Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 24
Found at i:4048599 original size:19 final size:19
Alignment explanation
Indices: 4048530--4048772 Score: 274
Period size: 19 Copynumber: 13.7 Consensus size: 19
4048520 GCAACGAGAG
4048530 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4048549 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
4048563 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4048583 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4048602 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4048616 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4048636 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4048655 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4048669 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4048688 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4048707 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4048721 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4048741 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4048760 AATCGCATTGCGA
1 AATCGCAATGCGA
4048773 TTCTCTCGTT
Statistics
Matches: 192, Mismatches: 9, Indels: 46
0.78 0.04 0.19
Matches are distributed among these distances:
14 40 0.21
15 5 0.03
16 5 0.03
17 9 0.05
18 1 0.01
19 92 0.48
20 40 0.21
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4048673 original size:86 final size:84
Alignment explanation
Indices: 4048516--4048695 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
4048506 CGGAAATTAC
4048516 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAA-GCGG-AATG
4048581 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
4048602 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAAGCGG
*
4048665 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
4048688 AATCGCAA
1 AATCGCAA
4048696 TGCGAAATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 54 0.63
87 16 0.19
89 2 0.02
90 1 0.01
91 2 0.02
92 11 0.13
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:4048716 original size:105 final size:106
Alignment explanation
Indices: 4048530--4048766 Score: 440
Period size: 105 Copynumber: 2.2 Consensus size: 106
4048520 GCAACGAGAG
*
4048530 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
4048595 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
* *
4048636 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
4048700 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
4048741 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
4048767 TTGCGATTCT
Statistics
Matches: 128, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
105 87 0.68
106 41 0.32
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (106 bp):
AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:4048806 original size:53 final size:52
Alignment explanation
Indices: 4048743--4048854 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 52
4048733 GAAATGAAAA
*
4048743 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
4048795 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
4048848 TCGCATT
1 TCGCATT
4048855 ACGATTTTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
52 7 0.13
53 45 0.87
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:4048821 original size:19 final size:19
Alignment explanation
Indices: 4048781--4048868 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
4048771 GATTCTCTCG
4048781 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4048801 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4048820 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4048834 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4048853 TTACGATTTTCATTTC
1 TTGCGATTTTCATTTC
4048869 AACATAATGC
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.12
17 7 0.12
19 25 0.42
20 15 0.25
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4048978 original size:14 final size:14
Alignment explanation
Indices: 4048959--4048995 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4048949 CATCAATTAC
4048959 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4048973 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4048987 ACAAATCAA
1 ACAAATCAA
4048996 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4050962 original size:19 final size:19
Alignment explanation
Indices: 4050920--4051073 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
4050910 TAGTTTACTT
* *
4050920 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
4050940 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
4050959 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4050978 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4050997 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4051011 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4051030 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
4051044 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4051063 TCGCAATGCGA
1 TCGCAACGCGA
4051074 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 21
0.75 0.10 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 63 0.58
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4051014 original size:14 final size:14
Alignment explanation
Indices: 4050995--4051051 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4050985 GCGAAATGAA
*
4050995 AATCGCAACGACAG
1 AATCGCAACGAAAG
4051009 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
4051026 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
4051042 AATCGCAACG
1 AATCGCAACG
4051052 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4051022 original size:33 final size:33
Alignment explanation
Indices: 4050938--4051068 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
4050928 CGAAACTTAA
* *
4050938 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
4050976 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
4051009 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
4051042 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4051069 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:4051065 original size:52 final size:51
Alignment explanation
Indices: 4050937--4051073 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
4050927 ACGAAACTTA
* * * *
4050937 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
4050988 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
4051040 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
4051074 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:4051104 original size:14 final size:14
Alignment explanation
Indices: 4051085--4051143 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
4051075 TTTGGTTTCG
4051085 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
4051099 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
4051116 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
4051132 CGTTGCGATTTT
1 CGTTGCGATTTT
4051144 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4051111 original size:33 final size:33
Alignment explanation
Indices: 4051069--4051192 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
4051059 AAAATCGCAA
*
4051069 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
4051102 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
4051135 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
4051168 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
4051193 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4051123 original size:19 final size:18
Alignment explanation
Indices: 4051069--4051160 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
4051059 AAAATCGCAA
4051069 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
4051088 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
4051102 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
4051121 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
4051135 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
4051154 TGCGATT
1 TGCGATT
4051161 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:4051170 original size:14 final size:14
Alignment explanation
Indices: 4051118--4051174 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4051108 TTTGGTTTCG
*
4051118 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
4051132 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4051151 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4051165 CGTTGCGATT
1 CGTTGCGATT
4051175 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4051449 original size:93 final size:93
Alignment explanation
Indices: 4051290--4051605 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
4051280 TTAGGGTATT
4051290 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4051355 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
4051383 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4051448 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
4051476 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
4051541 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
4051569 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4051606 AAGCAATCTA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 221 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:4053323 original size:20 final size:20
