Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 50
Found at i:11052790 original size:20 final size:20
Alignment explanation
Indices: 11052765--11052957 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
11052755 GATTTTCCAG
* ** *
11052765 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
11052785 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
11052805 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
11052825 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
11052845 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
11052865 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
11052885 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
11052905 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
11052926 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
11052946 AATCGCAACGCG
1 AATCGCAACGCG
11052958 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:11053488 original size:21 final size:21
Alignment explanation
Indices: 11053462--11053538 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
11053452 TGCAGAAGAG
11053462 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
11053483 TCGCAACGCGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
11053503 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
11053525 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
11053539 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:11053542 original size:14 final size:14
Alignment explanation
Indices: 11053523--11053579 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
11053513 GAGAAATGAA
11053523 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
11053537 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
11053556 AATCGCAACGAGAG
1 AATCGCAACGAGAG
11053570 AATCGCAACG
1 AATCGCAACG
11053580 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:11053553 original size:33 final size:33
Alignment explanation
Indices: 11053515--11053595 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
11053505 TGCAACGAGA
11053515 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
11053548 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
11053581 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
11053596 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:11053647 original size:21 final size:21
Alignment explanation
Indices: 11053621--11053685 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
11053611 CGCGTTGCGA
11053621 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
11053642 TTCTCTCGTTGCGATAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
11053662 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
11053683 TTC
1 TTC
11053686 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:11053682 original size:20 final size:20
Alignment explanation
Indices: 11053620--11053683 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
11053610 TCGCGTTGCG
11053620 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
**
11053640 ATTTCTCTCGTTGCGATAGTC
1 A-TTCTCTCGTTGCGATTTTC
11053661 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
11053681 ATT
1 ATT
11053684 TCAACCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.48
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:11055651 original size:19 final size:19
Alignment explanation
Indices: 11055627--11055739 Score: 129
Period size: 19 Copynumber: 6.5 Consensus size: 19
11055617 TACGAAACTT
11055627 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
11055646 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
11055665 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
11055679 ATAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
11055698 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
11055712 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
11055731 AAAATCGCA
1 AAAATCGCA
11055740 TTGCGATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
14 20 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 47 0.59
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:11055686 original size:14 final size:14
Alignment explanation
Indices: 11055665--11055723 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
11055655 ACGCGAAATG
11055665 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
11055679 ATAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
11055698 AAAATCGCAACGAC
1 AAAATCGCAACGAC
11055712 AAAATCGCAACG
1 AAAATCGCAACG
11055724 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.15, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:11055690 original size:33 final size:33
Alignment explanation
Indices: 11055645--11055739 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
11055635 AACGCGAAAC
**
11055645 CAAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
*
11055678 CATAATCGCAACGCGAAACCAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
11055711 CAAAATCGCAACGCGAAACCAAAATCGCA
1 CAAAATCGCAACGCGAAACCAAAATCGCA
11055740 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.08
Consensus pattern (33 bp):
CAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:11055737 original size:52 final size:51
Alignment explanation
Indices: 11055627--11055739 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 51
11055617 TACGAAACTT
* * *
11055627 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCAAAATGAAAAGCGAAAC-AC
* * *
11055679 ATAATCGCAACGCGAAACCAAAATCGCAACGACAAAATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CAAAAT-GAAAAGCGAAACAC
11055731 AAAATCGCA
1 AAAATCGCA
11055740 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 39 0.75
53 5 0.10
54 8 0.15
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.08
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCAAAATGAAAAGCGAAACAC
Found at i:11055757 original size:19 final size:19
Alignment explanation
Indices: 11055735--11055907 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
11055725 GAAACCAAAA
*
11055735 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
11055754 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
11055768 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
11055787 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
11055803 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
11055820 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
11055839 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
11055858 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
11055877 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
11055897 TCGTGTTGCGA
1 TCGCGTTGCGA
11055908 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:11055776 original size:14 final size:14
Alignment explanation
Indices: 11055757--11055813 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
11055747 TTTCATTTCG
11055757 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
11055771 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
11055788 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
11055804 CGTTGCGATT
1 CGTTGCGATT
11055814 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:11055865 original size:38 final size:38
Alignment explanation
Indices: 11055735--11055907 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
11055725 GAAACCAAAA
*
11055735 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
11055770 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
