Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 14
Found at i:2947716 original size:14 final size:14
Alignment explanation
Indices: 2947664--2947720 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2947654 TTTGGTTTCG
*
2947664 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
2947678 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2947697 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2947711 CGTTGCGATT
1 CGTTGCGATT
2947721 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:2947902 original size:83 final size:87
Alignment explanation
Indices: 2947786--2948058 Score: 324
Period size: 93 Copynumber: 3.1 Consensus size: 87
2947776 ATGGATTGCA
* **
2947786 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
*
2947845 GAATTGGCAGCAACTGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
2947868 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
2947933 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
2947961 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
*
2948026 TAGCAGAATTGGCAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
2948054 TTACT
1 TTACT
2948059 AAGCAATCTA
Statistics
Matches: 173, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 128 0.74
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:2947995 original size:93 final size:93
Alignment explanation
Indices: 2947836--2948058 Score: 428
Period size: 93 Copynumber: 2.4 Consensus size: 93
2947826 TCAGGGTATT
*
2947836 AGTTTAGCAGAATTGGCAGCAACTGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2947901 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
2947929 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2947994 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
2948022 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2948059 AAGCAATCTA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:2949768 original size:14 final size:14
Alignment explanation
Indices: 2949749--2949805 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2949739 TTGAAATGAA
2949749 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2949763 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2949782 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2949796 AATCGCAACG
1 AATCGCAACG
2949806 CGAAATGAAA
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:2949781 original size:33 final size:33
Alignment explanation
Indices: 2949741--2949822 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
2949731 TCTTTTGGTT
2949741 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2949774 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2949807 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2949823 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2949787 original size:19 final size:19
Alignment explanation
Indices: 2949763--2949827 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2949753 GCAACGAGAG
2949763 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2949782 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
2949796 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2949815 AATCGCAATGCGA
1 AATCGCAACGCGA
2949828 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:2949858 original size:14 final size:14
Alignment explanation
Indices: 2949839--2949895 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2949829 TTTGGTTTCG
2949839 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2949853 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2949872 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2949886 CGTTGCGATT
1 CGTTGCGATT
2949896 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:2949871 original size:33 final size:33
Alignment explanation
Indices: 2949823--2949902 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
2949813 AAAATCGCAA
**
2949823 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2949856 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2949889 TGCGATTTTCATTT
1 TGCGATTTTCATTT
2949903 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:2949908 original size:21 final size:21
Alignment explanation
Indices: 2949883--2949956 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
2949873 GTTGCGATTC
2949883 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
2949904 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
2949925 TCACGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTT
2949946 TCTCGTTGCGA
1 TCTCGTTGCGA
2949957 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:2950078 original size:33 final size:33
Alignment explanation
Indices: 2950036--2950106 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2950026 AATACTAACT
2950036 TGAAAATCGCAACGAGAGAATAGCAACGCCAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCCAAA
* * *
2950069 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCCAAA
2950102 TGAAA
1 TGAAA
2950107 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCCAAA
Found at i:2950508 original size:20 final size:20
Alignment explanation
Indices: 2950483--2950675 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
2950473 CTTTAAAAAT
2950483 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2950503 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2950523 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
2950544 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
2950564 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
2950584 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2950604 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2950624 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2950644 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2950664 CGCGTTGCGATT
1 CGCGTTGCGATT
2950676 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2953121 original size:12 final size:12
Alignment explanation
Indices: 2953106--2953160 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
2953096 GTTATTTAAA
2953106 CGGGTATTGGGC
1 CGGGTATTGGGC
*
2953118 CGGGTATTGGGT
1 CGGGTATTGGGC
*
2953130 CGGGTATTAGGC
1 CGGGTATTGGGC
* * *
2953142 CGAGAATCGGGC
1 CGGGTATTGGGC
2953154 CGGGTAT
1 CGGGTAT
2953161 ATATATATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.15, C:0.16, G:0.45, T:0.24
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:2953223 original size:2 final size:2
Alignment explanation
Indices: 2953216--2953274 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2953206 AAATTTATTA
2953216 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
2953258 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
2953275 AAAATAATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2953353 original size:13 final size:13
Alignment explanation
Indices: 2953297--2953340 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
2953287 TTTAATATTT
*
2953297 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
2953309 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
2953322 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
2953335 ATCGGG
1 ATCGGG
2953341 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.14, C:0.16, G:0.52, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:2953375 original size:6 final size:6
Alignment explanation
Indices: 2953364--2953389 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2953354 GATTACCAAA
2953364 CCCGTC CCCGTC CCCGTC CCCGTC CC
1 CCCGTC CCCGTC CCCGTC CCCGTC CC
2953390 TGTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.69, G:0.15, T:0.15
Consensus pattern (6 bp):
CCCGTC
Found at i:2955411 original size:3 final size:3
Alignment explanation
Indices: 2955403--2955445 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2955393 CTTTCTTATG