Alignment explanation
Indices: 4053292--4053398 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 20
4053282 TTTTGGTTGA
4053292 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
4053312 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
4053332 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
4053351 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
4053366 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
4053385 AATGAAAATCGCAA
1 AATGAAAATCGCAA
4053399 TGCGATTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.41
20 17 0.23
21 12 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:4053344 original size:21 final size:21
Alignment explanation
Indices: 4053290--4053354 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
4053280 TCTTTTGGTT
4053290 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
4053311 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4053331 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4053352 GAA
1 GAA
4053355 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:4053434 original size:14 final size:14
Alignment explanation
Indices: 4053415--4053471 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4053405 TTTGGTTTCG
4053415 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4053429 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4053448 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4053462 CGTTGCGATT
1 CGTTGCGATT
4053472 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4053447 original size:33 final size:33
Alignment explanation
Indices: 4053399--4053478 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
4053389 AAAATCGCAA
**
4053399 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4053432 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4053465 TGCGATTTTCATTT
1 TGCGATTTTCATTT
4053479 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4053484 original size:21 final size:21
Alignment explanation
Indices: 4053459--4053532 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
4053449 GTTGCGATTC
4053459 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
4053480 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
*
4053501 TCACGTTGCGATTTTCATTTAT
1 TCTCGTTGCGATTTTCATTT-T
4053523 T-TCGTTGCGA
1 TCTCGTTGCGA
4053533 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.14
21 30 0.68
22 8 0.18
ACGTcount: A:0.15, C:0.19, G:0.18, T:0.49
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:4053654 original size:33 final size:33
Alignment explanation
Indices: 4053612--4053682 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
4053602 AATACTAACT
4053612 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
4053645 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
4053678 TGAAA
1 TGAAA
4053683 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:4054088 original size:20 final size:20
Alignment explanation
Indices: 4054063--4054214 Score: 189
Period size: 20 Copynumber: 7.6 Consensus size: 20
4054053 CTTTAAAAAT
4054063 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4054083 CGCGTTGCGATATACAGATA
1 CGCGTTGCGATTTACGGATA
*
4054103 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
4054123 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4054143 CACGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
4054163 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4054183 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4054203 CGCGTTGCGATT
1 CGCGTTGCGATT
4054215 CTTGAAAATC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 113 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4054209 original size:60 final size:60
Alignment explanation
Indices: 4054062--4054214 Score: 209
Period size: 60 Copynumber: 2.5 Consensus size: 60
4054052 GCTTTAAAAA
*
4054062 TCGCGTTGCGATTTACGGATACGCGTTGCGATATACAGATACGCATTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACAGATACGCATTGCGATTTACGGAT
* * * *
4054122 ACGCGTTGCGATTTACGGATACACGTTGCGATTTACAGATACGCGTTGCGATTTATGTG-T
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACAGATACGCATTGCGATTTACG-GAT
* ** *
4054182 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
4054215 CTTGAAAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 80 0.99
61 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACAGATACGCATTGCGATTTACGGAT
Found at i:4055763 original size:30 final size:30
Alignment explanation
Indices: 4055727--4055799 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
4055717 TATTCTGATT
*
4055727 AAACTAATTCGGTGGCCAACTGAATTAACC
1 AAACTAAGTCGGTGGCCAACTGAATTAACC
4055757 AAACTAAGTCGGTGGCCAACTGAATTAACC
1 AAACTAAGTCGGTGGCCAACTGAATTAACC
4055787 AAACTAAGTCGGT
1 AAACTAAGTCGGT
4055800 TCGGTCTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (30 bp):
AAACTAAGTCGGTGGCCAACTGAATTAACC
Found at i:4057870 original size:15 final size:15
Alignment explanation
Indices: 4057852--4057908 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
4057842 TTTCGAAAAA
4057852 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
4057867 TGAATTACTGAAATA
1 TGAATTACTGAAATT
*
4057882 TGAATTA-TTAGAATT
1 TGAATTACTGA-AATT
4057897 TGAATT-CTGAAA
1 TGAATTACTGAAA
4057909 AATGTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 4 0.11
15 32 0.89
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:4057885 original size:30 final size:29
Alignment explanation
Indices: 4057846--4057912 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
4057836 TTAGTTTTTC
4057846 GAAAAATGAATTACTGA-AATTTGAATTACT
1 GAAAAATGAATTA-TGAGAATTTGAATT-CT
* *
4057876 GAAATATGAATTATTAGAATTTGAATTCT
1 GAAAAATGAATTATGAGAATTTGAATTCT
4057905 GAAAAATG
1 GAAAAATG
4057913 TTTTTCGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.34
Consensus pattern (29 bp):
GAAAAATGAATTATGAGAATTTGAATTCT
Found at i:4057926 original size:14 final size:14
Alignment explanation
Indices: 4057907--4057940 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4057897 TGAATTCTGA
*
4057907 AAAATGTTTTTCGG
1 AAAATGTTTTCCGG
*
4057921 AAAATGTTTTCCGT
1 AAAATGTTTTCCGG
4057935 AAAATG
1 AAAATG
4057941 AATTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:4058298 original size:11 final size:11
Alignment explanation
Indices: 4058282--4058319 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4058272 TTAAATATCT
4058282 TTATTAAAATA
1 TTATTAAAATA
4058293 TTATTAAAATA
1 TTATTAAAATA
*
4058304 -TATAAATAATA
1 TTATTAA-AATA
4058315 TTATT
1 TTATT
4058320 CATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 15 0.65
12 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATTAAAATA
Found at i:4058334 original size:19 final size:20
Alignment explanation
Indices: 4058282--4058359 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
4058272 TTAAATATCT
4058282 TTATTAAA-ATATTATTAAA
1 TTATTAAATATATTATTAAA
* *
4058301 ATATATAAATAATATTATT-CA
1 TTAT-TAAAT-ATATTATTAAA
**
4058322 TTATTAAATATA-TAAAAAA
1 TTATTAAATATATTATTAAA
4058341 TTTATT--ATATATTATTAAA
1 -TTATTAAATATATTATTAAA
4058360 ATAAAAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
18 7 0.16
19 12 0.27
20 14 0.31
21 4 0.09
22 8 0.18
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTAAATATATTATTAAA
Found at i:4058335 original size:30 final size:25
Alignment explanation
Indices: 4058291--4058354 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 25
4058281 TTTATTAAAA
4058291 TATTATTAAAATATATAAATAATATTAT
1 TATTATTAAAATATA-AAA-AAT-TTAT
4058319 TCATTATTAAATATATAAAAAATTTAT
1 T-ATTATTAAA-ATATAAAAAATTTAT
4058346 TATATATTA
1 TAT-TATTA
4058355 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
26 2 0.06
27 10 0.30
28 4 0.12
29 12 0.36
30 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTATTAAAATATAAAAAATTTAT
Found at i:4058416 original size:15 final size:16
Alignment explanation
Indices: 4058378--4058549 Score: 89
Period size: 18 Copynumber: 9.8 Consensus size: 16
4058368 ATAATATCTT
4058378 ATATTATTATAATATA
1 ATATTATTATAATATA
*
4058394 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
* *
4058411 ATATTAAAAATATAATATCTT
1 ATATT---ATTATAATA--TA
4058432 ATATTATTATAATATA
1 ATATTATTATAATATA
*
4058448 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
* *
4058465 ATATTAAAAATATAATATCTT
1 ATATT---ATTATAATA--TA
4058486 ATATTATTATAATATA
1 ATATTATTATAATATA
*
4058502 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
4058519 ATATTAATAATATAATATA
1 ATATT-AT--TATAATATA
4058538 ATATTATTATAA
1 ATATTATTATAA
4058550 ATATTAATAA
Statistics
Matches: 120, Mismatches: 14, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
15 9 0.08
16 15 0.12
17 24 0.20
18 41 0.34
19 19 0.16
21 12 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:4058420 original size:54 final size:54
Alignment explanation
Indices: 4058361--4058549 Score: 346
Period size: 54 Copynumber: 3.5 Consensus size: 54
4058351 ATTATTAAAA
4058361 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
1 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
4058415 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