11055803 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
11055839 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
11055877 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
11055908 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:11057852 original size:14 final size:14
Alignment explanation
Indices: 11057833--11057868 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11057823 ATTGTTTAAT
11057833 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
11057847 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
11057861 TGATTTGT
1 TGATTTGT
11057869 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:11057983 original size:20 final size:19
Alignment explanation
Indices: 11057966--11058064 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
11057956 AAAAATGACT
11057966 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
11057986 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
11058005 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
11058019 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
11058038 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
11058058 ATCGCAA
1 ATCGCAA
11058065 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:11058096 original size:53 final size:53
Alignment explanation
Indices: 11057966--11058083 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
11057956 AAAAATGACT
11057966 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
11058019 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
11058072 ATCGCAATGCGA
1 ATCGCAATGCGA
11058084 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:11058118 original size:20 final size:19
Alignment explanation
Indices: 11058073--11058210 Score: 161
Period size: 19 Copynumber: 7.7 Consensus size: 19
11058063 AACGAGAGAA
*
11058073 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
11058092 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
11058111 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
11058128 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
11058145 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
11058164 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
11058182 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
11058198 TCGCATTGCGATT
1 TCGCATTGCGATT
11058211 CTCTCGTTGC
Statistics
Matches: 102, Mismatches: 5, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
14 17 0.17
16 7 0.07
17 7 0.07
18 4 0.04
19 41 0.40
20 26 0.25
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:11058142 original size:53 final size:53
Alignment explanation
Indices: 11058079--11058210 Score: 230
Period size: 53 Copynumber: 2.5 Consensus size: 53
11058069 AGAATCGCAA
11058079 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GT
*
11058132 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGT
*
11058185 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
11058211 CTCTCGTTGC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
53 75 0.99
54 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGT
Found at i:11058232 original size:33 final size:33
Alignment explanation
Indices: 11058079--11058224 Score: 109
Period size: 34 Copynumber: 4.2 Consensus size: 33
11058069 AGAATCGCAA
*
11058079 TGCGATTTTCATTTCGCATTGCGATTTTCAT-T
1 TGCGATTTTCATTTCGCATTGCGATTCTCATGT
* * * * *
11058111 TCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTCTCA--T-G--T
*
11058151 TGCGATTTTCATTTCCGCATTGCGATTTTCATGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCATGT
*
11058185 TGGGATTTTCATTTCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCAT-GT
11058218 TGCGATT
1 TGCGATT
11058225 GTAATTTCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
32 7 0.08
33 26 0.29
34 29 0.32
36 2 0.02
37 1 0.01
38 1 0.01
39 18 0.20
40 7 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCATGT
Found at i:11058239 original size:53 final size:53
Alignment explanation
Indices: 11058079--11058243 Score: 185
Period size: 53 Copynumber: 3.1 Consensus size: 53
11058069 AGAATCGCAA
* *
11058079 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-TTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT-GT
* * *
11058132 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCATGT
* * * *
11058185 TGGGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGTGT
1 TGCGATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTTCCATGT
11058238 TGCGAT
1 TGCGAT
11058244 AGTCAAATGC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
53 89 0.90
54 8 0.08
55 2 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCATGT
Found at i:11060526 original size:12 final size:12
Alignment explanation
Indices: 11060509--11060533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11060499 TCTTCGGGGA
11060509 CTTTTTCTTCTT
1 CTTTTTCTTCTT
11060521 CTTTTTCTTCTT
1 CTTTTTCTTCTT
11060533 C
1 C
11060534 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:11060742 original size:24 final size:24
Alignment explanation
Indices: 11060708--11060754 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11060698 CTGAAACATC
11060708 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
11060732 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
11060755 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:11061475 original size:20 final size:20
Alignment explanation
Indices: 11061447--11061637 Score: 233
Period size: 20 Copynumber: 9.6 Consensus size: 20
11061437 AAATTTCAGT
* * *
11061447 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACTC
11061467 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACTC
* *
11061487 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACTC
11061507 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACTC
*
11061527 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACTC
*
11061547 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACTC
* *
11061567 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACTC
*
11061587 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACTC
* * *
11061607 GTTGCGGTTTATGGATACGC
1 GTTGCGATTTACGGATACTC
11061627 GTTGCGATTTA
1 GTTGCGATTTA
11061638 TGTGTTCGCG
Statistics
Matches: 150, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
19 3 0.02
20 145 0.97
21 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACTC
Found at i:11061665 original size:20 final size:20
Alignment explanation
Indices: 11061624--11061675 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
11061614 TTTATGGATA
* *
11061624 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
11061644 CGCGTTGCGATTT-TCATATT
1 CGCGTTGCGATTTAT-ATATT
*
11061664 CGCGTTGTGATT
1 CGCGTTGCGATT
11061676 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:11069912 original size:76 final size:77
Alignment explanation
Indices: 11069778--11069928 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 77
11069768 TTTTAAGTTT
* *
11069778 AATAATTAAAAAATATTTTTAAACATCATTTTTTTATTTCAAATACTCGAAAACATGGTAATCCA
1 AATAATTAAAAAATATTTTTAAACATCATTTTTTTATTTAAAAAACTCGAAAACATGGTAATCCA
*
11069843 GTGGGCCCCAAA
66 ATGGGCCCCAAA
*
11069855 AATAATTAAAAAATATTTTTAAACATCA-TTTTTTATTTAAAAAACTCGAAAACATGGTAATTCA
1 AATAATTAAAAAATATTTTTAAACATCATTTTTTTATTTAAAAAACTCGAAAACATGGTAATCCA
11069919 ATGGGCCCCA
66 ATGGGCCCCA
11069929 TTTTGATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
76 42 0.60
77 28 0.40