2955403 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2955446 TTTTGATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2956567 original size:20 final size:20
Alignment explanation
Indices: 2956473--2956841 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2956463 GATTTTCCAT
* ** *
2956473 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2956493 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2956513 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2956533 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2956553 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2956573 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2956593 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2956613 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2956633 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2956653 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2956673 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2956693 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2956713 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2956733 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2956753 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2956773 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2956793 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2956813 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2956833 AATCACAAC
1 AATCGCAAC
2956842 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2957554 original size:24 final size:24
Alignment explanation
Indices: 2957515--2957561 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2957505 AAATTTGGTC
2957515 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2957539 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2957562 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:2957753 original size:12 final size:12
Alignment explanation
Indices: 2957736--2957760 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2957726 ATATAATCCT
2957736 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2957748 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2957760 G
1 G
2957761 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:2960085 original size:19 final size:19
Alignment explanation
Indices: 2960063--2960516 Score: 405
Period size: 19 Copynumber: 25.8 Consensus size: 19
2960053 CGGAAAATAC
*
2960063 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2960082 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2960096 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2960116 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2960130 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2960149 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2960168 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2960182 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2960201 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2960220 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
2960234 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2960253 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
** *
2960272 AATCGCAACACGGAAAAT-AC
1 AATCGCAATGC-G-AAATGAA
*
2960292 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2960311 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2960325 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2960345 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2960359 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2960378 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2960397 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2960411 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2960430 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2960449 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
2960463 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2960482 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
2960501 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2960517 TATAAACGCA
Statistics
Matches: 359, Mismatches: 31, Indels: 90
0.75 0.06 0.19
Matches are distributed among these distances:
14 74 0.21
15 8 0.02
16 20 0.06
17 18 0.05
18 14 0.04
19 183 0.51
20 38 0.11
21 4 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2960150 original size:33 final size:33
Alignment explanation
Indices: 2960063--2960437 Score: 198
Period size: 33 Copynumber: 10.8 Consensus size: 33
2960053 CGGAAAATAC
* *
2960063 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
2960096 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
2960130 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
2960168 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * *
2960201 AATTGCAATGCGAAATGAAAATCG-AACCGACAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAA
*
2960234 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAA
** * *
2960272 AATCGCAACACGGAAAAT-ACAATCGCAACGCG-A
1 AATCGCAATGC-G-AAATGAAAATCGCAACGAGAA
* * * * * *
2960305 AAT-GAAAATCCCAACATGAAAATCGCAATGCGGA
1 AATCG-CAATGCGAA-ATGAAAATCGCAACGAGAA
* * *
2960339 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAA
*
2960378 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
2960411 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
2960438 TGCGAAATGA
Statistics
Matches: 275, Mismatches: 34, Indels: 66
0.73 0.09 0.18
Matches are distributed among these distances:
31 2 0.01
32 6 0.02
33 128 0.47
34 51 0.19
35 8 0.03
36 8 0.03
37 8 0.03
38 36 0.13
39 17 0.06
40 11 0.04
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:2960415 original size:52 final size:51
Alignment explanation
Indices: 2960063--2960508 Score: 351
Period size: 52 Copynumber: 8.5 Consensus size: 51
2960053 CGGAAAATAC
*
2960063 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGA-G-AAATCGCAATGC-GAAATGAA
* * * *
2960116 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAAATGAA
* * * * *
2960168 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATTGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAAATGAA
* * *
2960220 AATCG-AAC-CGACAT---AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAA--CG--A--GAAATCGCAATGCGAAATGAA
* * * * * *
2960272 AATCGCAACACGGAAAAT-ACAATCGCAACGCGAAAT-GAAAATCCCAACATGAA
1 AATCGCAACGC-G-AAATGAAAATCGCAACGAGAAATCG-CAATGCGAA-ATGAA
*
2960325 AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAA
*
2960378 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAA
* * *
2960430 AATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGAGA-AATCGCAATGCGAAATGAA
**
2960482 AATCGCAATACGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2960509 TGCGAAATTA
Statistics
Matches: 340, Mismatches: 29, Indels: 48
0.82 0.07 0.12
Matches are distributed among these distances:
45 4 0.01
46 3 0.01
47 1 0.00
49 3 0.01
50 2 0.01
51 6 0.02
52 211 0.62
53 74 0.22
54 16 0.05
55 6 0.02
56 6 0.02
58 8 0.02
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (51 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAA
Found at i:2960445 original size:229 final size:229
Alignment explanation
Indices: 2960044--2960508 Score: 921
Period size: 229 Copynumber: 2.0 Consensus size: 229
2960034 GCATTTGACT
2960044 ATCGCAACACGGAAAATACAATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGG
1 ATCGCAACACGGAAAATACAATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGG
2960109 AAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
*
2960174 AACGAGAGAATCGCAATGCGAAATGAAAATTGCAATGCGAAATGAAAATCGAACCGACATAATCG
131 AACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGAACCGACATAATCG
2960239 CAATGCGAAATTAAAATCGCAATACGAAATGAAA
196 CAATGCGAAATTAAAATCGCAATACGAAATGAAA
2960273 ATCGCAACACGGAAAATACAATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGG
1 ATCGCAACACGGAAAATACAATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGG
2960338 AAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
2960403 AACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGAACCGACATAATCG
131 AACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGAACCGACATAATCG
2960468 CAATGCGAAATTAAAATCGCAATACGAAATGAAA
196 CAATGCGAAATTAAAATCGCAATACGAAATGAAA
2960502 ATCGCAA
1 ATCGCAA
2960509 TGCGAAATTA
Statistics
Matches: 235, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 235 1.00
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (229 bp):
ATCGCAACACGGAAAATACAATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGG
AAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
AACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGAACCGACATAATCG
CAATGCGAAATTAAAATCGCAATACGAAATGAAA
Found at i:2960467 original size:33 final size:33
Alignment explanation
Indices: 2960149--2960516 Score: 182
Period size: 33 Copynumber: 10.5 Consensus size: 33
2960139 GCGAAATGAA
*
2960149 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACCGA-AT
* *
2960182 AATCGCAATGCGAAATGAAAATTGCAATGCG-A-
1 AATCGCAATGCGAAATGAAAATCGCAA-CCGAAT
* ** *
2960214 AAT-GAAAAT-CGAACCGACATAATCGCAATGCGAAATT
1 AATCG-CAATGCGAAATGA-A-AATCGCAA-CCG-AA-T
*
2960251 AAAATCGCAATACGAAATGAAAATCGCAACACGGAAAAT
1 --AATCGCAATGCGAAATGAAAATCGCAAC-C-G--AAT
* * *
2960290 ACAATCGCAACGCGAAATGAAAATCCCAACATGAA-
1 --AATCGCAATGCGAAATGAAAATCGCAAC-CGAAT
*
2960325 AATCGCAATGCGGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACCGA-AT
*
2960359 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CCG-AAT
* * * **
2960394 GAAAATCGCAACGAGAGAATCG-CAAT-GCGAAATGAA-
1 ---AATCGCAATGCGA-AAT-GAAAATCGC-AACCGAAT
2960430 AATCGCAATGCGAAATGAAAATCG-AACCGACAT
1 AATCGCAATGCGAAATGAAAATCGCAACCGA-AT
* *
2960463 AATCGCAATGCGAAATTAAAATCGCAATACGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CCG-AAT
2960498 GAAAATCGCAATGCGAAAT
1 ---AATCGCAATGCGAAAT
2960517 TATAAACGCA
Statistics
Matches: 267, Mismatches: 30, Indels: 71
0.73 0.08 0.19
Matches are distributed among these distances:
31 12 0.04
32 16 0.06
33 100 0.37
34 28 0.10
35 10 0.04
36 4 0.01
37 2 0.01
38 40 0.15
39 44 0.16
40 11 0.04
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACCGAAT
Found at i:2960613 original size:19 final size:19
Alignment explanation
Indices: 2960523--2960605 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
2960513 AAATTATAAA
2960523 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2960542 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2960562 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2960578 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2960595 CGCATTGCGAT
1 CGCATTGCGAT
2960606 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2960731 original size:14 final size:14
Alignment explanation
Indices: 2960712--2960748 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2960702 CATCAATTAC
2960712 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2960726 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2960740 ACAAATCAA
1 ACAAATCAA
2960749 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:2960760 original size:12 final size:12
Alignment explanation
Indices: 2960743--2960815 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
2960733 ATCTTTTACA
2960743 AATCAATTAAAC
1 AATCAATTAAAC
*
2960755 AATCAA--AAATTG
1 AATCAATTAAA--C
**
2960767 AATCAACTTTTAC
1 AATCAA-TTAAAC
2960780 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
2960793 AATCAA-AAAAC
1 AATCAATTAAAC
2960804 AATCAATTAAAC
1 AATCAATTAAAC
2960816 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:2960777 original size:38 final size:38
Alignment explanation
Indices: 2960729--2960801 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
2960719 AACTTTTACA
*
2960729 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
2960767 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
2960802 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:2962657 original size:19 final size:19
Alignment explanation
Indices: 2962617--2962751 Score: 101
Period size: 19 Copynumber: 7.6 Consensus size: 19
2962607 TAGTTTACTT
* *
2962617 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2962637 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2962656 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2962675 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
2962689 TCGCAATGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2962708 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
2962722 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2962741 TCGCAATGCGA
1 TCGCAACGCGA
2962752 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2962692 original size:14 final size:14
Alignment explanation
Indices: 2962673--2962729 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2962663 GCGAAATGAA
2962673 AATCGCAACGACAG
1 AATCGCAACGACAG
*
2962687 AATCGCAATGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
2962706 AATCGCAACGAAAG
1 AATCGCAACGACAG
2962720 AATCGCAACG
1 AATCGCAACG
2962730 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.09
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:2962700 original size:33 final size:33
Alignment explanation
Indices: 2962654--2962746 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2962644 GCGAAACCAA
*
2962654 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* **
2962687 AATCGCAATGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2962720 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2962747 TGCGATTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2962743 original size:52 final size:54
Alignment explanation
Indices: 2962617--2962751 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
2962607 TAGTTTACTT
* *
2962617 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAATGCGAAACCAAAATCGCAAC-CGAAATG-AAA
*
2962675 TCGCAA-CGACA-G--AATCGCAATGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAA
2962722 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAATGCGA
2962752 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:2962769 original size:19 final size:19
Alignment explanation
Indices: 2962747--2962875 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2962737 AAAATCGCAA
2962747 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2962766 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2962780 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2962799 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2962813 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2962832 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2962851 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2962871 TGCGA
1 TGCGA
2962876 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:2962789 original size:33 final size:33
Alignment explanation
Indices: 2962747--2962838 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2962737 AAAATCGCAA
2962747 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2962780 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2962813 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2962839 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:2963078 original size:93 final size:93
Alignment explanation
Indices: 2962919--2963483 Score: 1116
Period size: 93 Copynumber: 6.1 Consensus size: 93
2962909 TTGAATGGAT