1 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
4058469 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
1 TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
* *
4058523 TAATAATATAATA--TAATATTATTATAA
1 TAAAAATATAATATCTTATATTATTATAA
4058550 ATATTAATAA
Statistics
Matches: 133, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
52 13 0.10
54 120 0.90
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (54 bp):
TAAAAATATAATATCTTATATTATTATAATATAATTGATTATTTTATATAATAT
Found at i:4058423 original size:108 final size:108
Alignment explanation
Indices: 4058328--4058536 Score: 327
Period size: 108 Copynumber: 2.0 Consensus size: 108
4058318 TTCATTATTA
*
4058328 AATA-TATAA-AAAATTTATTATATATTAT-TAA-AATAAAAATATAATATCTTATATTATTATA
1 AATATTATAATAAAATTGATTAT-T-TTATATAATAATAAAAATATAATATCTTATATTATTATA
4058389 ATATAATTGATTATTTTATATAATATTAAAAATATAATATCTTAT
64 ATATAATTGATTATTTTATATAATATTAAAAATATAATATCTTAT
* * *
4058434 ATTATTATAATATAATTGATTATTTTATATAATATTAAAAATATAATATCTTATATTATTATAAT
1 AATATTATAATAAAATTGATTATTTTATATAATAATAAAAATATAATATCTTATATTATTATAAT
*
4058499 ATAATTGATTATTTTATATAATATTAATAATATAATAT
66 ATAATTGATTATTTTATATAATATTAAAAATATAATAT
4058537 AATATTATTA
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
106 7 0.07
107 9 0.10
108 78 0.83
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (108 bp):
AATATTATAATAAAATTGATTATTTTATATAATAATAAAAATATAATATCTTATATTATTATAAT
ATAATTGATTATTTTATATAATATTAAAAATATAATATCTTAT
Found at i:4058552 original size:22 final size:20
Alignment explanation
Indices: 4058514--4058563 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
4058504 TGATTATTTT
4058514 ATATAATATTAATAATA-TA
1 ATATAATATTAATAATATTA
4058533 ATATAATATTATTATAAATATTA
1 ATATAATATTA--AT-AATATTA
4058556 ATA-AATAT
1 ATATAATAT
4058564 ATTCTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
21 2 0.07
22 9 0.33
23 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAATATTAATAATATTA
Found at i:4058554 original size:12 final size:10
Alignment explanation
Indices: 4058518--4058563 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
4058508 TATTTTATAT
4058518 AATATTAAT-
1 AATATTAATA
4058527 AATA-TAATA
1 AATATTAATA
4058536 TAATATTATTATA
1 -AATATTA--ATA
4058549 AATATTAATA
1 AATATTAATA
4058559 AATAT
1 AATAT
4058564 ATTCTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATTAATA
Found at i:4058810 original size:42 final size:43
Alignment explanation
Indices: 4058755--4058869 Score: 191
Period size: 42 Copynumber: 2.7 Consensus size: 43
4058745 ATGAATTACA
4058755 TTCC-GGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCAGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
4058797 TT-TAGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCAGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
4058839 TTCCA-GAAAACGAATTACGTAAAACAAACAC
1 TTCCAGGAAAACGAATTACGTGAAACAAACAC
4058870 ATGATTTCGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
42 67 0.99
43 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (43 bp):
TTCCAGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:4063106 original size:18 final size:18
Alignment explanation
Indices: 4063083--4063124 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
4063073 TATAAACTAT
4063083 CAGCATGAGACCTTTCCC
1 CAGCATGAGACCTTTCCC
4063101 CAGCATGAGACCTTTCCC
1 CAGCATGAGACCTTTCCC
*
4063119 CTGCAT
1 CAGCAT
4063125 TCTGCTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (18 bp):
CAGCATGAGACCTTTCCC
Found at i:4071465 original size:17 final size:17
Alignment explanation
Indices: 4071443--4071475 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4071433 GCAAGTCTTT
4071443 GAGGTATAG-ACGTATAG
1 GAGGTAT-GTACGTATAG
4071460 GAGGTATGTACGTATA
1 GAGGTATGTACGTATA
4071476 CTTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.27
Consensus pattern (17 bp):
GAGGTATGTACGTATAG
Found at i:4089776 original size:2 final size:2
Alignment explanation
Indices: 4089765--4089807 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4089755 CATCTTAAAC
4089765 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4089806 TA
1 TA
4089808 GTCATTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4098982 original size:23 final size:23
Alignment explanation
Indices: 4098952--4098998 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4098942 TTCTCATGCT
4098952 AATCTCACCGGTTCACTTCCGAG
1 AATCTCACCGGTTCACTTCCGAG
4098975 AATCTCACCGGTTCACTTCCGAG
1 AATCTCACCGGTTCACTTCCGAG
4098998 A
1 A
4098999 CACCTGCGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (23 bp):
AATCTCACCGGTTCACTTCCGAG
Found at i:4102064 original size:15 final size:14
Alignment explanation
Indices: 4102040--4102081 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
4102030 TGACAGTAAG
*
4102040 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
4102055 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
4102069 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
4102082 GTATCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:4102072 original size:20 final size:20
Alignment explanation
Indices: 4102040--4102081 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4102030 TGACAGTAAG
*
4102040 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
4102060 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
4102080 TT
1 TT
4102082 GTATCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:4102555 original size:3 final size:3
Alignment explanation
Indices: 4102539--4102599 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
4102529 TGTAATTTTA
* * * *
4102539 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4102586 AAT AAT TAT AAT AA
1 AAT AAT AAT AAT AA
4102600 CATAAAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:4103238 original size:113 final size:113
Alignment explanation
Indices: 4102892--4103421 Score: 659
Period size: 116 Copynumber: 4.6 Consensus size: 113
4102882 ATAGAATTAT
* *
4102892 GCAAAAAGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * * * **
4102957 ATTATGAA-T-TTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
66 ATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * *
4103004 GCAAAAGGTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * *
4103069 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* *
4103120 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * ** **
4103185 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGA
66 ATTATGAACTCTACCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * *
4103233 GCAAAAGGTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * *
4103298 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* *
4103349 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
4103414 ATTATGAA
66 ATTATGAA
4103422 TTTTCTCTTG
Statistics
Matches: 354, Mismatches: 56, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
112 48 0.14
113 116 0.33
115 19 0.05
116 169 0.48
117 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
Found at i:4103293 original size:229 final size:228
Alignment explanation
Indices: 4102893--4103422 Score: 936
Period size: 229 Copynumber: 2.3 Consensus size: 228
4102883 TAGAATTATG
* *
4102893 CAAAAAGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
4102958 TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 TTATGAATCTCACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
4103023 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
131 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
4103088 GGCAATGTTGATCCATCAAATGATGAATTCAAA
196 GGCAATGTTGATCCATCAAATGATGAATTCAAA
*
4103121 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
4103186 TTATGAA-CTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAGGTTGAACAAA
66 TTATGAATCTC--ACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
4103250 TTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
129 TTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
4103315 CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
194 CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
*
4103350 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
4103415 TTATGAAT
66 TTATGAAT
4103423 TTTCTCTTGA
Statistics
Matches: 287, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
227 2 0.01
228 69 0.24
229 216 0.75
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (228 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAATCTCACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
GGCAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:4104241 original size:83 final size:83
Alignment explanation
Indices: 4104104--4104494 Score: 667
Period size: 83 Copynumber: 4.7 Consensus size: 83
4104094 AGTTCTTACC
*
4104104 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
*
4104169 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCT
*
4104187 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCCAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
4104252 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
* * *
4104270 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
4104335 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
* * * *