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (77 bp):
AATAATTAAAAAATATTTTTAAACATCATTTTTTTATTTAAAAAACTCGAAAACATGGTAATCCA
ATGGGCCCCAAA
Found at i:11072510 original size:19 final size:19
Alignment explanation
Indices: 11072483--11072527 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
11072473 GATTATGAGG
*
11072483 GAGCTTAAGTATAAATAGA
1 GAGCCTAAGTATAAATAGA
11072502 GAGCCTAAGTATAAATAGA
1 GAGCCTAAGTATAAATAGA
11072521 GAGCCTA
1 GAGCCTA
11072528 TCTTCCTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
GAGCCTAAGTATAAATAGA
Found at i:11075711 original size:128 final size:122
Alignment explanation
Indices: 11075487--11075741 Score: 368
Period size: 128 Copynumber: 2.0 Consensus size: 122
11075477 CATGGGTCTC
* *
11075487 ATACGACATGCAATGCTGCTTAGCAGAACATGTTACCCTCTTACTACATATTGTCATGTAAATTG
1 ATACGACATGCAATGCTGCTTAGCAGAACATGTTACCCTCTTAATACATATTGTCATGAAAATTG
11075552 ATAATTAGAGAAGATAATAAAGTAACCATGCA-AGATTATGTTAGAAATAAGTACCT
66 ATAATTAGAGAAGATAATAAAGTAACCATGCAGAGATTATGTTAGAAATAAGTACCT
* *
11075608 ATACGACATGCTATGCTGCTTAGCAGAACATGTTACCCTCTGTAGTGAAATGACATATTGTTATG
1 ATACGACATGCAATGCTGCTTAGCAGAACATGTTACCCTC--T--T--AAT-ACATATTGTCATG
* * *
11075673 AAAATTGATAATTAGAGAAGATGATAAATTAACCATGCAGTAGATTATGTTAGGAATAAGTACCT
59 AAAATTGATAATTAGAGAAGATAATAAAGTAACCATGCAG-AGATTATGTTAGAAATAAGTACCT
11075738 ATAC
1 ATAC
11075742 AATGTTTCAG
Statistics
Matches: 118, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
121 39 0.33
123 1 0.01
125 1 0.01
127 2 0.02
128 48 0.41
130 27 0.23
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (122 bp):
ATACGACATGCAATGCTGCTTAGCAGAACATGTTACCCTCTTAATACATATTGTCATGAAAATTG
ATAATTAGAGAAGATAATAAAGTAACCATGCAGAGATTATGTTAGAAATAAGTACCT
Found at i:11079376 original size:30 final size:32
Alignment explanation
Indices: 11079342--11079400 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
11079332 ATAGTATTGA
*
11079342 TTTT-ACAAATAT-AAAATAAAATATATATAT
1 TTTTAACAAATATCAAAATAAAAAATATATAT
* *
11079372 TTTTAATAAATATCAAGATAAAAAATATA
1 TTTTAACAAATATCAAAATAAAAAATATA
11079401 AATAAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 7 0.29
32 13 0.54
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (32 bp):
TTTTAACAAATATCAAAATAAAAAATATATAT
Found at i:11083158 original size:13 final size:13
Alignment explanation
Indices: 11083140--11083169 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11083130 AACCCGACCC
11083140 GACCCGACCCGTT
1 GACCCGACCCGTT
*
11083153 GACCCGACTCGTT
1 GACCCGACCCGTT
11083166 GACC
1 GACC
11083170 GTTGACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:11083206 original size:17 final size:17
Alignment explanation
Indices: 11083184--11083217 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11083174 ACTTTGACTA
11083184 AAAAGTCAAATTTTTTG
1 AAAAGTCAAATTTTTTG
* *
11083201 AAAAGTTATATTTTTTG
1 AAAAGTCAAATTTTTTG
11083218 TTTTTAACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAGTCAAATTTTTTG
Found at i:11083377 original size:128 final size:128
Alignment explanation
Indices: 11083168--11083426 Score: 301
Period size: 128 Copynumber: 2.0 Consensus size: 128
11083158 GACTCGTTGA
* * *
11083168 CCGTTGACTTTGACTAAAAAGTCAAATTTTTTGAAAAGTTATATTTTTTGTTTTTAACGTCCTGA
1 CCGTTGACTTTGACCAAAAAGTCAAATTTTTTGAAAAGTCATATTTTATGTTTTTAACGTCCTGA
* * * ** * ** *
11083233 GTCCGAATTCGAAGTCCGTTTTTCAAAATTCGAACCCGAAAGCCTTGAAATCGTCAGTCAACC
66 ATCCGAATTCAAAGTCCGTCTGGCAAAATTCAAACCCGAAAGCCTCCAAATCATCAGTCAACC
*
11083296 CCGTTGACTTTGACCAAAAAGTC-AA-TTTTTGAAAA-TACATATTTTATGTTTTTTCGACGTCC
1 CCGTTGACTTTGACCAAAAAGTCAAATTTTTTGAAAAGT-CATATTTTATG-TTTTT-AACGTCC
* * * *
11083358 TGAATTCG-ATTCAACAGTCCGTCTGGCCAAATTCAAACTCGAAAGCCTCCAAATTATCAGTCAA
63 TGAATCCGAATTCAA-AGTCCGTCTGGCAAAATTCAAACCCGAAAGCCTCCAAATCATCAGTCAA
11083422 CC
127 CC
11083424 CCG
1 CCG
11083427 AAACATGCAT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
125 1 0.01
126 19 0.17
127 12 0.11
128 78 0.71
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (128 bp):
CCGTTGACTTTGACCAAAAAGTCAAATTTTTTGAAAAGTCATATTTTATGTTTTTAACGTCCTGA
ATCCGAATTCAAAGTCCGTCTGGCAAAATTCAAACCCGAAAGCCTCCAAATCATCAGTCAACC
Found at i:11084188 original size:25 final size:25
Alignment explanation
Indices: 11084140--11084189 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11084130 AGGTTAACTC
* *
11084140 TTTTATGAGATTTATTGCAGTATGA
1 TTTTATGAGATTTACTGCACTATGA
*
11084165 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATGA
11084190 CTTGTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATGA
Found at i:11085082 original size:21 final size:21
Alignment explanation
Indices: 11085040--11085082 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11085030 TTGAGCTTGG
** *
11085040 AGTATCGATACTAGGGTTTAT
1 AGTATCGATACTAGCATATAT
*
11085061 AGTATCGATACTTGCATATAT
1 AGTATCGATACTAGCATATAT
11085082 A
1 A
11085083 AGTACCAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (21 bp):
AGTATCGATACTAGCATATAT
Found at i:11092176 original size:20 final size:19
Alignment explanation
Indices: 11092143--11092200 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
11092133 CTGCCCTTAC
* *
11092143 CTTGAGTATTGATATTGTT
1 CTTGAGTATCGATACTGTT
11092162 CTTGCAGTATCGATACTGTT
1 CTTG-AGTATCGATACTGTT
11092182 CATGTG-GTATCGATACTGT
1 C-T-TGAGTATCGATACTGT
11092201 AAGAACATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 4 0.12
20 27 0.79
21 1 0.03
22 2 0.06
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (19 bp):
CTTGAGTATCGATACTGTT
Found at i:11100217 original size:13 final size:14
Alignment explanation
Indices: 11100176--11100217 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
11100166 AGGTATAATA
11100176 TATAATTATTTAAAT
1 TATAATT-TTTAAAT
**
11100191 TATAATTTAAAAAT
1 TATAATTTTTAAAT
11100205 T-TAATTTTTAAAT
1 TATAATTTTTAAAT
11100218 ATTTTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATAATTTTTAAAT
Found at i:11105848 original size:41 final size:41
Alignment explanation
Indices: 11105786--11105877 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
11105776 CTTTTGTTAT
11105786 AAATA-AAGCCCTCCTCCTCGTCCTTAGTTTAGCACCCCAC
1 AAATATAAGCCCTCCTCCTCGTCCTTAGTTTAGCACCCCAC
* *
11105826 AATTATAAGCCCTCCTCCTCGTCCTTAGTTTAGCATCCCAC
1 AAATATAAGCCCTCCTCCTCGTCCTTAGTTTAGCACCCCAC
11105867 AAATATAAGCC
1 AAATATAAGCC
11105878 TTCTTCTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 4 0.08
41 44 0.92
ACGTcount: A:0.27, C:0.36, G:0.10, T:0.27
Consensus pattern (41 bp):
AAATATAAGCCCTCCTCCTCGTCCTTAGTTTAGCACCCCAC
Found at i:11116202 original size:14 final size:14
Alignment explanation
Indices: 11116185--11116214 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11116175 TTTGTTTACA
11116185 TTCGTTTATGTTCG
1 TTCGTTTATGTTCG
*
11116199 TTCGTTTGTGTTCG
1 TTCGTTTATGTTCG
11116213 TT
1 TT
11116215 TACGTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.23, T:0.60
Consensus pattern (14 bp):
TTCGTTTATGTTCG
Found at i:11116241 original size:25 final size:24
Alignment explanation
Indices: 11116185--11116266 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 24
11116175 TTTGTTTACA
* * *
11116185 TTCGTTTATGTTCGTTCGTTTGTG
1 TTCGTTTACGTTCATTCATTTGTG
11116209 TTCGTTTACGTTCATTCATTTGTAG
1 TTCGTTTACGTTCATTCATTTGT-G
11116234 TTCGTTTACGTTCATTCATTTGTGG
1 TTCGTTTACGTTCATTCATTTGT-G
11116259 TTCGTTTA
1 TTCGTTTA
11116267 TCATTTAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 20 0.38
25 33 0.62