2962919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2962984 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963012 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963077 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963105 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963169 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963197 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963262 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963290 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963355 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963383 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963447 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2963475 AAATTTACT
1 AAATTTACT
2963484 AAGCAATCTA
Statistics
Matches: 471, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 154 0.33
93 317 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2963232 original size:185 final size:186
Alignment explanation
Indices: 2962919--2963483 Score: 1116
Period size: 185 Copynumber: 3.0 Consensus size: 186
2962909 TTGAATGGAT
2962919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2962984 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2963049 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2963105 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963169 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2963234 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2963290 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963355 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2963420 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2963475 AAATTTACT
1 AAATTTACT
2963484 AAGCAATCTA
Statistics
Matches: 378, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
185 247 0.65
186 131 0.35
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2963416 original size:278 final size:278
Alignment explanation
Indices: 2962919--2963483 Score: 1130
Period size: 278 Copynumber: 2.0 Consensus size: 278
2962909 TTGAATGGAT
2962919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2962984 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2963049 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2963114 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
2963179 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
2963197 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2963262 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2963327 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2963392 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
2963457 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
2963475 AAATTTACT
1 AAATTTACT
2963484 AAGCAATCTA
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 287 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:2965209 original size:14 final size:14
Alignment explanation
Indices: 2965190--2965279 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2965180 TTGAAATGAA
2965190 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2965204 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2965221 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2965237 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2965256 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2965270 AATCGCAACG
1 AATCGCAACG
2965280 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2965227 original size:33 final size:33
Alignment explanation
Indices: 2965182--2965296 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2965172 TCTTTTGGTT
2965182 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2965215 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2965248 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2965281 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2965297 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2965228 original size:19 final size:18
Alignment explanation
Indices: 2965189--2965301 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2965179 GTTGAAATGA
2965189 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2965204 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2965221 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2965237 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2965254 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2965270 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2965287 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2965302 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2965332 original size:14 final size:14
Alignment explanation
Indices: 2965313--2965367 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2965303 TTTGGTTTCG
2965313 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2965327 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2965346 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2965360 CGTTGCGA
1 CGTTGCGA
2965368 CAGTCATTCT
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:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2965345 original size:33 final size:33
Alignment explanation
Indices: 2965297--2965367 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2965287 AAAATCGCAA
**
2965297 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2965330 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2965363 TGCGA
1 TGCGA
2965368 CAGTCATTCT
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:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2965375 original size:33 final size:33
Alignment explanation
Indices: 2965308--2965389 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2965298 GCGATTTTGG
***
2965308 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2965341 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2965374 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2965390 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2965394 original size:20 final size:20
Alignment explanation
Indices: 2965320--2965408 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2965310 TCGCGTTGCG
2965320 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2965340 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2965353 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2965373 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2965393 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2965409 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2965530 original size:33 final size:33
Alignment explanation
Indices: 2965488--2965558 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2965478 AATACTAACT
*
2965488 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2965521 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2965554 TGAAA
1 TGAAA
2965559 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2965792 original size:22 final size:22
Alignment explanation
Indices: 2965740--2965794 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2965730 TGGTTGTGAG
**
2965740 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2965762 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2965784 GGATTTCTTCG
1 GGATTTCTTCG
2965795 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2965965 original size:20 final size:20
Alignment explanation
Indices: 2965940--2966133 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2965930 CTTTAAATAT
2965940 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2965960 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2965982 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2966001 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2966021 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2966041 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2966061 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2966081 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2966101 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2966121 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2966134 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2966127 original size:60 final size:60