4104353 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
4104418 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
*
4104436 AAACCAGATCAGATAACTCAACGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
4104495 TCAGTTAATG
Statistics
Matches: 295, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
83 294 1.00
84 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
TCAATGATTGGTTCTGCT
Found at i:4116291 original size:29 final size:28
Alignment explanation
Indices: 4116229--4116300 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
4116219 ACTTGCAAAT
* *
4116229 AAAATAAAAAATATTATAAGAATAATAA
1 AAAATAAAAAATATTAAAAGAAGAATAA
*
4116257 ATAAATAAAAAAT-TTGAAAAGAAAGAATTA
1 A-AAATAAAAAATATT-AAAAG-AAGAATAA
* *
4116287 AAAATTAAATATAT
1 AAAATAAAAAATAT
4116301 AAATTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.09
29 24 0.69
30 8 0.23
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (28 bp):
AAAATAAAAAATATTAAAAGAAGAATAA
Found at i:4117872 original size:16 final size:16
Alignment explanation
Indices: 4117847--4117879 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4117837 TGACAGTAAG
4117847 TTTCTCTTCTTTCTTT
1 TTTCTCTTCTTTCTTT
*
4117863 TTTCTTTTCTTTCTTT
1 TTTCTCTTCTTTCTTT
4117879 T
1 T
4117880 CTGTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTCTTCTTTCTTT
Found at i:4117886 original size:15 final size:14
Alignment explanation
Indices: 4117847--4117889 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
4117837 TGACAGTAAG
*
4117847 TTTCTCTTCTTTCTTT
1 TTTCTTTTCTTTC--T
4117863 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
4117877 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
4117890 GTATCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 12 0.48
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:4118363 original size:3 final size:3
Alignment explanation
Indices: 4118347--4118407 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
4118337 TGTAATTTTA
* * * *
4118347 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4118394 AAT AAT TAT AAT AA
1 AAT AAT AAT AAT AA
4118408 CATAAAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:4119464 original size:19 final size:18
Alignment explanation
Indices: 4119437--4119472 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4119427 AGGTGACGAG
4119437 TTTTGTTAAAATAATATTA
1 TTTTGTTAAAAT-ATATTA
*
4119456 TTTTTTTAAAATATATT
1 TTTTGTTAAAATATATT
4119473 GTCGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTGTTAAAATATATTA
Found at i:4120750 original size:142 final size:143
Alignment explanation
Indices: 4120494--4120906 Score: 573
Period size: 142 Copynumber: 2.9 Consensus size: 143
4120484 TGAAATGCCA
* * * *
4120494 TCTCATAGGCAAAATAATGTAGCATGGCATAAAATTTTCAGTGTCAAATTAATCATCTTCAACAA
1 TCTCATAGGCAAAATAATGCAGCATGGCATAAACTTTTCAGTGTCCAATTAATCATCTTCAGCAA
*
4120559 -TTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCACTGGTGATATATCACTTCATATCAG
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
4120623 AAAAATGTGCATT
131 AAAAATGTGCATT
* * * * * * *
4120636 TCTCATAGGCAAAATAAAGCAACATGGTAGATACTTTTTAGTGCCCAATTAATCATCTTCAGCAA
1 TCTCATAGGCAAAATAATGCAGCATGGCATAAACTTTTCAGTGTCCAATTAATCATCTTCAGCAA
* * * *
4120701 CTTTTCATTGATATATCAACTCATTTCA-AAAACTTTTCAGTTGTGATATATCATTTCATAT-AA
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
4120764 AAAAATGTGCATT
131 AAAAATGTGCATT
* ** * * *
4120777 TCTCATATGCAAAATAATGCAGCATAACATAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAA
1 TCTCATAGGCAAAATAATGCAGCATGGCATAAACTTTTCAGTGTCCAATTAATCATCTTCAGCAA
* *
4120842 CTTTTCAGTGATATATCAACTCATTTTAGAAAA-TATTTCAGTGGTGATATATCACTTCATTTCA
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACT-TTTCAGTGGTGATATATCACTTCATATCA
4120906 G
130 G
4120907 TGGTGACATT
Statistics
Matches: 232, Mismatches: 35, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
141 93 0.40
142 112 0.48
143 27 0.12
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (143 bp):
TCTCATAGGCAAAATAATGCAGCATGGCATAAACTTTTCAGTGTCCAATTAATCATCTTCAGCAA
CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
AAAAATGTGCATT
Found at i:4121409 original size:143 final size:144
Alignment explanation
Indices: 4121216--4121679 Score: 652
Period size: 143 Copynumber: 3.3 Consensus size: 144
4121206 TGAAATGTCA
* * *
4121216 TCTCATAGGCAAAATAATGTAGCATGGCAGAAAATTTTCAGTGCCAAATTAATCATCTTCAACAA
1 TCTCATAGGCAAAATAATGCAGCATGGCAGAAACTTTTCAGTGCCCAATTAATCATCTTCAACAA
* *
4121281 -TTTTTAGTGATATATCAACTCATTTCAGAAAACTTTTCACTGGTGATATATCACTTCATATCAG
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
*
4121345 AAAAAATGTGCATT
131 AAAAAATGTACATT
* * *
4121359 TCTCATAGGCAAAATAATGCAGCATGGTAGATACTTTTCAATGCCCAATTAATCATCTTCAACAA
1 TCTCATAGGCAAAATAATGCAGCATGGCAGAAACTTTTCAGTGCCCAATTAATCATCTTCAACAA
* *
4121424 CTTTTCATTGATATATCAACTCATTTCA-AAAACTTTTCAGTTGTGATATATCACTTCATAT---
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
4121485 AAAAAATGTACATT
131 AAAAAATGTACATT
* * ** * **
4121499 TCTCATATGCAAAATAATGCAGCATAGCAGAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAA
1 TCTCATAGGCAAAATAATGCAGCATGGCAGAAACTTTTCAGTGCCCAATTAATCATCTTCAACAA
* *
4121564 CTTTTCAGTGATATATCAACTCATTTTAGAAAACATTTCAGTGGTGATATATCACTTCATATCAG
66 CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
*
4121629 -AAAAGTGTACATT
131 AAAAAATGTACATT
* ** * *
4121642 TCTCACAGATAAAATAATGCATCATGACAGAAACTTTT
1 TCTCATAGGCAAAATAATGCAGCATGGCAGAAACTTTT
4121680 GAGTTCACAA
Statistics
Matches: 283, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
140 94 0.33
141 31 0.11
143 133 0.47
144 25 0.09
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (144 bp):
TCTCATAGGCAAAATAATGCAGCATGGCAGAAACTTTTCAGTGCCCAATTAATCATCTTCAACAA
CTTTTCAGTGATATATCAACTCATTTCAGAAAACTTTTCAGTGGTGATATATCACTTCATATCAG
AAAAAATGTACATT
Found at i:4121452 original size:32 final size:35
Alignment explanation
Indices: 4121411--4121476 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 35
4121401 GCCCAATTAA
*
4121411 TCATCTTCAACAACTTTTCA-T-TGATATATCAAC
1 TCATCTTCAAAAACTTTTCAGTGTGATATATCAAC
4121444 TCAT-TTCAAAAACTTTTCAGTTGTGATATATCA
1 TCATCTTCAAAAACTTTTCAG-TGTGATATATCA
4121477 CTTCATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 14 0.48
33 4 0.14
34 1 0.03
35 10 0.34
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (35 bp):
TCATCTTCAAAAACTTTTCAGTGTGATATATCAAC
Found at i:4121579 original size:722 final size:722
Alignment explanation
Indices: 4120194--4121628 Score: 2620
Period size: 722 Copynumber: 2.0 Consensus size: 722
4120184 ATATTGATAA
4120194 TGCATGTGTTTGATTTTTGTTCATTACGTGATGTGATATATCTACAGGGAACATCATGTTTACGG
1 TGCATGTGTTTGATTTTTGTTCATTACGTGATGTGATATATCTACAGGGAACATCATGTTTACGG
*
4120259 GCCTCTTTTACATAAACACAACACTATCATCAGTTTGAATAACTTGGCCATTTGAGTGGTCGACT
66 GCCTCTTTTACATAAACACAACACTATCATCAGTTTGAATAACTTGACCATTTGAGTGGTCGACT
* * *
4120324 GTGAAAATTTTATTAGTCATAGCTTGAGAAAGGTTTTTGGTTATTCAATGTAGTTGTACAAAGTA
131 GTGAAAATTTTATTAGCCATAGCTTGAGAAAGGTTTTTGGTTATTCAATGCAGATGTACAAAGTA
* *
4120389 GAATTTTAGTGAAGATTTATATGAAGTAAATCAATTTAAAAGAAAAATGAGTTATCATTAATAAC
196 GAATTTTAGTGAAGATTTACATGAAGTAAATCAATTTAAAAGAAAAACGAGTTATCATTAATAAC
4120454 CATTCAGTTCGGTGATGAAAAGGTTTTCAGTGAAATGCCATCTCATAGGCAAAATAATGTAGCAT
261 CATTCAGTTCGGTGATGAAAAGGTTTTCAGTGAAATGCCATCTCATAGGCAAAATAATGTAGCAT
* *
4120519 GGCATAAAATTTTCAGTGTCAAATTAATCATCTTCAACAATTTTCAGTGATATATCAACTCATTT
326 GGCAGAAAATTTTCAGTGCCAAATTAATCATCTTCAACAATTTTCAGTGATATATCAACTCATTT
4120584 CAGAAAACTTTTCACTGGTGATATATCACTTCATATCAGAAAAATGTGCATTTCTCATAGGCAAA
391 CAGAAAACTTTTCACTGGTGATATATCACTTCATATCAGAAAAATGTGCATTTCTCATAGGCAAA
* * *
4120649 ATAAAGCAACATGGTAGATACTTTTTAGTGCCCAATTAATCATCTTCAGCAACTTTTCATTGATA
456 ATAAAGCAACATGGTAGATACTTTTCAATGCCCAATTAATCATCTTCAACAACTTTTCATTGATA
* *
4120714 TATCAACTCATTTCAAAAACTTTTCAGTTGTGATATATCATTTCATATAAAAAAATGTGCATTTC
521 TATCAACTCATTTCAAAAACTTTTCAGTTGTGATATATCACTTCATATAAAAAAATGTACATTTC
*
4120779 TCATATGCAAAATAATGCAGCATAACATAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAACT
586 TCATATGCAAAATAATGCAGCATAACAGAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAACT
* *
4120844 TTTCAGTGATATATCAACTCATTTTAGAAAATATTTCAGTGGTGATATATCACTTCATTTCAGTG
651 TTTCAGTGATATATCAACTCATTTTAGAAAACATTTCAGTGGTGATATATCACTTCATATCAGTG
4120909 GTGACAT
716 GTGACAT
* *
4120916 TGCATGTGTTTGATTTTTGTTCATTACGTGATGTGATATATCTACAGGGAGCATCATGTTTAGGG
1 TGCATGTGTTTGATTTTTGTTCATTACGTGATGTGATATATCTACAGGGAACATCATGTTTACGG
4120981 GCCTCTTTTACATAAACACAACACTATCATCAGTTTGAATAACTTGACCATTTGAGTGGTCGACT
66 GCCTCTTTTACATAAACACAACACTATCATCAGTTTGAATAACTTGACCATTTGAGTGGTCGACT
* *
4121046 GTGAAAATTTTATTAGCCATAGCTTGAGAAAGGTTTTTGGTTGTTCAATGCAGATGTGCAAAGTA
131 GTGAAAATTTTATTAGCCATAGCTTGAGAAAGGTTTTTGGTTATTCAATGCAGATGTACAAAGTA
4121111 GAATTTTAGTGAAGATTTACATGAAGTAAATCAATTTAAAAGAAAAACGAGTTATCATTAATAAC
196 GAATTTTAGTGAAGATTTACATGAAGTAAATCAATTTAAAAGAAAAACGAGTTATCATTAATAAC
* *
4121176 CATTTAGTTCGGTGATGAAAAGGTTTTCAGTGAAATGTCATCTCATAGGCAAAATAATGTAGCAT
261 CATTCAGTTCGGTGATGAAAAGGTTTTCAGTGAAATGCCATCTCATAGGCAAAATAATGTAGCAT
*
4121241 GGCAGAAAATTTTCAGTGCCAAATTAATCATCTTCAACAATTTTTAGTGATATATCAACTCATTT
326 GGCAGAAAATTTTCAGTGCCAAATTAATCATCTTCAACAATTTTCAGTGATATATCAACTCATTT