ACGTcount: A:0.11, C:0.15, G:0.20, T:0.55
Consensus pattern (24 bp):
TTCGTTTACGTTCATTCATTTGTG
Found at i:11117243 original size:22 final size:21
Alignment explanation
Indices: 11117179--11117243 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
11117169 AAATGAATAA
* *
11117179 TAAATATATGTCAATTTATTT
1 TAAAAATATGTTAATTTATTT
* * *
11117200 TAAAGAT-TGTTTATATTCTTT
1 TAAAAATATGTTAAT-TTATTT
11117221 TAAAAATATGTTAACTTTATTT
1 TAAAAATATGTTAA-TTTATTT
11117243 T
1 T
11117244 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
22 11 0.32
23 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (21 bp):
TAAAAATATGTTAATTTATTT
Found at i:11117250 original size:25 final size:25
Alignment explanation
Indices: 11117213--11117265 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
11117203 AGATTGTTTA
* *
11117213 TATTCTTTTAAAAATATGTTAACTT
1 TATTCTTTTAAAAATATATTAAATT
11117238 TATT-TTTTAAAAATTATATTAAATT
1 TATTCTTTTAAAAA-TATATTAAATT
11117263 TAT
1 TAT
11117266 AAAGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (25 bp):
TATTCTTTTAAAAATATATTAAATT
Found at i:11119357 original size:19 final size:17
Alignment explanation
Indices: 11119313--11119350 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11119303 TTATATATCT
*
11119313 TAAATTAAATTCACATA
1 TAAATTAAATTAACATA
*
11119330 TTAATTAAATTAACATA
1 TAAATTAAATTAACATA
11119347 TAAA
1 TAAA
11119351 CATTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATTAAATTAACATA
Found at i:11119417 original size:22 final size:24
Alignment explanation
Indices: 11119369--11119414 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11119359 ATATATATTT
11119369 TATTATTATCTTAACTTTAAAAAA
1 TATTATTATCTTAACTTTAAAAAA
* *
11119393 TATTTTTATTTTAAC-TTAAAAA
1 TATTATTATCTTAACTTTAAAAA
11119415 TATAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTATTATCTTAACTTTAAAAAA
Found at i:11119571 original size:30 final size:30
Alignment explanation
Indices: 11119476--11119698 Score: 168
Period size: 30 Copynumber: 7.5 Consensus size: 30
11119466 ATTCTATCAA
*
11119476 AAATATATTTTATTTTTATTTTAGCTTA--
1 AAATATATTTTATTTTTATTTTAACTTATT
* ** *
11119504 AAATATATTTTAATTTTATCATAACTTA-A
1 AAATATATTTTATTTTTATTTTAACTTATT
11119533 AAATATATTTTATTTTTATTTTAACTTATT
1 AAATATATTTTATTTTTATTTTAACTTATT
* * * ** *
11119563 ACATATATTATATTCTTAAATTAAATTATT
1 AAATATATTTTATTTTTATTTTAACTTATT
* * * ** *
11119593 AAATATATTCTAGTCTTACATTAAATTATT
1 AAATATATTTTATTTTTATTTTAACTTATT
** * *
11119623 AAATATAAATTATCTTTATTTTAA--TATAA
1 AAATATATTTTATTTTTATTTTAACTTAT-T
* *
11119652 AATATATATTTTATTCTTATTTTTAACTTAAT
1 AA-ATATATTTTATTTTTA-TTTTAACTTATT
*
11119684 ATATATATTTTATTT
1 AAATATATTTTATTT
11119699 AAAAATATTT
Statistics
Matches: 153, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
28 27 0.18
29 27 0.18
30 78 0.51
31 18 0.12
32 1 0.01
33 2 0.01
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (30 bp):
AAATATATTTTATTTTTATTTTAACTTATT
Found at i:11120670 original size:8 final size:8
Alignment explanation
Indices: 11120657--11120689 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11120647 ATAAAAGAAC
11120657 TAAATAGT
1 TAAATAGT
11120665 TAAATAGT
1 TAAATAGT
11120673 TAAATAG-
1 TAAATAGT
*
11120680 TAAATGGT
1 TAAATAGT
11120688 TA
1 TA
11120690 CTCTTACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (8 bp):
TAAATAGT
Found at i:11120689 original size:15 final size:16
Alignment explanation
Indices: 11120657--11120689 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11120647 ATAAAAGAAC
11120657 TAAATAGTTAAATAGT
1 TAAATAGTTAAATAGT
*
11120673 TAAATAG-TAAATGGT
1 TAAATAGTTAAATAGT
11120688 TA
1 TA
11120690 CTCTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (16 bp):
TAAATAGTTAAATAGT
Found at i:11124625 original size:3 final size:3
Alignment explanation
Indices: 11124617--11124651 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
11124607 TCATTTCATT
* *
11124617 TTA TTA TTA TTA TTA TTA TTG TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11124652 TACATTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11130867 original size:21 final size:21
Alignment explanation
Indices: 11130841--11130880 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11130831 TAACAAAGGT
*
11130841 AGTACCGATACTCC-CTATAGA
1 AGTACCAATAC-CCTCTATAGA
11130862 AGTACCAATACCCTCTATA
1 AGTACCAATACCCTCTATA
11130881 CTAGGCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (21 bp):
AGTACCAATACCCTCTATAGA
Found at i:11132082 original size:19 final size:20
Alignment explanation
Indices: 11132058--11132106 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
11132048 AAATGATTTT
* * *
11132058 ATTTTGAAAGCTAAAATG-G
1 ATTTTGAAAACCAAAATGAA
11132077 ATTTTGAAAACCAAAATGAA
1 ATTTTGAAAACCAAAATGAA
11132097 ATTTTGAAAA
1 ATTTTGAAAA
11132107 AGGATTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (20 bp):
ATTTTGAAAACCAAAATGAA
Found at i:11132149 original size:23 final size:22
Alignment explanation
Indices: 11132114--11132157 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11132104 AAAAGGATTT
11132114 AAAGCTTTCAAAAATGAAAATTA
1 AAAGCTTTCAAAAA-GAAAATTA
* *
11132137 AAAGTTTTGAAAAAGAAAATT
1 AAAGCTTTCAAAAAGAAAATT
11132158 TTGATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (22 bp):
AAAGCTTTCAAAAAGAAAATTA
Found at i:11134863 original size:2 final size:2
Alignment explanation
Indices: 11134852--11134885 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11134842 GTTGTGCGTG
11134852 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11134886 GCGGCTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11136315 original size:3 final size:3
Alignment explanation
Indices: 11136294--11136337 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
11136284 TTTTTTCATT
* *
11136294 TTA TTT TTA TTA CTA TTA TTA TTA TTA TTA TATA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA
11136338 AAAAAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 29 0.81
4 7 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11137841 original size:2 final size:2
Alignment explanation
Indices: 11137828--11137869 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
11137818 TATATTAGTC
*
11137828 AT AT AA 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
11137870 CTTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11140265 original size:13 final size:14
Alignment explanation
Indices: 11140230--11140271 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
11140220 TTTTCATACA
11140230 TGCATTTT-CATTT
1 TGCATTTTGCATTT
11140243 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
11140258 T-CATTTTGCATTT
1 TGCATTTTGCATTT
11140271 T
1 T
11140272 TTGTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 15 0.56
14 6 0.22
15 6 0.22
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:11140272 original size:8 final size:7
Alignment explanation
Indices: 11140230--11140271 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
11140220 TTTTCATACA
11140230 TGCATTT
1 TGCATTT
11140237 T-CATTT
1 TGCATTT
11140243 TGCATCTT
1 TGCAT-TT
11140251 TGCATTT
1 TGCATTT
11140258 T-CATTT
1 TGCATTT
11140264 TGCATTT
1 TGCATTT
11140271 T
1 T
11140272 TTGTTTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.38
7 13 0.41
8 7 0.22
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (7 bp):
TGCATTT
Found at i:11140419 original size:46 final size:47
Alignment explanation