Alignment explanation
Indices: 2965940--2966133 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2965930 CTTTAAATAT
**
2965940 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2966001 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2966061 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2966121 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2966134 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2966150 original size:21 final size:20
Alignment explanation
Indices: 2966126--2966202 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2966116 ATATTCGCGT
2966126 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2966147 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2966167 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2966189 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2966203 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2966213 original size:20 final size:20
Alignment explanation
Indices: 2966188--2966239 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2966178 AAGAATCGCG
*
2966188 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2966208 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2966228 TTGCGATTCTGG
1 TTGCGATTCTGG
2966240 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2972658 original size:20 final size:21
Alignment explanation
Indices: 2972611--2972671 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
2972601 TGCGATTTTC
2972611 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACACTGAATTT
*
2972632 CAAATTCGCAACTC-G-ATTT
1 CAAATTCGCAACACTGAATTT
*
2972651 CTAAATTCGCAAC-GTGAATTT
1 C-AAATTCGCAACACTGAATTT
2972672 TGTTTTCGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.14
20 13 0.37
21 17 0.49
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (21 bp):
CAAATTCGCAACACTGAATTT
Found at i:2972699 original size:20 final size:20
Alignment explanation
Indices: 2972603--2972700 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
2972593 AATCGCATTG
*
2972603 CGATTTTCCAAATTCGCAACA
1 CGATTTT-CAAATTCGCAACT
*
2972624 CTGAATTTCAAATTCGCAACT
1 C-GATTTTCAAATTCGCAACT
2972645 CGA-TTTCTAAATTCGCAACGT
1 CGATTTTC-AAATTCGCAAC-T
***
2972666 -GAATTTT-GTTTTCGCAACT
1 CG-ATTTTCAAATTCGCAACT
*
2972685 CGATTTTCGAATTCGC
1 CGATTTTCAAATTCGC
2972701 GACACAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.16
20 29 0.46
21 16 0.25
22 8 0.13
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (20 bp):
CGATTTTCAAATTCGCAACT
Found at i:2972711 original size:40 final size:40
Alignment explanation
Indices: 2972607--2972747 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
2972597 GCATTGCGAT
* * * *
2972607 TTTCCAAATTCGCAACACTGAATTTCAAATTCGCAACTCGA
1 TTTCTAAATTCGCAACAC-AAATTTTAATTTCGCAACTCGA
*** **
2972648 TTTCTAAATTCGCAACGTGAATTTTGTTTTCGCAACTCGA
1 TTTCTAAATTCGCAACACAAATTTTAATTTCGCAACTCGA
* * *
2972688 TTT-TCGAATTCGCGACACAAATTTTAATTTCGCAACT-GG
1 TTTCT-AAATTCGCAACACAAATTTTAATTTCGCAACTCGA
**
2972727 TTT-TAGTTTCGCAACACAAAT
1 TTTCTAAATTCGCAACACAAAT
2972748 GTTTTGAGTA
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
38 13 0.16
39 6 0.08
40 46 0.57
41 15 0.19
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (40 bp):
TTTCTAAATTCGCAACACAAATTTTAATTTCGCAACTCGA
Found at i:2972899 original size:14 final size:15
Alignment explanation
Indices: 2972880--2972919 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
2972870 TCCCCATCTC
2972880 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
2972894 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
2972910 TAATTTTTTT
1 TAATTTTTTT
2972920 AATGATTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 10 0.43
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:2973686 original size:24 final size:24
Alignment explanation
Indices: 2973659--2973712 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2973649 GTATTCGAAA
2973659 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2973683 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2973707 TTTGAT
1 TTTGAT
2973713 GATGTTTCAG
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:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2976417 original size:64 final size:64
Alignment explanation
Indices: 2976258--2976405 Score: 235
Period size: 64 Copynumber: 2.3 Consensus size: 64
2976248 AAATTTAAAC
*
2976258 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
*** * *
2976322 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
2976386 AACAAATCAAC-TTTACAAAT
1 AACAAATCAACTTTTACAAAT
2976406 AAACTTTAAC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 9 0.12
64 69 0.88
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
Found at i:2976419 original size:14 final size:14
Alignment explanation
Indices: 2976386--2976420 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2976376 TCATCAATTA
*
2976386 AACAAATCAACTTT
1 AACAAATAAACTTT
2976400 -ACAAATAAACTTT
1 AACAAATAAACTTT
2976413 AACAAATA
1 AACAAATA
2976421 CATCAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (14 bp):
AACAAATAAACTTT
Found at i:2978741 original size:800 final size:800
Alignment explanation
Indices: 2977107--2980296 Score: 5823
Period size: 799 Copynumber: 4.0 Consensus size: 800
2977097 CTTTTAAAAT
* * *
2977107 ATTCGAAAATAAATACTAACCTTATCGACCTCCCACCACGTAGGATAAAGTTTAGCTTTTTGTTG
1 ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
* *
2977172 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTGAATTGGCAATTAAAATTTTGTGGAAGCT
66 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
2977237 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
131 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
* *
2977302 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCTAACAAATTCACTAATTTGTTCTTTATT
196 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
*
2977367 TTGAGGGC-AAAGAGATAACCTTAAAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCT
261 TTGA-GGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCT
* *
2977431 TTTCTCAAAGAGAAGATTACAAATTTGCAAACTTACAAGAAAAACCTCACAATGCAAATATGTTT
325 TTTCTCAAAGAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTT
* *
2977496 GCACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAGTAAGTATTCTT
390 GCACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTT
2977561 GAAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTT
455 GAAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTT
2977626 CTCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGC
520 CTCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGC
* *
2977691 TTGCTTAAATACATCTTGAATCACTTCTGAATGTTGGGGATCATTAATGAAGTTATTGGAGCCGT
585 TTGCTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGT
*
2977756 TTAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGT-GGGGGAATCGGTACCCTTCATGGGGA
650 TTAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGTGGGGGGAATCGGTACCCCTCATGGGGA
* * *
2977820 ATCGGTTCCCTTAGTGTAAAATTCAAATATTTCGGCCGTTGATCAGT-AGGGGGAATCGATACCC
715 ATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGA-GGGGAATCGATACCC
*
2977884 CTGGGGGGAATCGACAATTAAA
779 CTGGGGGGAATCGGCAATTAAA
* *
2977906 ATTCAAAAATAAATACTAACCTTATCGATCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
1 ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
* * *
2977971 AGTTAATCGATTGACGGAATCGACCAAGAGGGGGGTGAATTGGCAATTAAAATTTTGTGGAAGCT
66 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
*
2978036 TTTGCAGAAAATTGAAAGTAATTGCACAGCGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
131 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
*
2978101 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTCGTTCTTTCTT
196 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
* *