4121306 CAGAAAACTTTTCACTGGTGATATATCACTTCATATCAGAAAAAATGTGCATTTCTCATAGGCAA
391 CAGAAAACTTTTCACTGGTGATATATCACTTCATATCAG-AAAAATGTGCATTTCTCATAGGCAA
* *
4121371 AATAATGCAGCATGGTAGATACTTTTCAATGCCCAATTAATCATCTTCAACAACTTTTCATTGAT
455 AATAAAGCAACATGGTAGATACTTTTCAATGCCCAATTAATCATCTTCAACAACTTTTCATTGAT
4121436 ATATCAACTCATTTCAAAAACTTTTCAGTTGTGATATATCACTTCATAT-AAAAAATGTACATTT
520 ATATCAACTCATTTCAAAAACTTTTCAGTTGTGATATATCACTTCATATAAAAAAATGTACATTT
*
4121500 CTCATATGCAAAATAATGCAGCATAGCAGAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAAC
585 CTCATATGCAAAATAATGCAGCATAACAGAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAAC
4121565 TTTTCAGTGATATATCAACTCATTTTAGAAAACATTTCAGTGGTGATATATCACTTCATATCAG
650 TTTTCAGTGATATATCAACTCATTTTAGAAAACATTTCAGTGGTGATATATCACTTCATATCAG
4121629 AAAAGTGTAC
Statistics
Matches: 686, Mismatches: 26, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
722 553 0.81
723 133 0.19
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (722 bp):
TGCATGTGTTTGATTTTTGTTCATTACGTGATGTGATATATCTACAGGGAACATCATGTTTACGG
GCCTCTTTTACATAAACACAACACTATCATCAGTTTGAATAACTTGACCATTTGAGTGGTCGACT
GTGAAAATTTTATTAGCCATAGCTTGAGAAAGGTTTTTGGTTATTCAATGCAGATGTACAAAGTA
GAATTTTAGTGAAGATTTACATGAAGTAAATCAATTTAAAAGAAAAACGAGTTATCATTAATAAC
CATTCAGTTCGGTGATGAAAAGGTTTTCAGTGAAATGCCATCTCATAGGCAAAATAATGTAGCAT
GGCAGAAAATTTTCAGTGCCAAATTAATCATCTTCAACAATTTTCAGTGATATATCAACTCATTT
CAGAAAACTTTTCACTGGTGATATATCACTTCATATCAGAAAAATGTGCATTTCTCATAGGCAAA
ATAAAGCAACATGGTAGATACTTTTCAATGCCCAATTAATCATCTTCAACAACTTTTCATTGATA
TATCAACTCATTTCAAAAACTTTTCAGTTGTGATATATCACTTCATATAAAAAAATGTACATTTC
TCATATGCAAAATAATGCAGCATAACAGAAACTTTTCAGTTTCCAATTAATTATCTTCAGGAACT
TTTCAGTGATATATCAACTCATTTTAGAAAACATTTCAGTGGTGATATATCACTTCATATCAGTG
GTGACAT
Found at i:4133935 original size:8 final size:8
Alignment explanation
Indices: 4133922--4133961 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
4133912 AACAAATTAT
4133922 TTTTCTTC
1 TTTTCTTC
4133930 TTTTCTTC
1 TTTTCTTC
4133938 TTTTCTTC
1 TTTTCTTC
*
4133946 TCTTC-TC
1 TTTTCTTC
*
4133953 TTCTCTTC
1 TTTTCTTC
4133961 T
1 T
4133962 CGGTCTTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTCTTC
Found at i:4135022 original size:23 final size:24
Alignment explanation
Indices: 4134996--4135045 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
4134986 AACAATCGAG
*
4134996 AAAGAAAACAA-AAAA-TGTGTCAC
1 AAAGAAAA-AAGAAAAGTGTGCCAC
4135019 AAAGAAAAAAGAAAAGTGTGCCAC
1 AAAGAAAAAAGAAAAGTGTGCCAC
4135043 AAA
1 AAA
4135046 TGGGTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 2 0.08
23 12 0.50
24 10 0.42
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (24 bp):
AAAGAAAAAAGAAAAGTGTGCCAC
Found at i:4135033 original size:24 final size:23
Alignment explanation
Indices: 4134996--4135045 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
4134986 AACAATCGAG
* *
4134996 AAAGAAAACAAAAAATGTGTCAC
1 AAAGAAAAAAAAAAATGTGCCAC
*
4135019 AAAGAAAAAAGAAAAGTGTGCCAC
1 AAAGAAAAAA-AAAAATGTGCCAC
4135043 AAA
1 AAA
4135046 TGGGTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (23 bp):
AAAGAAAAAAAAAAATGTGCCAC
Found at i:4145695 original size:21 final size:21
Alignment explanation
Indices: 4145671--4145720 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
4145661 ATCTTGTCGT
4145671 AATAAATTAATTGATAAATAA
1 AATAAATTAATTGATAAATAA
* * *
4145692 AATAATTTTATTTATAAATAA
1 AATAAATTAATTGATAAATAA
4145713 AAGTAAAT
1 AA-TAAAT
4145721 AGTTTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
AATAAATTAATTGATAAATAA
Found at i:4146684 original size:20 final size:20
Alignment explanation
Indices: 4146656--4146693 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4146646 ATCTATATTA
*
4146656 TTTACATATTTTTTATTTTAT
1 TTTACATA-TATTTATTTTAT
4146677 TTTA-ATATATTTATTTT
1 TTTACATATATTTATTTT
4146694 CCGCCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 9 0.56
20 3 0.19
21 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTACATATATTTATTTTAT
Found at i:4146964 original size:21 final size:22
Alignment explanation
Indices: 4146926--4146979 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
4146916 TAATAACATA
* *
4146926 ATTTAAAAATATTTTATTTTTT
1 ATTTAAAAATATTATATTTTAT
*
4146948 ATTTAAAAGTA-TATATTTTAT
1 ATTTAAAAATATTATATTTTAT
4146969 A-TT-AAAATATT
1 ATTTAAAAATATT
4146980 GTAGGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 9 0.33
22 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAAAAATATTATATTTTAT
Found at i:4147031 original size:28 final size:28
Alignment explanation
Indices: 4146995--4147097 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 28
4146985 TTAAGATAAG
*
4146995 AATAA-AATATATTTAATAATTTAAAATAAT
1 AATAATAATATATTTAATAAATT--AA-AAT
*
4147025 AATAATATAATATATTTAATAAATTAAGAT
1 AAT-A-ATAATATATTTAATAAATTAAAAT
* *
4147055 AAAAAT-ATATACTTTGAA-AAGTTAAAAT
1 AATAATAATATA-TTT-AATAAATTAAAAT
*
4147083 AATAATAAAATATTT
1 AATAATAATATATTT
4147098 GTAAAAGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
27 5 0.08
28 21 0.35
29 7 0.12
30 7 0.12
31 3 0.05
32 1 0.02
33 16 0.27
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
AATAATAATATATTTAATAAATTAAAAT
Found at i:4147035 original size:24 final size:25
Alignment explanation
Indices: 4146995--4147043 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4146985 TTAAGATAAG
*
4146995 AATAAAATATATTTAATA-ATTTAA
1 AATAAAATATATATAATATATTTAA
4147019 AATAATAATA-ATATAATATATTTAA
1 AATAA-AATATATATAATATATTTAA
4147044 TAAATTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATAAAATATATATAATATATTTAA
Found at i:4147038 original size:33 final size:33
Alignment explanation
Indices: 4146990--4147065 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
4146980 GTAGGTTAAG
* * *
4146990 ATAAGAATAAAATATATTTAATAATTTAAAATA
1 ATAATAATATAATATATTTAATAAATTAAAATA
*
4147023 ATAATAATATAATATATTTAATAAATTAAGATA
1 ATAATAATATAATATATTTAATAAATTAAAATA
*
4147056 AAAAT-ATATA
1 ATAATAATATA
4147066 CTTTGAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 5 0.13
33 33 0.87
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
ATAATAATATAATATATTTAATAAATTAAAATA
Found at i:4147113 original size:29 final size:29
Alignment explanation
Indices: 4146984--4147124 Score: 101
Period size: 29 Copynumber: 4.7 Consensus size: 29
4146974 AATATTGTAG
*
4146984 GTTAAGATAAGAATAAAATATATT-TAATAA
1 GTTAAGATAAAAATAAAATAT-TTGTAA-AA
* * *
4147014 TTTAAAATAATAATAATATAATATATT-TAATAA
1 GTTAAGAT-A-AA-AATAAAATAT-TTGTAA-AA
* *
4147047 ATTAAGATAAAAAT-ATATACTTTG-AAAA
1 GTTAAGATAAAAATAAAATA-TTTGTAAAA
* *
4147075 GTTAAAATAATAATAAAATATTTGTAAAA
1 GTTAAGATAAAAATAAAATATTTGTAAAA
*
4147104 GTTTAGATAAAAATAAAATAT
1 GTTAAGATAAAAATAAAATAT
4147125 ATATTTTTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
28 17 0.19
29 33 0.37
30 10 0.11
31 3 0.03
32 2 0.02
33 24 0.27
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (29 bp):
GTTAAGATAAAAATAAAATATTTGTAAAA
Found at i:4147311 original size:21 final size:21
Alignment explanation
Indices: 4147278--4147338 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
4147268 TCCTAAATTA
*
4147278 TAAACCCTAAAATATAACCCC
1 TAAACCCTAAACTATAACCCC
* *
4147299 -ATAACCTCTAAATTATAAACCC
1 TA-AACC-CTAAACTATAACCCC
4147321 TAAACCCTAAACTATAAC
1 TAAACCCTAAACTATAAC
4147339 TTAAGGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.42
22 17 0.52
23 1 0.03
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTATAACCCC
Found at i:4147540 original size:25 final size:24
Alignment explanation
Indices: 4147490--4147546 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4147480 TAAATTAATA
**
4147490 ATAAAATATATTTAATAAGTTGAT
1 ATAAAATATATTTAATAAGTAAAT
**
4147514 ATAAAATATATTTCTTAAAGTAAAT
1 ATAAAATATATTTAAT-AAGTAAAT
4147539 ATATAAAT
1 ATA-AAAT
4147547 TAAGTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 14 0.52
25 9 0.33
26 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (24 bp):
ATAAAATATATTTAATAAGTAAAT
Found at i:4147986 original size:2 final size:2
Alignment explanation
Indices: 4147979--4148062 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
4147969 CCGACTTTAA
4147979 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
4148021 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
4148063 TATTTTCATC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4151017 original size:72 final size:72
Alignment explanation
Indices: 4150940--4151073 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
4150930 ATGCTATTTA
* *
4150940 ATACTTATATGAAACTTTA-ACTTCAAAATAA-TATCGCAATAACAAATATCAAAATTTATGTTA
1 ATACTTATATGAAACTTTAGA-TTCAAAATAACT-TCGAAATAACAAATATCAAAACTTATGTTA
4151003 TGATGTTCG
64 TGATGTTCG
* * * *
4151012 ATACTTGTATTAAACTTTAGATTCAAGATAACTTTGAAATAACAAATATCAAAACTTATGTT
1 ATACTTATATGAAACTTTAGATTCAAAATAACTTCGAAATAACAAATATCAAAACTTATGTT
4151074 TGTTCGATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
72 52 0.96
73 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (72 bp):
ATACTTATATGAAACTTTAGATTCAAAATAACTTCGAAATAACAAATATCAAAACTTATGTTATG
ATGTTCG
Found at i:4154724 original size:30 final size:30
Alignment explanation
Indices: 4154690--4154747 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4154680 GCATTCATAA
* *