Indices: 11140342--11140461 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 47
11140332 CATTCACATG
*
11140342 TTTACATTTGCATTTGCATTTTGCATCTTTGCATTTTTATGTTT-TA
1 TTTACATTTGCATTTGCATTTTGCATCTTTGCATTTTTAGGTTTGTA
** * *
11140388 TTTTTATTTGCATTTGGATTTTGCATTTTTGCATTTTTAGGTTTGTA
1 TTTACATTTGCATTTGCATTTTGCATCTTTGCATTTTTAGGTTTGTA
* *
11140435 TTTACATTTTCATTTGTATCTTTGCAT
1 TTTACATTTGCATTTGCAT-TTTGCAT
11140462 AATTACATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 39 0.62
47 17 0.27
48 7 0.11
ACGTcount: A:0.17, C:0.11, G:0.12, T:0.60
Consensus pattern (47 bp):
TTTACATTTGCATTTGCATTTTGCATCTTTGCATTTTTAGGTTTGTA
Found at i:11142837 original size:22 final size:22
Alignment explanation
Indices: 11142811--11142862 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
11142801 ACAAAACAAA
11142811 AAAAAGAGAAAAAAATGA-AAAAG
1 AAAAA-AGAAAAAAA-GAGAAAAG
11142834 AAAAAAGAAAAAAAGAGAAAAGG
1 AAAAAAGAAAAAAAGAGAAAA-G
11142857 AAAAAA
1 AAAAAA
11142863 AATTCAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.07
22 13 0.48
23 12 0.44
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAAGAGAAAAG
Found at i:11142846 original size:15 final size:14
Alignment explanation
Indices: 11142794--11142864 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 14
11142784 CATTCATCAG
*
11142794 AAAAAAAACAAAACA
1 AAAAAAAAGAAAA-A
11142809 AAAAAAAGAGAAAAA
1 AAAAAAA-AGAAAAA
*
11142824 AATGAAAAAGAAAAA
1 AA-AAAAAAGAAAAA
11142839 AGAAAAAAAGAGAAAA
1 A-AAAAAAAGA-AAAA
11142855 GGAAAAAAAA
1 --AAAAAAAA
11142865 TTCAAGATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 25 0.53
16 14 0.30
17 7 0.15
18 1 0.02
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:11142862 original size:23 final size:24
Alignment explanation
Indices: 11142792--11142862 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
11142782 CTCATTCATC
** *
11142792 AGAAAAAAAACAAAACAAAAAAAAG
1 AGAAAAAAATGAAAA-AGAAAAAAG
11142817 AGAAAAAAATGAAAAAGAAAAAAG
1 AGAAAAAAATGAAAAAGAAAAAAG
*
11142841 A-AAAAAAGA-GAAAAGGAAAAAA
1 AGAAAAAA-ATGAAAAAGAAAAAA
11142863 AATTCAAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.44
24 10 0.24
25 13 0.32
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (24 bp):
AGAAAAAAATGAAAAAGAAAAAAG
Found at i:11142864 original size:32 final size:30
Alignment explanation
Indices: 11142792--11142864 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
11142782 CTCATTCATC
*
11142792 AGAAAAAAAACAAAACAAAAAAAAGAGAAA
1 AGAAAAAAAACAAAAAAAAAAAAAGAGAAA
*
11142822 A-AAATGAAAAAGAAAAAAGAAAAAAAGAGAAA
1 AGAAA--AAAAACAAAAAA-AAAAAAAGAGAAA
11142854 AGGAAAAAAAA
1 A-GAAAAAAAA
11142865 TTCAAGATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
29 3 0.08
30 1 0.03
31 10 0.28
32 19 0.53
34 3 0.08
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (30 bp):
AGAAAAAAAACAAAAAAAAAAAAAGAGAAA
Found at i:11143766 original size:24 final size:24
Alignment explanation
Indices: 11143734--11143781 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11143724 AGGGTAGTCT
11143734 CAAATGAGGAAGGTCCTTGAAGCA
1 CAAATGAGGAAGGTCCTTGAAGCA
11143758 CAAATGAGGAAGGTCCTTGAAGCA
1 CAAATGAGGAAGGTCCTTGAAGCA
11143782 AGTTGTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (24 bp):
CAAATGAGGAAGGTCCTTGAAGCA
Found at i:11146362 original size:54 final size:54
Alignment explanation
Indices: 11146227--11146520 Score: 358
Period size: 54 Copynumber: 5.5 Consensus size: 54
11146217 AGCCACAGCT
* * * * * **
11146227 GGATGAATGTATTATCAAATGTTTTACAAACATCTGTGCAGAAGTCGCA--ATT
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
* * *
11146279 GGATGAATGTATTATCAAATGTTTTACAAACATCTGGGCAGAATCCACAGGAAA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
* * ** *
11146333 TGATGAATGTGTTGTCAAATATTTTACAAACATCTGGTAAGAAGCCATAGGAAA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
* *
11146387 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGAAGAAGCCACATGAAA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
* * * ** *
11146441 AGATGAATGTGTTGTCAAATGCTTTACGAACATCTGAACAGAAGCCACAAGAAA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
*
11146495 GGATAAATGTGTTGTCAAATGTTTTA
1 GGATGAATGTGTTGTCAAATGTTTTA
11146521 TGAACCAGTT
Statistics
Matches: 211, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
52 45 0.21
54 166 0.79
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (54 bp):
GGATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
Found at i:11147734 original size:22 final size:21
Alignment explanation
Indices: 11147706--11147764 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
11147696 GGGTCATCTG
11147706 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
11147728 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
11147748 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
11147765 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:11147767 original size:116 final size:116
Alignment explanation
Indices: 11147581--11147987 Score: 622
Period size: 116 Copynumber: 3.5 Consensus size: 116
11147571 ACTATTCCCA
* * *
11147581 CATCTGTAAGACCTACAGTGCATGATGTTTTCAA-AGCCTTC-GGACCATCCATAAGACCTACAG
1 CATCTGTAAGACCTACAGTGCAAGATG--AT-AAGA-CC-TCAGGGCCATCCATAAGACCTACAG
*
11147644 TGCAGGATGTTTTCAAAAAACCTTCCGGAGCTTTTTAATATTTAAAGCCTCCGGGT
61 TGCAGGATGTTTTCAAAAAACCTTCAGGAGCTTTTTAATATTTAAAGCCTCCGGGT
11147700 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* **
11147765 GATGTTTTCAAAAATCCTTCAGGAGC-TTTTACATATTTAAAGCCTCCAAGT
66 GATGTTTTCAAAAAACCTTCAGGAGCTTTTTA-ATATTTAAAGCCTCCGGGT
* *
11147816 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAATGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* * *
11147881 GATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTTCGGGT
66 GATGTTTTCAAAAAACCTTCAGGAGCTTTTTAATATTTAAAGCCTCCGGGT
*
11147932 CATCTGTAAGACCTACAGTGTAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
11147988 CAGGGCCATC
Statistics
Matches: 268, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
115 7 0.03
116 229 0.85
117 6 0.02
119 26 0.10
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (116 bp):
CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
GATGTTTTCAAAAAACCTTCAGGAGCTTTTTAATATTTAAAGCCTCCGGGT
Found at i:11147984 original size:20 final size:20
Alignment explanation
Indices: 11147959--11148007 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
11147949 GTGTAAGATG
11147959 ATAAGACCTCAGGGCCATCC
1 ATAAGACCTCAGGGCCATCC
11147979 ATAAGACCTCAGGGCCATCC
1 ATAAGACCTCAGGGCCATCC
11147999 ATAAGACCT
1 ATAAGACCT
11148008 ACAGTGCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (20 bp):
ATAAGACCTCAGGGCCATCC
Found at i:11148017 original size:136 final size:136
Alignment explanation
Indices: 11147843--11148123 Score: 481
Period size: 136 Copynumber: 2.1 Consensus size: 136
11147833 GTGCAAGATG
*
11147843 ATAAGACCTCAGGGTCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCT
* * *
11147908 TTTTGATATTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGTAAGATGATAAGACCTCAGGG
66 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATGATAAGACCTCAGGG
11147973 CCATCC
131 CCATCC
* * *
11147979 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGGT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCT
*
11148044 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTATAGTGAAAGATGATAAGACCTCAGGG
66 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATGATAAGACCTCAGGG
*
11148109 CTATCC