2978166 TTGAGGCCAAAGAGATAACCTTACAACTCCCTCAAGAATATACCTCAATTCTTGAGAACACTCTT
261 TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCTT
* *
2978231 TTCTCAAAGAGAACATTACAAATTTGCAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
326 TTCTCAAAGAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
* * * *
2978296 CACAATTCTAGAACAAATAAAAGAATACTCAAGAATAAATAAAATTGAGCACAATAAGTTTTCTT
391 CACAATTCTAGAACAAA-GAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTT
2978361 GAAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTT
455 GAAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTT
*
2978426 CTCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCGTCTAAGC
520 CTCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGC
*
2978491 TTGCTTAAATACACCTTGAACCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGT
585 TTGCTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGT
2978556 TTAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGT-GGGGGAATCGGTACCCCTCATGGGGA
650 TTAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGTGGGGGGAATCGGTACCCCTCATGGGGA
2978620 ATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCC
715 ATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCC
2978685 TGGGGGGAATCGGCAATTAAA
780 TGGGGGGAATCGGCAATTAAA
2978706 ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
1 ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
2978771 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
66 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
*
2978836 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTTGACTTTATCAACCAAAGTCT
131 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
2978901 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
196 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
*
2978966 TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTATTGAGAACACTCTT
261 TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCTT
*
2979031 TTCTCAAATAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
326 TTCTCAAAGAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
2979096 CACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTTG
391 CACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTTG
2979161 AAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTTC
456 AAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTTC
2979226 TCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGCT
521 TCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGCT
*
2979291 TACTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGTT
586 TGCTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGTT
*
2979356 TAAGTGTGAAAACAATTAATACAACAGCTTGGAACGTGGGGGGAATCGGTACCCCTCATGGGGAA
651 TAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGTGGGGGGAATCGGTACCCCTCATGGGGAA
2979421 TCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCCT
716 TCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCCT
2979486 GGGGGGAATCGGCAATTAAA
781 GGGGGGAATCGGCAATTAAA
2979506 ATTC-AAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
1 ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
2979570 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
66 AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
*
2979635 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTTGACTTTATCAACCAAAGTCT
131 TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
2979700 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
196 ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
2979765 TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCTT
261 TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCTT
*
2979830 TTCTCAAATAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
326 TTCTCAAAGAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
2979895 CACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTTG
391 CACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTTG
* *
2979960 AAAGCAAAATGAATATTAAATGAAAAATAGGCTTGAAATGCTCAAACTTGACGTTTGATGCTTTC
456 AAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTTC
*
2980025 TCTTTTATTCTCTCTTGATTTTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGCT
521 TCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGCT
* *
2980090 TGCTTAAATACACCTTGAATCACTTCTGAATGTTAGGGATCATTAATGAAGTTATTGGAGCCGTT
586 TGCTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGTT
* * * *
2980155 TAAGTGTAAAAACAATTAATACAACAACTTGGAGTGTGGGGGGAATCGGTACCCCTCATGGAGAA
651 TAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGTGGGGGGAATCGGTACCCCTCATGGGGAA
* * *
2980220 TCAGTTCCCTAAATGTAAAATTCAAATATTTCGACCGTTGAACAGTGGGGGGAATCGATACCCCT
716 TCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCCT
2980285 GGGGGGAATCGG
781 GGGGGGAATCGG
2980297 TTCCCTCCGA
Statistics
Matches: 2324, Mismatches: 63, Indels: 8
0.97 0.03 0.00
Matches are distributed among these distances:
798 3 0.00
799 1435 0.62
800 885 0.38
801 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (800 bp):
ATTCAAAAATAAATACTAACCTTATCAACCTCCCACCACGCAGGATAAAGTTTAGCTTTTTGTTG
AGTTAATCGATTGACGGAATCGGCCAAGAGGGGGGTAAATTGACAATTAAAATTTTGTGGAAGCT
TTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTCT
ACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTT
TTGAGGCAAAAGAGATAACCTTACAACTCCCTCAAGAATATACCCCAATTCTTGAGAACACTCTT
TTCTCAAAGAGAAGATTACAAATTTACAAACTTACAAGAAAAACCTCACAAGGCAAATATGTTTG
CACAATTCTAGAACAAAGAAAGAACACTCAAGAATAAATACAATTGAGCACAATAAGTGTTCTTG
AAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTGAGGTTTGATGCTTTC
TCTTTTATTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTTTTGATCAATGGCTTCTAAGCT
TGCTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATCATTAATGAAGTTATTGGAGCCGTT
TAAGTGTGAAAACAATTAATACAACAGCTTGGAGCGTGGGGGGAATCGGTACCCCTCATGGGGAA
TCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACAGTGAGGGGAATCGATACCCCT
GGGGGGAATCGGCAATTAAA
Found at i:2981187 original size:21 final size:21
Alignment explanation
Indices: 2981158--2981270 Score: 86
Period size: 21 Copynumber: 5.4 Consensus size: 21
2981148 GTGAATCGGG
* *
2981158 CTCTCGAACGGTGGGAGGGAT
1 CTCTTGAACGGTGGGAGGGAC
* ** *
2981179 CTCTTGAACGATGAAAGGGCC
1 CTCTTGAACGGTGGGAGGGAC
*
2981200 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGAC
** *
2981221 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGAC
* *
2981242 CTCTTGAACGATAGGAGAGG-C
1 CTCTTGAACGGTGGGAG-GGAC
2981263 CTCTTGAA
1 CTCTTGAA
2981271 TGATGACAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
20 2 0.03
21 68 0.93
22 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGAC
Found at i:2981225 original size:42 final size:42
Alignment explanation
Indices: 2981158--2981276 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
2981148 GTGAATCGGG
* **
2981158 CTCTCGAACGGTGGGAGGGATCTCTTGAACGATGAAAGGGCC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAAAGGGCC
* * *
2981200 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAAAGGGCC
* * * *
2981242 CTCTTGAACGATAGGAGAGGCCTCTTGAATGATGA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGA
2981277 CAGGTGAATC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAAAGGGCC
Found at i:2983820 original size:22 final size:22
Alignment explanation
Indices: 2983793--2983846 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
2983783 GAGATAGATG
2983793 AATTTCGCCGGAGATGAGGACA
1 AATTTCGCCGGAGATGAGGACA
* *
2983815 AATTTCGTCGGAGATGGGGACA
1 AATTTCGCCGGAGATGAGGACA
* *
2983837 GATGTCGCCG
1 AATTTCGCCG
2983847 TAGAGAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (22 bp):
AATTTCGCCGGAGATGAGGACA
Found at i:2984314 original size:20 final size:20
Alignment explanation
Indices: 2984268--2984315 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
2984258 CGAATTGACT
*
2984268 TTTGTGTTGCGATTTACAAA
1 TTTGCGTTGCGATTTACAAA
* * * *