4154690 CTAGCTTATCATATG-ATTATTCATCTTATC
1 CTAGCTCATCATATGTA-TATACATCTTATC
4154720 CTAGCTCATCATATGTATATACATCTTA
1 CTAGCTCATCATATGTATATACATCTTA
4154748 GTTTAGCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (30 bp):
CTAGCTCATCATATGTATATACATCTTATC
Found at i:4158849 original size:18 final size:19
Alignment explanation
Indices: 4158828--4158883 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
4158818 GCCAAATCCG
4158828 ATATCGATACTCAAG-AAA
1 ATATCGATACTCAAGCAAA
* *
4158846 ATATTGATACTAAAGGCCAAA
1 ATATCGATACTCAA-G-CAAA
4158867 AGTATCGATACTCAAGC
1 A-TATCGATACTCAAGC
4158884 TAGAGTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
20 1 0.03
21 5 0.17
22 11 0.37
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (19 bp):
ATATCGATACTCAAGCAAA
Found at i:4158955 original size:20 final size:20
Alignment explanation
Indices: 4158930--4159005 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
4158920 AATAAGTTAG
4158930 TAGTATCAATACCC-GAAGGT
1 TAGTATCAATACCCAG-AGGT
4158950 TAGTATCAATACCCAGAGGT
1 TAGTATCAATACCCAGAGGT
* * ** *
4158970 CAGTACCAATACTAAGGGGCT
1 TAGTATCAATACCCAGAGG-T
*
4158991 TAGTATCAGTACCCA
1 TAGTATCAATACCCA
4159006 CAATCAATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 32 0.73
21 12 0.27
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
TAGTATCAATACCCAGAGGT
Found at i:4159177 original size:13 final size:13
Alignment explanation
Indices: 4159159--4159183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4159149 TAAAACTAGC
4159159 CTTGTTTTATGCT
1 CTTGTTTTATGCT
4159172 CTTGTTTTATGC
1 CTTGTTTTATGC
4159184 CCGTGACACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (13 bp):
CTTGTTTTATGCT
Found at i:4160115 original size:25 final size:25
Alignment explanation
Indices: 4160081--4160133 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
4160071 ATTTTAGAGA
4160081 AAACCTATGGTGGATGATCCAACTT
1 AAACCTATGGTGGATGATCCAACTT
4160106 AAACCTATGGTGGATGATCCAACTT
1 AAACCTATGGTGGATGATCCAACTT
4160131 AAA
1 AAA
4160134 ATCAGGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (25 bp):
AAACCTATGGTGGATGATCCAACTT
Found at i:4165781 original size:20 final size:21
Alignment explanation
Indices: 4165751--4165797 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
4165741 GTATCGATAA
*
4165751 TGTAGGTAAGGCATTGATAGT
1 TGTAGGTAAGGCATTGATACT
4165772 TGTAGG-AAGGCATTGATACT
1 TGTAGGTAAGGCATTGATACT
4165792 TGTAGG
1 TGTAGG
4165798 GTGGTATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.32
Consensus pattern (21 bp):
TGTAGGTAAGGCATTGATACT
Found at i:4165881 original size:32 final size:32
Alignment explanation
Indices: 4165845--4165906 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4165835 AGCCAATTTT
*
4165845 GGTATCAATACTCATAGT-GGTATCGATACTTA
1 GGTATCAA-ACTCAAAGTGGGTATCGATACTTA
* *
4165877 GGTATCAAAGTCAAATTGGGTATCGATACT
1 GGTATCAAACTCAAAGTGGGTATCGATACT
4165907 CATGAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (32 bp):
GGTATCAAACTCAAAGTGGGTATCGATACTTA
Found at i:4166893 original size:42 final size:42
Alignment explanation
Indices: 4166840--4166935 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
4166830 TATATCATCT
* * *
4166840 ACCCGATTCGACATAGATATGATTTTTTGAAATATAATCTGA
1 ACCCGACTCGACATAGATATGATTTTTTGAAATAAAATCCGA
*
4166882 ATCCGACTCGACATAGATATGATTTTTTGAAATAAAATCCGA
1 ACCCGACTCGACATAGATATGATTTTTTGAAATAAAATCCGA
4166924 ACCCGACTCGAC
1 ACCCGACTCGAC
4166936 TCGACTCGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
ACCCGACTCGACATAGATATGATTTTTTGAAATAAAATCCGA
Found at i:4168102 original size:18 final size:18
Alignment explanation
Indices: 4168079--4168131 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
4168069 CCCTCAAAAT
4168079 TAATACAAGTGTCACTCC
1 TAATACAAGTGTCACTCC
*
4168097 TAATACAAGTGTCACCCC
1 TAATACAAGTGTCACTCC
*
4168115 TCA-A-AAGTGTCACTCC
1 TAATACAAGTGTCACTCC
4168131 T
1 T
4168132 GGACTCTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 12 0.38
17 1 0.03
18 19 0.59
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.26
Consensus pattern (18 bp):
TAATACAAGTGTCACTCC
Found at i:4173860 original size:3 final size:3
Alignment explanation
Indices: 4173852--4173876 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4173842 GAATTGGGTT
4173852 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
4173877 ACTACTAATC
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:4175126 original size:29 final size:30
Alignment explanation
Indices: 4175081--4175146 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
4175071 ATTTATATGA
* **
4175081 TTTT-TTATTTTTGTTTTTTTTTTACTTTC
1 TTTTGTTATTTTTCTTTTTCATTTACTTTC
* *
4175110 TTTTGTTA-TTTTCTTTTTCATTTCCTTTT
1 TTTTGTTATTTTTCTTTTTCATTTACTTTC
4175139 TTTTGTTA
1 TTTTGTTA
4175147 CATTATTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.08, C:0.09, G:0.05, T:0.79
Consensus pattern (30 bp):
TTTTGTTATTTTTCTTTTTCATTTACTTTC
Found at i:4175247 original size:15 final size:17
Alignment explanation
Indices: 4175227--4175258 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4175217 CATAATATAA
4175227 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
4175242 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
4175259 AAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:4176146 original size:29 final size:30
Alignment explanation
Indices: 4176090--4176146 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
4176080 TATTAATTAA
* ** *
4176090 TTAATTTTTAAATAAATATAGTATTATAAT
1 TTAATTATTAAATAAATATAAAAATATAAT
4176120 TTAATTATTAAA-AAATATAAAAATATA
1 TTAATTATTAAATAAATATAAAAATATA
4176147 TTAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAATTATTAAATAAATATAAAAATATAAT
Found at i:4177322 original size:23 final size:23
Alignment explanation
Indices: 4177296--4177344 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
4177286 AAAAAGAATG
4177296 TGATAAAAATTTAA-AAAA-TAAAA
1 TGAT-AAAA-TTAATAAAATTAAAA
*
4177319 TGATTAAATTAATAAAATTAAAA
1 TGATAAAATTAATAAAATTAAAA
4177342 TGA
1 TGA
4177345 AACACATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (23 bp):
TGATAAAATTAATAAAATTAAAA
Found at i:4177326 original size:24 final size:23
Alignment explanation
Indices: 4177274--4177335 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 23
4177264 AATAAATGAA
**
4177274 GATTAAAAATAAAAAAAGAATGT
1 GATTAAAAATAAAAAAAGAAAAT
* *
4177297 GA-TAAAAATTTAAAAAATAAAAT
1 GATTAAAAA-TAAAAAAAGAAAAT
4177320 GATTAAATTAATAAAA
1 GATTAAA--AATAAAA
4177336 TTAAAATGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 4 0.13
25 4 0.13
26 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (23 bp):
GATTAAAAATAAAAAAAGAAAAT
Found at i:4179007 original size:267 final size:267
Alignment explanation
Indices: 4178525--4179066 Score: 1066
Period size: 267 Copynumber: 2.0 Consensus size: 267
4178515 AAACTTGAAC
* *
4178525 AAATATATAAAAATGAAAATTCGTAGTCCAGAAAACATTCAAAGGCAAAAGCACAGCAACAACAG
1 AAATATTTAAAAATGAAAATTCGTAGTCCAGAAAACATTCAAAGGAAAAAGCACAGCAACAACAG
4178590 AACAGATGAGGGCTCTATGTATGTCACCTTCAACGTTATCAAAAGGGTTATTCACTTGTTCTTTT
66 AACAGATGAGGGCTCTATGTATGTCACCTTCAACGTTATCAAAAGGGTTATTCACTTGTTCTTTT
4178655 TCAGACAATCATAACACTGCTTCAGAGTAATTGAAATGATTATGAAACGATAACTTTTGCTTCAG
131 TCAGACAATCATAACACTGCTTCAGAGTAATTGAAATGATTATGAAACGATAACTTTTGCTTCAG
4178720 CTTGAACATGTTATTATTGTGTTCATGATGCATCTTGTGGATATTATTAAGATGAAAAACCACAA
196 CTTGAACATGTTATTATTGTGTTCATGATGCATCTTGTGGATATTATTAAGATGAAAAACCACAA
4178785 TTCTCGA
261 TTCTCGA
4178792 AAATATTTAAAAATGAAAATTCGTAGTCCAGAAAACATTCAAAGGAAAAAGCACAGCAACAACAG
1 AAATATTTAAAAATGAAAATTCGTAGTCCAGAAAACATTCAAAGGAAAAAGCACAGCAACAACAG
4178857 AACAGATGAGGGCTCTATGTATGTCACCTTCAACGTTATCAAAAGGGTTATTCACTTGTTCTTTT
66 AACAGATGAGGGCTCTATGTATGTCACCTTCAACGTTATCAAAAGGGTTATTCACTTGTTCTTTT
4178922 TCAGACAATCATAACACTGCTTCAGAGTAATTGAAATGATTATGAAACGATAACTTTTGCTTCAG
131 TCAGACAATCATAACACTGCTTCAGAGTAATTGAAATGATTATGAAACGATAACTTTTGCTTCAG
4178987 CTTGAACATGTTATTATTGTGTTCATGATGCATCTTGTGGATATTATTAAGATGAAAAACCACAA
196 CTTGAACATGTTATTATTGTGTTCATGATGCATCTTGTGGATATTATTAAGATGAAAAACCACAA
4179052 TTCTCGA
261 TTCTCGA
4179059 AAATATTT
1 AAATATTT
4179067 TGCATGCAAA
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
267 273 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (267 bp):
AAATATTTAAAAATGAAAATTCGTAGTCCAGAAAACATTCAAAGGAAAAAGCACAGCAACAACAG
AACAGATGAGGGCTCTATGTATGTCACCTTCAACGTTATCAAAAGGGTTATTCACTTGTTCTTTT
TCAGACAATCATAACACTGCTTCAGAGTAATTGAAATGATTATGAAACGATAACTTTTGCTTCAG
CTTGAACATGTTATTATTGTGTTCATGATGCATCTTGTGGATATTATTAAGATGAAAAACCACAA
TTCTCGA
Found at i:4179551 original size:2 final size:2
Alignment explanation
Indices: 4179544--4179570 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4179534 AATTCATTGC
4179544 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 A
4179571 ATTCAAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4183998 original size:71 final size:71
Alignment explanation
Indices: 4183882--4184082 Score: 402
Period size: 71 Copynumber: 2.8 Consensus size: 71
4183872 ACAGATCAGA
4183882 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAACATTAT
1 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAACATTAT
4183947 TTCAAT
66 TTCAAT