131 CCATCC
11148115 ATAAGACCT
1 ATAAGACCT
11148124 ACAGTGCAGG
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (136 bp):
ATAAGACCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCT
TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATGATAAGACCTCAGGG
CCATCC
Found at i:11148172 original size:252 final size:251
Alignment explanation
Indices: 11147727--11148469 Score: 1044
Period size: 252 Copynumber: 3.0 Consensus size: 251
11147717 GTGCAAGATG
* * *
11147727 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAATCCTTCAGGAGCT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGAT
** **
11147792 TTTACATATTTAAAGCCTCCAAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
66 TTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
* *
11147857 -TCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAA
131 CT-ATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAA
11147921 AGCCTTCGGGTCATCTGTAAGACCTACAGTGTAAGATGATAAGACCTCAGGGCCATCC
195 AGCCTTCGGGTCATCTGTAAGACCTACAGTG-AAGATGATAAGACCTCAGGGCCATCC
*
11147979 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGGT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGAT
* * *
11148044 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTATAGTGAAAGATGATAAGACCTCAGGG
66 TTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
*
11148109 CTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAA
131 CTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAA
*
11148174 GCC-TCTGGGTCATCTGTAAGACCTACAGTGCA-A-G-T------T----G------
196 GCCTTC-GGGTCATCTGTAAGACCTACAGTGAAGATGATAAGACCTCAGGGCCATCC
*
11148211 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGA-AT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGAT
* *
11148275 GTTTTGATAATTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGG
66 -TTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGG
* * * * *
11148340 GCCATCCATAAGACCTACAGTGCAGGATGTGTTCAAACAAGCATTTGTGAGCTTTTTGATATTTA
130 GCTATCCATAAGACCTACAGTGCAGGATGTTTTCAAA-AAGCCTTCGGGAGCTTTTTGATATTTA
* * *
11148405 AAACCTCCGGGTCATCTGTAAGACCTACAGTAAAAGATGATAAGACCTCAGGGCCATCC
194 AAGCCTTCGGGTCATCTGTAAGACCTACAGT-GAAGATGATAAGACCTCAGGGCCATCC
11148464 ATAAGA
1 ATAAGA
11148470 GCTACAGTGC
Statistics
Matches: 435, Mismatches: 31, Indels: 49
0.84 0.06 0.10
Matches are distributed among these distances:
231 1 0.00
232 155 0.36
233 50 0.11
234 2 0.00
235 1 0.00
236 1 0.00
237 1 0.00
238 1 0.00
242 1 0.00
243 1 0.00
247 1 0.00
248 1 0.00
249 1 0.00
250 1 0.00
251 3 0.01
252 207 0.48
253 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (251 bp):
ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGAT
TTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
CTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAA
GCCTTCGGGTCATCTGTAAGACCTACAGTGAAGATGATAAGACCTCAGGGCCATCC
Found at i:11148218 original size:22 final size:21
Alignment explanation
Indices: 11148190--11148247 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
11148180 GGGTCATCTG
**
11148190 TAAGACCTACAGTGCAAGTTGA
1 TAAGACCTACAGTGCAA-TCCA
* *
11148212 TAAGACCT-CAGGGCCATCCA
1 TAAGACCTACAGTGCAATCCA
11148232 TAAGACCTACAGTGCA
1 TAAGACCTACAGTGCA
11148248 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 8 0.28
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (21 bp):
TAAGACCTACAGTGCAATCCA
Found at i:11148334 original size:22 final size:21
Alignment explanation
Indices: 11148306--11148364 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
11148296 GGGTCATCTG
11148306 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
11148328 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
11148348 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
11148365 GATGTGTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:11148444 original size:117 final size:116
Alignment explanation
Indices: 11147979--11148493 Score: 825
Period size: 116 Copynumber: 4.4 Consensus size: 116
11147969 AGGGCCATCC
* *
11147979 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGGT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGAGAT
*
11148044 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTATAGTGAAAGATG
66 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATG
* * *
11148095 ATAAGACCTCAGGGCTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGTT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGAGAT
* * * *
11148160 TTTTGATATTTAAAGCCTCTGGGTCATCTGTAAGACCTACAGTGCAAGTTG
66 TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATG
11148211 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGA-AT
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGAGAT
* * * *
11148275 GTTTTGATAATTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG
66 -TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATG
* * * *
11148327 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTGTTCAAACAAGCATTTGTGAGC
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAA-AAGCATTCGGGAGA
*
11148392 TTTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTAAAAGATG
65 TTTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATG
*
11148444 ATAAGACCTCAGGGCCATCCATAAGAGCTACAGTGCAGGATGTTTTCAAA
1 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
11148494 TGAGATTTTA
Statistics
Matches: 371, Mismatches: 25, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
115 1 0.00
116 265 0.71
117 104 0.28
118 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (116 bp):
ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCATTCGGGAGAT
TTTTGATATTTAAAACCTCCGGGTCATCTGTAAGACCTACAGTGAAAGATG
Found at i:11149900 original size:15 final size:16
Alignment explanation
Indices: 11149882--11149914 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11149872 ACATATATTA
*
11149882 TTTTTTTCTTT-TAAT
1 TTTTTTTATTTATAAT
11149897 TTTTTTTATTTATAAT
1 TTTTTTTATTTATAAT
11149913 TT
1 TT
11149915 AATCATTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTATTTATAAT
Found at i:11150213 original size:23 final size:23
Alignment explanation
Indices: 11150176--11150246 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
11150166 TATTTAATTG
* *
11150176 TAATTTTATTTTGTTTTTATTAT
1 TAATTTAATTATGTTTTTATTAT
**
11150199 TAATTTAGA-TATGTTTAAATTAT
1 TAATTTA-ATTATGTTTTTATTAT
*
11150222 TACTTTAATTAT-TATTTTATTAT
1 TAATTTAATTATGT-TTTTATTAT
11150245 TA
1 TA
11150247 TTATATTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 2 0.05
23 35 0.92
24 1 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (23 bp):
TAATTTAATTATGTTTTTATTAT
Found at i:11151988 original size:16 final size:16
Alignment explanation
Indices: 11151958--11151988 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11151948 AATATTGAAA
*
11151958 CTTGAACTCGAAAAAG
1 CTTGAACTCAAAAAAG
11151974 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
11151989 AATTTAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:11156215 original size:18 final size:18
Alignment explanation
Indices: 11156189--11156225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11156179 TGTTAGTAAT
* *
11156189 ATATTTATATTTTTTTAA
1 ATATATATATGTTTTTAA
11156207 ATATATATATGTTTTTAA
1 ATATATATATGTTTTTAA
11156225 A
1 A
11156226 CATGCAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATATATATATGTTTTTAA
Found at i:11156389 original size:14 final size:14
Alignment explanation
Indices: 11156370--11156415 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