2984288 TTCGCGTTGTGATTTTCATA
1 TTTGCGTTGCGATTTACAAA
2984308 TTTGCGTT
1 TTTGCGTT
2984316 ACGAATTTGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (20 bp):
TTTGCGTTGCGATTTACAAA
Found at i:2984361 original size:21 final size:21
Alignment explanation
Indices: 2984317--2984361 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2984307 ATTTGCGTTA
2984317 CGAATTTGGAAAATTGCAACG
1 CGAATTTGGAAAATTGCAACG
*
2984338 CGAATTTGGAAAATTGCAATG
1 CGAATTTGGAAAATTGCAACG
2984359 CGA
1 CGA
2984362 TTTACATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (21 bp):
CGAATTTGGAAAATTGCAACG
Found at i:2987774 original size:12 final size:12
Alignment explanation
Indices: 2987740--2987774 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2987730 TATCATGTTC
**
2987740 TCATATCACAGG
1 TCATATCACATA
2987752 TCATATCACATA
1 TCATATCACATA
2987764 TCATATCACAT
1 TCATATCACAT
2987775 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:2990940 original size:23 final size:23
Alignment explanation
Indices: 2990914--2990970 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
2990904 ATCAAGTACA
2990914 ATAATATATTAGGTAGCGCTTAT
1 ATAATATATTAGGTAGCGCTTAT
* * *
2990937 ATAATGTAATATGTAGCGCTTAT
1 ATAATATATTAGGTAGCGCTTAT
*
2990960 ATTAACATATT
1 A-TAATATATT
2990971 TTCTAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (23 bp):
ATAATATATTAGGTAGCGCTTAT
Found at i:2991923 original size:112 final size:111
Alignment explanation
Indices: 2991725--2992178 Score: 688
Period size: 112 Copynumber: 4.1 Consensus size: 111
2991715 GATACTTATA
* * * *
2991725 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
2991790 TTTGTCATTTTTTTACTTGTTATATTATTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * *
2991837 ATAAAGTATCAACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATTGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
2991902 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
2991949 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACC---
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
2992011 ----TCATTTTTTAACTGTTATATTGTTATAGATCAATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
2992053 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
2992118 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
2992164 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
2992179 AAACCGACAA
Statistics
Matches: 314, Mismatches: 21, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
104 95 0.30
105 3 0.01
111 55 0.18
112 161 0.51
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:2992107 original size:216 final size:217
Alignment explanation
Indices: 2991725--2992178 Score: 698
Period size: 216 Copynumber: 2.1 Consensus size: 217
2991715 GATACTTATA
2991725 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACC---
* * *
2991790 TTTGTCATTTTTTTACTTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCAACACTTT
63 --T-TCATTTTTTAACTTGTTATATTATTATAGATCAATACATTTTTATAAAGTATCAACACTTT
* * *
2991855 CAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATTGACCGGTTTTGTCATTTTTTTACCT
125 CAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTACCT
*
2991920 GTTATATTGTTATGGATCGATACATTTTT
189 GTTATATTGTTATGGATCAATACATTTTT
* *
2991949 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTA-CATGTTTTGTCATTTATAGACC-T
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTATC-TGTTTTGTCATTTATAGACCTT
* * *
2992012 CATTTTTTAAC-TGTTATATTGTTATAGATCAATATATTTTTATAAAGTATCGACACTTTCAATA
65 CATTTTTTAACTTGTTATATTATTATAGATCAATACATTTTTATAAAGTATCAACACTTTCAATA
2992076 TATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATA
130 TATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATA
*
2992141 TTGTTATGGATCAATATATTTTT
195 TTGTTATGGATCAATACATTTTT
2992164 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
2992179 AAACCGACAA
Statistics
Matches: 216, Mismatches: 13, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
215 52 0.24
216 94 0.44
217 11 0.05
223 1 0.00
224 58 0.27
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (217 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCTTC
ATTTTTTAACTTGTTATATTATTATAGATCAATACATTTTTATAAAGTATCAACACTTTCAATAT
ATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATAT
TGTTATGGATCAATACATTTTT
Found at i:2993776 original size:59 final size:60
Alignment explanation
Indices: 2993707--2993824 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 60
2993697 GATGAATTTG
* *
2993707 GGGATAAAATT-GAAGATGCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTT
1 GGGATAAAATTAGAAGATGCAAAAGTTTAAGGACAAATTTAAAATGAAAGTCATAGTTTT
* ** ** * **
2993766 GGGATGAAATTAGAATTTTTAAATGTTTAAGGATTAATTTAAAATGAAAGTCATAGTTT
1 GGGATAAAATTAGAAGATGCAAAAGTTTAAGGACAAATTTAAAATGAAAGTCATAGTTT
2993825 GGTGACATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 10 0.21
60 38 0.79
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (60 bp):
GGGATAAAATTAGAAGATGCAAAAGTTTAAGGACAAATTTAAAATGAAAGTCATAGTTTT
Found at i:2995302 original size:14 final size:14
Alignment explanation
Indices: 2995283--2995310 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2995273 ATCCAAGAAC
2995283 GGATGGAATTCAAT
1 GGATGGAATTCAAT
2995297 GGATGGAATTCAAT
1 GGATGGAATTCAAT
2995311 TCCCTTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
GGATGGAATTCAAT
Found at i:2995833 original size:252 final size:253
Alignment explanation
Indices: 2995378--2995978 Score: 883
Period size: 254 Copynumber: 2.4 Consensus size: 253
2995368 TTTATTCATA
2995378 TATTGAAT-AAAAT-ATTTTTTTATTATTTCGGGTC-G--GGTTTCTAATTCATATATTCGGGTT
1 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGTCGGTTTCTAATTCATATATTCGGG-T
* *
2995438 GGGTCGGGTGAAACTTTA-TTT--T--GGTCGAGTCGGTTTTTTAAGTGTGATATTCGGGTCGGG
65 CGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTC-GG
2995498 TCGAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATT
129 -CGAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATT
* *
2995563 TAGGAATAATTACAATAATATCCCTCTATATATA-ATTTTTT-TAATTAAGTCACTGTTTT
193 TAGGAATAATTACAATAATAACCCTCTATATATATATTTTTTCCAATTAAGTCACTGTTTT
2995622 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGAGTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCG-GTCGG-TTTCTAATTCATATATTCGGG
* *
2995687 TCAGGTGGGGTGAAATTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTCGGGT
64 TC-GGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG--TTTTTTAAGTGTGATATTCGGGT
*
2995752 C-G-G-GTTCTGGTTTAGGGTGAAAAATACCCGACCCGAAAA-ATATATAATTTTACCTTATATA
126 CGGCGAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATA
* *
2995813 TTTAGGAATAATTACAATAATAACCCTCTCTCTATATATTTTTTCCAATTAAGTCACTGTTTT
191 TTTAGGAATAATTACAATAATAACCCTCTATATATATATTTTTTCCAATTAAGTCACTGTTTT
* *
2995876 TATTGAATAAAAATAATTTTATTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTAGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTC-GGTC-GGTTTCTAATTCATATATTCGGG
*
2995941 TCGCGTCGGGTGAAACTTTATTTTGGTCGTGTCGGGTC
64 TCG-GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
2995979 TCGGATGTAG
Statistics
Matches: 323, Mismatches: 14, Indels: 30
0.88 0.04 0.08
Matches are distributed among these distances:
244 8 0.02
245 5 0.02
246 21 0.07
248 1 0.00
250 3 0.01
251 36 0.11
252 58 0.18
253 43 0.13
254 110 0.34
255 3 0.01
256 11 0.03
258 24 0.07
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (253 bp):
TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGTCGGTTTCTAATTCATATATTCGGGTC
GGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGGCG
AGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATTTAG
GAATAATTACAATAATAACCCTCTATATATATATTTTTTCCAATTAAGTCACTGTTTT
Found at i:2996342 original size:18 final size:18
Alignment explanation
Indices: 2996306--2996351 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2996296 ATCCTAACAA