4183953 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAACATTAT
1 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAACATTAT
4184018 TTCAAT
66 TTCAAT
4184024 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAA
1 TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAA
4184083 TGAATGAAGT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 130 1.00
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (71 bp):
TTGAGCTTTGAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAACATTAT
TTCAAT
Found at i:4191063 original size:15 final size:15
Alignment explanation
Indices: 4191045--4191084 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4191035 TGACGAGGAA
4191045 GAGGGAGAAGAAAGC
1 GAGGGAGAAGAAAGC
* *
4191060 GAGGGAGATGAAAGT
1 GAGGGAGAAGAAAGC
*
4191075 GAAGGAGAAG
1 GAGGGAGAAG
4191085 GAGAGGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.47, T:0.05
Consensus pattern (15 bp):
GAGGGAGAAGAAAGC
Found at i:4194642 original size:31 final size:31
Alignment explanation
Indices: 4194607--4194666 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4194597 ACACAAATGC
*
4194607 ATGATATCACATAAATCTCATAATCCGATAT
1 ATGATATCACATAAATCCCATAATCCGATAT
*
4194638 ATGATATCACATATATCCCATAATCCGAT
1 ATGATATCACATAAATCCCATAATCCGAT
4194667 CTATATCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (31 bp):
ATGATATCACATAAATCCCATAATCCGATAT
Found at i:4195526 original size:19 final size:19
Alignment explanation
Indices: 4195498--4195543 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
4195488 ATTATTTAGG
* *
4195498 AATGTACGACATTCGTTAT
1 AATGTCCGACATTCGTTAC
4195517 AATGTCCGACATTCGTTAC
1 AATGTCCGACATTCGTTAC
4195536 AATGTCCG
1 AATGTCCG
4195544 GCGAACTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (19 bp):
AATGTCCGACATTCGTTAC
Found at i:4196599 original size:3 final size:3
Alignment explanation
Indices: 4196591--4196623 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4196581 ATACTTCAAT
4196591 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4196624 CTGGTTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4204782 original size:57 final size:56
Alignment explanation
Indices: 4204697--4204869 Score: 305
Period size: 57 Copynumber: 3.1 Consensus size: 56
4204687 AGGCGGCGGT
*
4204697 GGAGGAGGAGGTACAGTTG--CAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
1 GGAGGAGGAGGTACAGCTGCACAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
4204751 GGAGGAGGAGGTACAGCTGCAACAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
1 GGAGGAGGAGGTACAGCTGC-ACAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
4204808 GGAGGAGGAGGTACAGCTGCAGCAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
1 GGAGGAGGAGGTACAGCTGCA-CAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
4204865 GGAGG
1 GGAGG
4204870 TGGGGGCGGT
Statistics
Matches: 114, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
54 18 0.16
56 1 0.01
57 95 0.83
ACGTcount: A:0.21, C:0.16, G:0.39, T:0.23
Consensus pattern (56 bp):
GGAGGAGGAGGTACAGCTGCACAGGTGCAAGTTGTTTGACTGTTGCCACTGGTGCA
Found at i:4206114 original size:29 final size:29
Alignment explanation
Indices: 4206081--4206157 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
4206071 CGGTGATCGA
* * *
4206081 TATATTTAATGATCTAATATCGATTAGAT
1 TATATTTATTGATCTAACATCGATCAGAT
*
4206110 TATATTTCTTGATCTAACATCGATCAGAT
1 TATATTTATTGATCTAACATCGATCAGAT
*
4206139 TATATTTTTTGATCTAACA
1 TATATTTATTGATCTAACA
4206158 CTTATAGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (29 bp):
TATATTTATTGATCTAACATCGATCAGAT
Found at i:4206773 original size:110 final size:111
Alignment explanation
Indices: 4206571--4206902 Score: 585
Period size: 110 Copynumber: 3.0 Consensus size: 111
4206561 TGGAAATCAT
* *
4206571 ATATCTCTACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
4206636 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
4206682 ATATCTCGACATTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAA-TTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
4206746 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
4206792 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
4206857 TAATTAGTTGATTTATTTAATGCATAATTATTAAATTAATAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
4206903 TTTTTGTAAT
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
110 107 0.51
111 104 0.49
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:4208513 original size:31 final size:31
Alignment explanation
Indices: 4208437--4208500 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4208427 AGTTATGTCG
** *
4208437 GGGACCATATTGCAAATGGACTGAATGTTGA
1 GGGACCATATTGCAAACAGACTAAATGTTGA
4208468 GGGACCATATTGCAAACAGACTAAATGTT-A
1 GGGACCATATTGCAAACAGACTAAATGTTGA
4208498 GGG
1 GGG
4208501 GATTATATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGCAAACAGACTAAATGTTGA
Found at i:4217677 original size:17 final size:17
Alignment explanation
Indices: 4217651--4217683 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
4217641 TTTTATTTTT
4217651 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
4217669 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
4217684 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:4217685 original size:17 final size:19
Alignment explanation
Indices: 4217644--4217685 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
4217634 ATTAATATTT
*
4217644 TATTTTTAATTTATTTAAG
1 TATTTTAAATTTATTTAAG
4217663 TA-TTTAAATTT-TTTAA-
1 TATTTTAAATTTATTTAAG
4217679 TATTTTA
1 TATTTTA
4217686 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 8 0.38
19 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATTTATTTAAG
Found at i:4219763 original size:3 final size:3
Alignment explanation
Indices: 4219749--4219779 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4219739 GTAGCTCCTC
*
4219749 ACG ACG ATG ACG ACG ACG ACG ACG ACG ACG A
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG A
4219780 TGATGATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (3 bp):
ACG
Found at i:4220037 original size:34 final size:33
Alignment explanation
Indices: 4219970--4220057 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
4219960 TAATACCTAC
**
4219970 TTTATTTCATTAATTTTGTTGGATTTATTTTAA
1 TTTATTTTGTTAATTTTGTTGGATTTATTTTAA
*
4220003 TTTATTTTGTTAAATTTGTTGGACTTT-TTGTTAA
1 TTTATTTTGTTAATTTTGTTGGA-TTTATT-TTAA
*
4220037 TGTATTTTGGTTAATTTTGTT
1 TTTATTTT-GTTAATTTTGTT
4220058 TATTACCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 14 0.30
35 11 0.23
ACGTcount: A:0.20, C:0.02, G:0.14, T:0.64
Consensus pattern (33 bp):
TTTATTTTGTTAATTTTGTTGGATTTATTTTAA
Found at i:4229227 original size:15 final size:15
Alignment explanation
Indices: 4229207--4229241 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4229197 TTTTTGGATA
*
4229207 TATTATCGGGAATAT
1 TATTATCGAGAATAT
4229222 TATTATCGAGAATAT
1 TATTATCGAGAATAT
4229237 TATTA
1 TATTA
4229242 CCTTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (15 bp):
TATTATCGAGAATAT
Found at i:4229520 original size:37 final size:36
Alignment explanation
Indices: 4229486--4229564 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
4229476 TTTTTATATT
4229486 TTTAATTTTATAAAAAAAATTATATAAATATTATAAA
1 TTTAATTTTATAAAAAAAA-TATATAAATATTATAAA
* ** *
4229523 TTTAATTTTTTTTAAAAAATATATAAATATTTTACAA
1 TTTAATTTTATAAAAAAAATATATAAATATTATA-AA
4229560 TTTAA
1 TTTAA
4229565 AATATTATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 14 0.38
37 23 0.62
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (36 bp):
TTTAATTTTATAAAAAAAATATATAAATATTATAAA
Found at i:4230199 original size:25 final size:27
Alignment explanation
Indices: 4230155--4230210 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
4230145 TTAAAACCAT
4230155 ATACTAGCATATTTTAAAAAACATAATA
1 ATACTAGCA-ATTTTAAAAAACATAATA
*
4230183 ATACTAGC-ATTTT-AAAAACATATTA
1 ATACTAGCAATTTTAAAAAACATAATA
4230208 ATA
1 ATA
4230211 TTATGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 14 0.52
26 5 0.19
28 8 0.30
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (27 bp):
ATACTAGCAATTTTAAAAAACATAATA
Found at i:4230467 original size:36 final size:36
Alignment explanation
Indices: 4230420--4230501 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
4230410 ATAACCGAAC
4230420 TAATTCGGTTAACCGACCGAACCGAATTAGTTCAGT
1 TAATTCGGTTAACCGACCGAACCGAATTAGTTCAGT
4230456 TAATTCGGTTAACCGACCGAACCGAATTAGTTCAGT
1 TAATTCGGTTAACCGACCGAACCGAATTAGTTCAGT
4230492 TAATTCGGTT
1 TAATTCGGTT
4230502 CGGTTACCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (36 bp):
TAATTCGGTTAACCGACCGAACCGAATTAGTTCAGT
Found at i:4230994 original size:183 final size:182
Alignment explanation
Indices: 4230598--4231167 Score: 860
Period size: 183 Copynumber: 3.1 Consensus size: 182
4230588 AACCGAAATT
* * * * * *
4230598 AAATTTTAAATATATTATATATAACATATTGACTCAGCTCAAATAATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
4230663 TTTAAGATCTAATAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTT
66 TTTAAGATCTAATAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAA-TTTT
4230728 ATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAAATTAAA
130 ATTTTATAATTATATATTATTTAAATTAATTGTAAACT-TTTTTTTAAATTAAA
* * *
4230782 AAATATTAAATATATTATATATAACATATGGGCTAAACCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
4230847 TTTAAGATCTAATAATTTTTAAACCTAAATCAATATTAATTAATT-AAAAATTATATAAAATTTT
66 TTTAAGATCTAATAA-TTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
* *
4230911 ATTTTATAATTATATATTATTTAAGTTAATTGTAAACTATTTTTTTTAATTAAA
130 ATTTTATAATTATATATTATTTAAATTAATTGTAAACT-TTTTTTTAAATTAAA
* * * *
4230965 AAATATTATATATATTATATATAACATATGGGCTATGTCCAAACTATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
* * *
4231030 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTC
66 TTTAAGATCTAATAA-TTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATT-
*
4231095 TTATTTTATAATTATATATTATTTAAATTAATTATAAAC-TTTTTTTAAATT-AA
128 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTTTTTTTTAAATTAAA
* *
4231148 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
4231168 AATTAGAAAA
Statistics
Matches: 354, Mismatches: 28, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
182 8 0.02
183 168 0.47
184 102 0.29
185 39 0.11
186 37 0.10
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (182 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
TTTAAGATCTAATAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTA
TTTTATAATTATATATTATTTAAATTAATTGTAAACTTTTTTTTAAATTAAA
Found at i:4244966 original size:25 final size:25
Alignment explanation
Indices: 4244932--4244981 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4244922 CGAGATTAAT
*
4244932 CATGACGAAACCTTAAAACTGAAAG
1 CATGACGAAACCTTAAAACTAAAAG
4244957 CATGACGAAACCTTAAAACTAAAAG
1 CATGACGAAACCTTAAAACTAAAAG
4244982 GACAACAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (25 bp):
CATGACGAAACCTTAAAACTAAAAG
Found at i:4249947 original size:8 final size:8
Alignment explanation
Indices: 4249934--4249958 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4249924 GAACATCTCC
4249934 CGCCCAAA
1 CGCCCAAA
4249942 CGCCCAAA
1 CGCCCAAA
4249950 CGCCCAAA
1 CGCCCAAA
4249958 C
1 C
4249959 TACCAGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.52, G:0.12, T:0.00
Consensus pattern (8 bp):
CGCCCAAA
Found at i:4250503 original size:17 final size:18
Alignment explanation
Indices: 4250473--4250508 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
4250463 ATGTATTAAA
4250473 TTTATTTAAGTATTTTAC
1 TTTATTTAAGTATTTTAC
4250491 TTTATTTAA-TATTTTAC
1 TTTATTTAAGTATTTTAC
4250508 T
1 T
4250509 AATATAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATTTAAGTATTTTAC
Found at i:4252212 original size:18 final size:18
Alignment explanation
Indices: 4252189--4252226 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4252179 AGCAGCCACT
*
4252189 GCAGCCATATATGATGCC
1 GCAGCCATATACGATGCC
4252207 GCAGCCATATACGATGCC
1 GCAGCCATATACGATGCC
4252225 GC
1 GC
4252227 CATCGCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (18 bp):
GCAGCCATATACGATGCC
Found at i:4252769 original size:26 final size:24
Alignment explanation
Indices: 4252698--4252769 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
4252688 TTATATTTGT
4252698 ATTTACTTTATTTTGTTAAATTTTA
1 ATTTACTTTATTTTGTTAAA-TTTA
*
4252723 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
4252745 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
4252770 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 6 0.16
23 8 0.22
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:4257258 original size:6 final size:6
Alignment explanation
Indices: 4257247--4257291 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
4257237 GACACGTATT
4257247 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
4257292 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4257798 original size:6 final size:6
Alignment explanation
Indices: 4257787--4257816 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4257777 TCTCGTCTCG
4257787 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4257817 ACGTGTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4257980 original size:19 final size:19
Alignment explanation
Indices: 4257956--4257992 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4257946 CGATACCGGA
*
4257956 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
*
4257975 GATCGCATTGCGATTTAT
1 GATCGCATTGCGAATTAT
4257993 TTGGTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:4258687 original size:20 final size:20
Alignment explanation
Indices: 4258650--4258695 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4258640 AAAACAAGAG
* *
4258650 AAAAATAAAGATACAATATA
1 AAAAATAAAGATAAAATAAA
4258670 AAAAATAAAAGA-AAAATAAA
1 AAAAAT-AAAGATAAAATAAA
4258690 AAAAAT
1 AAAAAT
4258696 TATTGATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAATAAAGATAAAATAAA
Found at i:4263599 original size:19 final size:19
Alignment explanation
Indices: 4263575--4263641 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
4263565 ACTATCGCAA
*
4263575 TGCGATTTTCCAAATTCGT
1 TGCGATTTTCCAAGTTCGT
**
4263594 TGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAGTT--CGT
*
4263615 TGCGATTTATTTCAAGTTCGT
1 TGCGA-TT-TTCCAAGTTCGT
4263636 TGCGAT
1 TGCGAT
4263642 AGTCGAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 13 0.34
20 1 0.03
21 16 0.42
22 1 0.03
23 7 0.18
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (19 bp):
TGCGATTTTCCAAGTTCGT
Found at i:4263617 original size:21 final size:20
Alignment explanation
Indices: 4263591--4263690 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 20
4263581 TTTCCAAATT
4263591 CGTTGCGATAGTCCAAGTTC
1 CGTTGCGATAGTCCAAGTTC
* *
4263611 GCGTTGCGATTTATTTCAAGTT-
1 -CGTTGCGA--TAGTCCAAGTTC
*
4263633 CGTTGCGATAGTCGAAGTTC
1 CGTTGCGATAGTCCAAGTTC
* * *
4263653 ACATTGCGATTTATTCCAAATT-
1 -CGTTGCGA--TAGTCCAAGTTC
*
4263675 CGTTGTGATAGTCCAA
1 CGTTGCGATAGTCCAA
4263691 AATCGCAACG
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
19 15 0.25
21 29 0.48
23 17 0.28
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCCAAGTTC
Found at i:4263638 original size:42 final size:42
Alignment explanation
Indices: 4263575--4263690 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 42
4263565 ACTATCGCAA
* *
4263575 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACAT
* * *
4263615 TGCGATTTATTTCAAGTTCGTTGCGATAGTCGAAGTTCACAT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACAT
*
4263657 TGCGATTTATTCCAAATTCGTTGTGATAGTCCAA
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
4263691 AATCGCAACG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 5 0.08
41 2 0.03
42 58 0.89
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACAT
Found at i:4263802 original size:5 final size:5
Alignment explanation
Indices: 4263789--4263825 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
4263779 TACCACGACC
*
4263789 ACGAC ACGAG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG
4263826 GCGGCGACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.38, C:0.24, G:0.38, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:4264625 original size:42 final size:42
Alignment explanation
Indices: 4264566--4264744 Score: 263
Period size: 42 Copynumber: 4.3 Consensus size: 42
4264556 TGCGATTTTG
* *
4264566 GACTATCGCAACGAATTTGGAATAAATCGCAATGCAAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
4264608 GACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* ** *
4264650 GACTATCGTAATAAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
4264692 GACTATCGCAACGAATTTGG-A-AAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
4264732 GACTATCGCAACG
1 GACTATCGCAACG
4264745 CGAAGTTGGA
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 30 0.24
41 1 0.01
42 93 0.75
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:4264768 original size:21 final size:21
Alignment explanation
Indices: 4264563--4264769 Score: 124
Period size: 21 Copynumber: 10.0 Consensus size: 21
4264553 CGTTGCGATT
*
4264563 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* * *
4264582 TTGGAATAAATCGCAATGCAAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
4264605 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
4264624 TTGTAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* ** *
4264647 TTGGACTATCGTAA--TAAAT
1 TTGGACTATCGCAACGCGAAC
*
4264666 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
4264689 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** *
4264708 TTGGAAAATCGCAACACGAAC
1 TTGGACTATCGCAACGCGAAC
* *
4264729 TTCGACTATCGCAACGCGAAG
1 TTGGACTATCGCAACGCGAAC
*
4264750 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
4264770 TATGTAAATC
Statistics
Matches: 140, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
19 37 0.26
21 78 0.56
23 25 0.18
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:4264888 original size:19 final size:19
Alignment explanation
Indices: 4264837--4264891 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
4264827 CGATACCGAA
*
4264837 GATCGCATTGCGAATTATC
1 GATCGCATTGCGATTTATC
4264856 GATCGCATTGCGATTTATC
1 GATCGCATTGCGATTTATC
4264875 GATCGCATTGCGATTTA
1 GATCGCATTGCGATTTA
4264892 GTTGGTCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (19 bp):
GATCGCATTGCGATTTATC
Done.