11156360 AGAAATAAAG
11156370 GAAATGATAAAAAT
1 GAAATGATAAAAAT
11156384 GAAATGATAAAAAT
1 GAAATGATAAAAAT
11156398 GAAATGATAAAAAT
1 GAAATGATAAAAAT
11156412 GAAA
1 GAAA
11156416 ATTGAAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (14 bp):
GAAATGATAAAAAT
Found at i:11161095 original size:27 final size:27
Alignment explanation
Indices: 11161065--11161117 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
11161055 ACAATACAAT
*
11161065 TAAACATATACCATGCAATTTAAATTC
1 TAAACATATACCATACAATTTAAATTC
11161092 TAAACATATACCATACAATTTAAATT
1 TAAACATATACCATACAATTTAAATT
11161118 TTAGAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (27 bp):
TAAACATATACCATACAATTTAAATTC
Found at i:11163210 original size:12 final size:12
Alignment explanation
Indices: 11163187--11163217 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
11163177 AATATAATTT
11163187 TAAAAGTTAAAAA
1 TAAAA-TTAAAAA
11163200 TAAAATTAAAAA
1 TAAAATTAAAAA
11163212 TAAAAT
1 TAAAAT
11163218 ATTACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:11163230 original size:22 final size:22
Alignment explanation
Indices: 11163203--11163246 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
11163193 TTAAAAATAA
11163203 AATT-AAAAATAAAATATTACAT
1 AATTAAAAAATAAAATA-TACAT
11163225 AATTAAAAAATAAAATATACAT
1 AATTAAAAAATAAAATATACAT
11163247 TCACTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTAAAAAATAAAATATACAT
Found at i:11163294 original size:7 final size:7
Alignment explanation
Indices: 11163284--11163328 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
11163274 TCTTATCTCA
11163284 TTCTTCC
1 TTCTTCC
11163291 TTCTTCC
1 TTCTTCC
11163298 TTCTTCC
1 TTCTTCC
11163305 TTCTTCC
1 TTCTTCC
*
11163312 TTTTTCC
1 TTCTTCC
11163319 -TC-TCC
1 TTCTTCC
11163324 TTCTT
1 TTCTT
11163329 TTTCTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 3 0.09
6 3 0.09
7 28 0.82
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (7 bp):
TTCTTCC
Found at i:11163761 original size:13 final size:13
Alignment explanation
Indices: 11163743--11163800 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
11163733 GTCATAAATC
*
11163743 TATGACGCACATT
1 TATGACACACATT
*
11163756 TATGACACGCATT
1 TATGACACACATT
*
11163769 CATGACACACATT
1 TATGACACACATT
11163782 TATGACACTA-ATT
1 TATGACAC-ACATT
11163795 TATGAC
1 TATGAC
11163801 GCGCATTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
13 38 0.97
14 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (13 bp):
TATGACACACATT
Found at i:11163807 original size:26 final size:26
Alignment explanation
Indices: 11163743--11163807 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
11163733 GTCATAAATC
*
11163743 TATGACGCACATTTATGACACGCATT
1 TATGACGCACATTTATGACACGAATT
* * *
11163769 CATGACACACATTTATGACACTAATT
1 TATGACGCACATTTATGACACGAATT
*
11163795 TATGACGCGCATT
1 TATGACGCACATT
11163808 GAGCGAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (26 bp):
TATGACGCACATTTATGACACGAATT
Found at i:11163940 original size:84 final size:84
Alignment explanation
Indices: 11163815--11164028 Score: 304
Period size: 84 Copynumber: 2.5 Consensus size: 84
11163805 ATTGAGCGAA
* *
11163815 ATTGAAGCCCCCGTCATAAATGAAGATGGCACACATTTGTGTGTCATAAATTTATGAAACGCATG
1 ATTGAAG-CCCCGTCATAAATGAAGATGACACACATTTGTGTGTCAAAAATTTATGAAACGCATG
*
11163880 TATGACTTACATTGCGTGTC
65 TATGACTTACATTGCGTGCC
* * *
11163900 ATTGAAGCCCCGTCATAAATGAAGTTGACACACATTTGTGTGTCAAAAATTTATGACATGCATGT
1 ATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCAAAAATTTATGAAACGCATGT
*
11163965 ATGACTTATATTGCGTGCC
66 ATGACTTACATTGCGTGCC
* * *
11163984 ATTGAAGCACACGTCATTAAA-AAAGATGACACACATTCGTGTGTC
1 ATTGAAGC-CCCGTCA-TAAATGAAGATGACACACATTTGTGTGTC
11164029 GTGATTGTAT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
84 78 0.67
85 34 0.29
86 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (84 bp):
ATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCAAAAATTTATGAAACGCATGT
ATGACTTACATTGCGTGCC
Found at i:11164052 original size:2 final size:2
Alignment explanation
Indices: 11164045--11164076 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11164035 GTATTTCGTA
11164045 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
11164077 TGTAGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11167362 original size:14 final size:15
Alignment explanation
Indices: 11167343--11167371 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11167333 AATTATAATT
11167343 TAATAGT-TAAAAGA
1 TAATAGTATAAAAGA
11167357 TAATAGTATAAAAGA
1 TAATAGTATAAAAGA
11167372 AAACTCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
TAATAGTATAAAAGA
Found at i:11171896 original size:20 final size:20
Alignment explanation
Indices: 11171859--11171901 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11171849 ATTCCACCAC
* *
11171859 ATGCAACTATATGCTCCTAA
1 ATGCAACTACATGATCCTAA
*
11171879 ATGCATCTACATGATCCTAA
1 ATGCAACTACATGATCCTAA
11171899 ATG
1 ATG
11171902 GGCTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (20 bp):
ATGCAACTACATGATCCTAA
Found at i:11182990 original size:53 final size:54
Alignment explanation
Indices: 11182908--11183015 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 54
11182898 GATGATTGCC
11182908 AAGTTATCTTACTTATCCCCGAATTCTCAATCTATTTTGCCTTAGTACTTTTAAT
1 AAGTTATCTTAC-TATCCCCGAATTCTCAATCTATTTTGCCTTAGTACTTTTAAT
11182963 AAGTTATCTTA-TATCCCCGAATTCTCAATCTATTTTGCCTTAGTACTTTTAAT
1 AAGTTATCTTACTATCCCCGAATTCTCAATCTATTTTGCCTTAGTACTTTTAAT
11183016 TGGTTACACT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 42 0.79
55 11 0.21
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (54 bp):
AAGTTATCTTACTATCCCCGAATTCTCAATCTATTTTGCCTTAGTACTTTTAAT
Found at i:11192462 original size:15 final size:14
Alignment explanation
Indices: 11192442--11192500 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
11192432 GATGAGAAAT
11192442 AATAAATAAATATTA
1 AATAAATAAATA-TA
11192457 AATAAATCAAATGA-A
1 AATAAAT-AAAT-ATA
*
11192472 AAAAAATAAA-ATAA
1 AATAAATAAATAT-A
11192486 AATAAATAAA-ATA
1 AATAAATAAATATA
11192499 AA
1 AA
11192501 AGAATGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 1 0.03
13 3 0.08
14 15 0.39
15 14 0.37
16 4 0.11
17 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:11192482 original size:5 final size:5
Alignment explanation
Indices: 11192445--11192501 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
11192435 GAGAAATAAT
* *
11192445 AAATA AATATT AAAT- AAATC AAATGA AAA-A AAATA AAATA AAAT- AAATA
1 AAATA AA-ATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA
11192494 AAATA AAA
1 AAATA AAA
11192502 GAATGTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 12 0.27
5 26 0.58
6 7 0.16
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:11192492 original size:14 final size:14
Alignment explanation
Indices: 11192442--11192501 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
11192432 GATGAGAAAT
*
11192442 AATAAATAAATATTA
1 AATAAATAAA-ATAA
*
11192457 AATAAATCAAATGAA
1 AATAAATAAAAT-AA
*
11192472 AAAAAATAAAATAA
1 AATAAATAAAATAA
11192486 AATAAATAAAATAA
1 AATAAATAAAATAA
11192500 AA
1 AA
11192502 GAATGTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 19 0.49
15 20 0.51
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:11194759 original size:106 final size:106
Alignment explanation
Indices: 11194629--11195860 Score: 2007