*
2996306 ATTTCAATT-CTTGACAG
1 ATTTCAATTCCTTCACAG
2996323 ATTTCAATTCCTTCACAG
1 ATTTCAATTCCTTCACAG
2996341 ATTTCAATTCC
1 ATTTCAATTCC
2996352 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (18 bp):
ATTTCAATTCCTTCACAG
Found at i:2999422 original size:20 final size:20
Alignment explanation
Indices: 2999382--2999422 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2999372 TTTGATCATG
*
2999382 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
2999402 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
2999422 A
1 A
2999423 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:2999661 original size:15 final size:15
Alignment explanation
Indices: 2999641--2999675 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2999631 TCGTAGGACC
*
2999641 ACTACGTCTCGAAGG
1 ACTACGTCCCGAAGG
2999656 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2999671 ACTAC
1 ACTAC
2999676 AATACCCTCG
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:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:3006211 original size:20 final size:20
Alignment explanation
Indices: 3006171--3006211 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3006161 TTTGATCATG
*
3006171 ATATTTCAATATGCATTTAT
1 ATATTTCAATATGCATATAT
3006191 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
3006211 A
1 A
3006212 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:3006450 original size:15 final size:15
Alignment explanation
Indices: 3006430--3006464 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3006420 CAATAGGACC
3006430 ACTACGTCCCGAAAG
1 ACTACGTCCCGAAAG
3006445 ACTACGTCCCGAAAG
1 ACTACGTCCCGAAAG
3006460 ACTAC
1 ACTAC
3006465 AATACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAAG
Found at i:3007034 original size:18 final size:18
Alignment explanation
Indices: 3007011--3007045 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3007001 TTTCATTTAG
3007011 GGGGAATCGATACCCCCA
1 GGGGAATCGATACCCCCA
3007029 GGGGAATCGATACCCCC
1 GGGGAATCGATACCCCC
3007046 TGAACATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (18 bp):
GGGGAATCGATACCCCCA
Found at i:3008452 original size:16 final size:17
Alignment explanation
Indices: 3008422--3008466 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
3008412 AGATAAGAAA
3008422 TATGAATGATAATAGAG
1 TATGAATGATAATAGAG
*
3008439 TATGAAT-ATGATAGAG
1 TATGAATGATAATAGAG
*
3008455 -AT-CATGATAATA
1 TATGAATGATAATA
3008467 TTGGCATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 8 0.33
17 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (17 bp):
TATGAATGATAATAGAG
Found at i:3008955 original size:25 final size:25
Alignment explanation
Indices: 3008921--3008969 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
3008911 AACATTTTTG
3008921 GGTACTGTAGCAGGTTACTGTTCAC
1 GGTACTGTAGCAGGTTACTGTTCAC
* *
3008946 GGTATTGTAGCAGGTTATTGTTCA
1 GGTACTGTAGCAGGTTACTGTTCA
3008970 TACCGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (25 bp):
GGTACTGTAGCAGGTTACTGTTCAC
Found at i:3010673 original size:14 final size:14
Alignment explanation
Indices: 3010654--3010748 Score: 73
Period size: 14 Copynumber: 5.9 Consensus size: 14
3010644 GGGCGACCTT
3010654 CCATCCGACCGAGG
1 CCATCCGACCGAGG
3010668 CCATCCGACCGAGG
1 CCATCCGACCGAGG
3010682 CCATCCGAGAGCATCCGAGG
1 CCATCC----G-A-CCGAGG
3010702 CCATCCAAGAGCATCCGAGG
1 CCATCC----G-A-CCGAGG
3010722 CCATCCGACCGAGG
1 CCATCCGACCGAGG
*
3010736 CCATCCGAACGAG
1 CCATCCGACCGAG
3010749 CTATGCGAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 38 0.52
15 1 0.01
16 1 0.01
18 1 0.01
19 1 0.01
20 31 0.42
ACGTcount: A:0.25, C:0.39, G:0.27, T:0.08
Consensus pattern (14 bp):
CCATCCGACCGAGG
Found at i:3010701 original size:20 final size:20
Alignment explanation
Indices: 3010676--3010729 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3010666 GGCCATCCGA
3010676 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
3010696 CCGAGGCCATCCAAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
3010716 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
3010730 CCGAGGCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:3010743 original size:10 final size:10
Alignment explanation
Indices: 3010676--3010729 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
3010666 GGCCATCCGA
3010676 CCGAGGCCAT
1 CCGAGGCCAT
3010686 CCGAGAG-CAT
1 CCGAG-GCCAT
3010696 CCGAGGCCAT
1 CCGAGGCCAT
*
3010706 CCAAGAG-CAT
1 CCGAG-GCCAT
3010716 CCGAGGCCAT
1 CCGAGGCCAT
3010726 CCGA
1 CCGA
3010730 CCGAGGCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 2 0.05
10 34 0.89
11 2 0.05
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:3010782 original size:33 final size:33
Alignment explanation
Indices: 3010730--3010812 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
3010720 GGCCATCCGA
* * * *
3010730 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
3010763 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
*
3010796 CC--GGGCTACCGAGCGAG
1 CCGAGGGCAACCGAGCGAG
3010813 GGTAGGTCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 14 0.31
33 31 0.69
ACGTcount: A:0.24, C:0.29, G:0.37, T:0.10
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:3010899 original size:10 final size:10
Alignment explanation
Indices: 3010880--3010957 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
3010870 GCATAGCTCG
*
3010880 CTCGGTTGCC
1 CTCGGATGCC
3010890 CTCGGATGCC
1 CTCGGATGCC
*
3010900 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
3010912 GTTCGGATGGC
1 -CTCGGATGCC
*
3010923 CTCGGATGCT
1 CTCGGATGCC
*
3010933 CTCGGATGCT
1 CTCGGATGCC
* *
3010943 TTCGGATGGC
1 CTCGGATGCC
3010953 CTCGG
1 CTCGG
3010958 TCGAATAAAC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
10 43 0.81
11 3 0.06
12 2 0.04
13 5 0.09
ACGTcount: A:0.09, C:0.32, G:0.32, T:0.27
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:3010907 original size:33 final size:32
Alignment explanation
Indices: 3010845--3010936 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 32
3010835 GCGACCTACC
* * *
3010845 CTCGCTCGGTAG-CTCGGATTCCCTAGCATAG
1 CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
3010876 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTG-CCTCGGATGCCCTCGCATAG
* * *
3010909 CTCGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGG-TTGCCTCGGATGCCCTCG
3010937 GATGCTTTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.21
33 39 0.75
34 2 0.04
ACGTcount: A:0.11, C:0.35, G:0.28, T:0.26
Consensus pattern (32 bp):
CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
Found at i:3010918 original size:23 final size:20
Alignment explanation
Indices: 3010890--3010941 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
3010880 CTCGGTTGCC
3010890 CTCGGATGCCCTCGCATAGCT
1 CTCGGATGCCCTCGCAT-GCT
* *
3010911 CGTTCGGATGGCCTCGGATGCT
1 C--TCGGATGCCCTCGCATGCT
3010933 CTCGGATGC
1 CTCGGATGC
3010942 TTTCGGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.27
21 1 0.04
22 4 0.15
23 14 0.54
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.25
Consensus pattern (20 bp):
CTCGGATGCCCTCGCATGCT
Found at i:3010949 original size:30 final size:32
Alignment explanation
Indices: 3010857--3010957 Score: 107
Period size: 33 Copynumber: 3.2 Consensus size: 32
3010847 CGCTCGGTAG
* * * * *
3010857 CTCGGATTCCCTAGCATAGCTCGCTCGGTTGCC
1 CTCGGATGCCCTCGCATAGCTC-TTCGGATGGC
3010890 CTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTC-TTCGGATGGC
* *
3010923 CTCGGATGCTCTCGGAT-GCT-TTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCTTCGGATGGC
3010953 CTCGG
1 CTCGG
3010958 TCGAATAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 15 0.25
32 3 0.05
33 43 0.70
ACGTcount: A:0.11, C:0.33, G:0.30, T:0.27
Consensus pattern (32 bp):
CTCGGATGCCCTCGCATAGCTCTTCGGATGGC
Done.