGATTTTC-ATT-TCGCATTGCGA--TTC-TCTCG
119484 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
119519 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
119553 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
119586 TTGCGATT
1 TTGCGATT
119594 GTAATTTCCG
Statistics
Matches: 149, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
31 3 0.02
32 5 0.03
33 79 0.53
34 30 0.20
35 8 0.05
36 4 0.03
38 13 0.09
39 4 0.03
40 3 0.02
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:121892 original size:12 final size:12
Alignment explanation
Indices: 121875--121899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
121865 TTCTTCGGGA
121875 CTTTTTCTTCTT
1 CTTTTTCTTCTT
121887 CTTTTTCTTCTT
1 CTTTTTCTTCTT
121899 C
1 C
121900 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:122108 original size:24 final size:24
Alignment explanation
Indices: 122074--122120 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
122064 CTGAAACATC
122074 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
122098 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
122121 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:122704 original size:21 final size:21
Alignment explanation
Indices: 122676--122715 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
122666 ACCTGTTGCC
122676 GGATTAGGAA-GGATGTCGTT
1 GGATTAGGAACGGATGTCGTT
122696 GGATATAGGAACGGATGTCG
1 GGAT-TAGGAACGGATGTCG
122716 CCGGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.28, C:0.07, G:0.40, T:0.25
Consensus pattern (21 bp):
GGATTAGGAACGGATGTCGTT
Found at i:122831 original size:20 final size:20
Alignment explanation
Indices: 122803--123032 Score: 266
Period size: 20 Copynumber: 11.5 Consensus size: 20
122793 AAATTTCAGT
* * * *
122803 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
* *
122823 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATACGC
* * *
122843 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
122863 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
122883 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
122903 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
122923 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
122943 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
122963 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
122983 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
123003 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
123023 GTTGCGATTT
1 GTTGCGATTT
123033 TAATATTCGC
Statistics
Matches: 189, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
19 2 0.01
20 185 0.98
21 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:123041 original size:20 final size:20
Alignment explanation
Indices: 123019--123116 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
123009 ATTTATGTGT
*
123019 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
123039 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
123060 TCGCAATGCGAATTTGTACT-A
1 TCGCGTTGCG-ATTT-TAATAA
* *
123081 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
123102 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
123117 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:123112 original size:42 final size:43
Alignment explanation
Indices: 123019--123117 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
123009 ATTTATGTGT
* *
123019 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
123060 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
123102 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
123118 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:127569 original size:27 final size:27
Alignment explanation
Indices: 127517--127569 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
127507 ATGCTGGAAT
* *
127517 CGTTGGGATTGATGGCAATGGCGGCAA
1 CGTTGGCATTGATGGCAATGGAGGCAA
*
127544 CGTTGGCATTGGA-GGCAATTGAGGCA
1 CGTTGGCATT-GATGGCAATGGAGGCA
127570 GTTGCTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.23
Consensus pattern (27 bp):
CGTTGGCATTGATGGCAATGGAGGCAA
Found at i:128383 original size:6 final size:6
Alignment explanation
Indices: 128372--128399 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
128362 TTTCTAGAAA
128372 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
128400 ACTCATTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:129422 original size:21 final size:21
Alignment explanation
Indices: 129398--129454 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
129388 CTAGAACAGG
* *
129398 GAGTATCGGTATTGCTTTAAT
1 GAGTATCAGTATTACTTTAAT
129419 GAGTATCAGTATTACTTTAAT
1 GAGTATCAGTATTACTTTAAT
*
129440 GAGTATTAGTATTAC
1 GAGTATCAGTATTAC
129455 CTTTGTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (21 bp):
GAGTATCAGTATTACTTTAAT
Found at i:132393 original size:16 final size:16
Alignment explanation
Indices: 132372--132404 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
132362 AAAATCATTC
132372 GATCAAAGAAAGAGAT
1 GATCAAAGAAAGAGAT
132388 GATCAAAGAAAGAGAT
1 GATCAAAGAAAGAGAT
132404 G
1 G
132405 TAATTGAAAT
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:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (16 bp):
GATCAAAGAAAGAGAT
Found at i:134616 original size:29 final size:29
Alignment explanation
Indices: 134584--134645 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
134574 TATTTTTTTA
* * * *
134584 ATATTAAACTTTCAAAATTTATATAATGG
1 ATATTAAACTTTAAAAAATTATAAAATAG
134613 ATATTAAACTTTAAAAAATTATAAAATAG
1 ATATTAAACTTTAAAAAATTATAAAATAG
134642 ATAT
1 ATAT
134646 GATATCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATTAAACTTTAAAAAATTATAAAATAG
Found at i:134840 original size:21 final size:21
Alignment explanation
Indices: 134808--134853 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
134798 ATAGAAATTC
134808 AAAATTTATTTTTAAA-ACTAT
1 AAAA-TTATTTTTAAAGACTAT
*
134829 AAAA-TATTTTTTAAAGATTAT
1 AAAATTA-TTTTTAAAGACTAT
134850 AAAA
1 AAAA
134854 AAATTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.09
20 8 0.36
21 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATTATTTTTAAAGACTAT
Found at i:135002 original size:2 final size:2
Alignment explanation
Indices: 134989--135021 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
134979 ATAAATTTAA
*
134989 AT AT AC 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 A
135022 ATTTCAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:139775 original size:21 final size:20
Alignment explanation
Indices: 139689--139846 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
139679 AAATGACCAA
**
139689 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
139708 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
139728 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
139748 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
139769 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
139790 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
139810 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
139831 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
139847 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:139878 original size:20 final size:20
Alignment explanation
Indices: 139813--140062 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
139803 CGATTTTCCA
* ** *
139813 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* *
139833 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
139853 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
139873 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
139893 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
139913 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
139933 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
139953 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
139973 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
139993 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
140013 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
140033 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
140053 AAATCACAAC
1 AAATCGCAAC
140063 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
20 194 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:140782 original size:24 final size:24
Alignment explanation
Indices: 140743--140789 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
140733 AAATTTGGTC
140743 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
140767 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
140790 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:140981 original size:12 final size:12
Alignment explanation
Indices: 140964--140988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
140954 ATATAATCCT
140964 GAAGAAGAAAAA
1 GAAGAAGAAAAA
140976 GAAGAAGAAAAA
1 GAAGAAGAAAAA
140988 G
1 G
140989 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:143363 original size:19 final size:19
Alignment explanation
Indices: 143323--143401 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
143313 GATTCTCTCG
143323 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
143343 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
143362 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
143376 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
143395 TTGCGAT
1 TTGCGAT
143402 AGTCAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:143497 original size:14 final size:14
Alignment explanation
Indices: 143478--143532 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
143468 CGGAAATGAA
143478 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
143492 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
143511 AATCGCAACGAGAG
1 AATCGCAACGAGAG
143525 AATCGCAA
1 AATCGCAA
143533 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:143512 original size:33 final size:33
Alignment explanation
Indices: 143460--143551 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
143450 CCATTACATT
143460 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
143494 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
143527 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
143552 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 49 0.84
34 9 0.16
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:143551 original size:52 final size:52
Alignment explanation
Indices: 143492--143608 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
143482 GCAACGAGAG
143492 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
143544 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
143596 AATCGCATTGCGA
1 AATCGCAATGCGA
143609 TTCTCCCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:143622 original size:33 final size:33
Alignment explanation
Indices: 143585--143655 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
143575 ATAATCGCAA
143585 TGCGAAATTAAAATCGCATTGCGATTCTCCCAT
1 TGCGAAATTAAAATCGCATTGCGATTCTCCCAT
** * ** * *
143618 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGAAATTAAAATCGCATTGCGATTCTCCCAT
143651 TGCGA
1 TGCGA
143656 TTTTCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (33 bp):
TGCGAAATTAAAATCGCATTGCGATTCTCCCAT
Found at i:143639 original size:19 final size:19
Alignment explanation
Indices: 143615--143694 Score: 116
Period size: 19 Copynumber: 4.5 Consensus size: 19
143605 GCGATTCTCC
143615 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
143634 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
143650 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
143667 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
143686 CATTGCGAT
1 CATTGCGAT
143695 AGTCAATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.11
16 7 0.13
17 7 0.13
19 34 0.63
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:143656 original size:33 final size:33
Alignment explanation
Indices: 143598--143676 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
143588 GAAATTAAAA
143598 TCGCATTGCGATTCTCCCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATT
* *
143631 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATT
143664 TCGCATTGCGATT
1 TCGCATTGCGATT
143677 TTCATTTCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (33 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATT
Found at i:143749 original size:21 final size:21
Alignment explanation
Indices: 143709--143750 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
143699 AATTTTGCCT
*
143709 TCAACATAATGCAGATTGAAA
1 TCAACATAATGCAGAATGAAA
143730 TCAACATAATGC-GAAATGAAA
1 TCAACATAATGCAG-AATGAAA
143751 ATCGCAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (21 bp):
TCAACATAATGCAGAATGAAA
Found at i:143788 original size:19 final size:18
Alignment explanation
Indices: 143740--143795 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
143730 TCAACATAAT
143740 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
143758 -CGAAA-G--AATCGCAA
1 GCGAAATGAAAATCGCAA
143772 CGCGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
143791 TGCGA
1 -GCGA
143796 TTTTGGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 8 0.25
16 6 0.19
17 6 0.19
19 12 0.38
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (18 bp):
GCGAAATGAAAATCGCAA
Found at i:143813 original size:19 final size:19
Alignment explanation
Indices: 143791--143919 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
143781 AAAATCGCAA
143791 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
143810 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
143824 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
143843 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
143857 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
143876 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
143895 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
143915 TGCGA
1 TGCGA
143920 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:143833 original size:33 final size:33
Alignment explanation
Indices: 143791--143882 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
143781 AAAATCGCAA
143791 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
143824 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
143857 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
143883 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:144122 original size:93 final size:93
Alignment explanation
Indices: 143963--144341 Score: 717
Period size: 93 Copynumber: 4.1 Consensus size: 93
143953 TTGAATGGAA
143963 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
144028 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
144056 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
144121 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
144149 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
144212 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
144240 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
144305 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
144333 AAATTTACT
1 AAATTTACT
144342 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
91 89 0.32
93 190 0.68
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:144274 original size:184 final size:185
Alignment explanation
Indices: 143963--144341 Score: 715
Period size: 184 Copynumber: 2.0 Consensus size: 185
143953 TTGAATGGAA
143963 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
144028 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
144093 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
144149 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATTATTT-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
144213 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
144278 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
144333 AAATTTACT
1 AAATTTACT
144342 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 146 0.77
186 44 0.23
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:146082 original size:33 final size:33
Alignment explanation
Indices: 146037--146150 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
146027 TCTTTTGGTT
146037 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
146070 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
146103 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
146135 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
146151 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:146083 original size:19 final size:18
Alignment explanation
Indices: 146044--146155 Score: 95
Period size: 14 Copynumber: 6.8 Consensus size: 18
146034 GTTGAAATGA
146044 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
146059 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
146076 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
146092 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
146109 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
146124 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
146141 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
146156 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 18 0.23
17 8 0.10
18 8 0.10
19 20 0.25
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:146186 original size:14 final size:14
Alignment explanation
Indices: 146167--146220 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
146157 TTTGGTTTCG
146167 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
146181 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
146200 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
146214 CGTTGCG
1 CGTTGCG
146221 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:146199 original size:33 final size:33
Alignment explanation
Indices: 146151--146231 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
146141 AAAATCGCAA
**
146151 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
146184 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
146217 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
146232 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:146267 original size:41 final size:41
Alignment explanation
Indices: 146207--146284 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
146197 TCGCGTTGCG
* *
146207 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
146248 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
146285 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Done.