Period size: 106 Copynumber: 11.6 Consensus size: 106
11194619 CTATGGAACC
* * ** * *
11194629 GGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTTTGAAGTTGAACTTGTGTTGTCTCGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
11194694 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
11194735 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
11194800 CCAATA-CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * ** *
11194840 GGGAAGTTGTTTGTTGACAACCAGTTGTCCCTTCGTTTGTGAAGTTGAACTTGCGTTGTCTGGAG
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
11194905 TCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
65 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * *
11194947 GAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
11195012 CCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* *
11195053 GGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
11195118 CCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* *
11195159 GGAAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
11195224 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * * * * *
11195265 AGAAAATTATTTATTGACAACCAGCAGTTCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
11195330 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
11195371 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
11195436 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * * *
11195477 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCTTTAAGTTGAACTTGTGTTGTTTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
11195542 CTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * * *
11195583 GAGAAATTGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGGCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
11195648 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * * *
11195689 GAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
11195754 CCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
66 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * *
11195795 GGGAAGTTGTTTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
1 GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
11195860 C
66 C
11195861 GAACTGGATT
Statistics
Matches: 1055, Mismatches: 69, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
105 65 0.06
106 925 0.88
107 65 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
Found at i:11199537 original size:11 final size:11
Alignment explanation
Indices: 11199517--11199573 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
11199507 GTTAGATGAG
11199517 AAATAATAAAT
1 AAATAATAAAT
*
11199528 AAATATTAAAT
1 AAATAATAAAT
11199539 AAATCAAATGAAA-
1 AAAT--AAT-AAAT
11199552 AAATAAT-AAT
1 AAATAATAAAT
11199562 -AA-AATAAAT
1 AAATAATAAAT
11199571 AAA
1 AAA
11199574 ATAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
8 3 0.08
9 7 0.18
10 2 0.05
11 17 0.45
13 6 0.16
14 3 0.08
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:11199541 original size:15 final size:15
Alignment explanation
Indices: 11199521--11199583 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 15
11199511 GATGAGAAAT
*
11199521 AATAAATAAATATTA
1 AATAAATAAATATAA
* *
11199536 AATAAATCAA-ATGA
1 AATAAATAAATATAA
11199550 AA-AAAT-AATAATAA
1 AATAAATAAAT-ATAA
11199564 AATAAATAAA-ATAA
1 AATAAATAAATATAA
11199578 AATAAA
1 AATAAA
11199584 AGAATATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 2 0.05
13 4 0.10
14 20 0.49
15 13 0.32
16 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAATAAATATAA
Found at i:11199555 original size:28 final size:27
Alignment explanation
Indices: 11199517--11199594 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
11199507 GTTAGATGAG
* *
11199517 AAATAATAAATAAATATTAAATAAATC
1 AAATAAAAAATAAATATTAAATAAATA
*
11199544 AAATGAAAAAAT-AATAATAAAATAAATA
1 AAAT-AAAAAATAAAT-ATTAAATAAATA
*
11199572 AAATAAAATAAAAGAATATTAAA
1 AAATAAAA-AATA-AATATTAAA
11199595 GTTTTGAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 11 0.27
28 22 0.54
29 5 0.12
30 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (27 bp):
AAATAAAAAATAAATATTAAATAAATA
Found at i:11199569 original size:5 final size:5
Alignment explanation
Indices: 11199551--11199584 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
11199541 ATCAAATGAA
11199551 AAAAT AATAAT AAAAT -AAAT AAAAT AAAAT AAAA
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAA
11199585 GAATATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:11200694 original size:2 final size:2
Alignment explanation
Indices: 11200683--11200725 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11200673 TGTTTATTAT
11200683 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
11200724 TA
1 TA
11200726 CACATAAATG
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:11208723 original size:42 final size:42
Alignment explanation
Indices: 11208661--11208741 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
11208651 ACTCATCGAG
* *
11208661 AATCGAAAGTGCTATGCTTCC-TTCTGTTCTACTTTAGACTAA
1 AATCGAAAGTACTATACTTCCTTTC-GTTCTACTTTAGACTAA
11208703 AATCGAAAGTACTATACTTCCTTTCGTTCTACTTTAGAC
1 AATCGAAAGTACTATACTTCCTTTCGTTCTACTTTAGAC
11208742 GATAATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 33 0.92
43 3 0.08
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (42 bp):
AATCGAAAGTACTATACTTCCTTTCGTTCTACTTTAGACTAA
Found at i:11208754 original size:42 final size:42
Alignment explanation
Indices: 11208661--11208754 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
11208651 ACTCATCGAG
* * *
11208661 AATCGAAAGTGCTATGCTTCCTTCTGTTCTACTTTAGACTAA
1 AATCGAAAGTACTATACTTCCTTCTGTTCTACTTTAGACGAA
*
11208703 AATCGAAAGTACTATACTTCCTT-TCGTTCTACTTTAGACGAT
1 AATCGAAAGTACTATACTTCCTTCT-GTTCTACTTTAGACGAA
*
11208745 AATCAAAAGT
1 AATCGAAAGT
11208755 GTTGCTTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (42 bp):
AATCGAAAGTACTATACTTCCTTCTGTTCTACTTTAGACGAA
Found at i:11223196 original size:2 final size:2
Alignment explanation
Indices: 11223189--11223217 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11223179 ACTCACTTAA
11223189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11223218 AATAGTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11227393 original size:134 final size:134
Alignment explanation
Indices: 11227153--11227411 Score: 378
Period size: 134 Copynumber: 1.9 Consensus size: 134
11227143 TGCTTGGCCA
* * ** **
11227153 CTCAGTAGGCACTATTTCAGCTACTTGCCAGTGCTCAATTAATGCATGGTGTTAGTTACTTTTCA
1 CTCAGTAGGCACTATTTCAGCTACTTGCCAATGCTCAATTAATGCATCGTGACAACTACTTTTCA
** *
11227218 GAGGTCATTTATGACAACAATAATGCAATGATTGGCTTATTTTGTTGGACATTTACTGCAAAATA
66 GAGGTCATTTATGACAACAATAATGCAACAATTGGCTTATTTTGTTAGACATTTACTGCAAAATA
11227283 TCAT
131 TCAT
* *
11227287 CTCAGTAGGCACTATTTCAGCTACTTTCCAATGCTCAATTAATGCATCGTGACAACTACTTTTCG
1 CTCAGTAGGCACTATTTCAGCTACTTGCCAATGCTCAATTAATGCATCGTGACAACTACTTTTCA
*
11227352 GAGGTCATTTATTGTA-GA-AATAATGCAACAATTGGCTTATTTTGTTAGACATTTACTGCA
66 GAGGTCATTTA-TG-ACAACAATAATGCAACAATTGGCTTATTTTGTTAGACATTTACTGCA
11227412 TAATTCAAGC
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
134 107 0.96
135 3 0.03
136 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (134 bp):
CTCAGTAGGCACTATTTCAGCTACTTGCCAATGCTCAATTAATGCATCGTGACAACTACTTTTCA
GAGGTCATTTATGACAACAATAATGCAACAATTGGCTTATTTTGTTAGACATTTACTGCAAAATA
TCAT
Found at i:11227894 original size:319 final size:316
Alignment explanation
Indices: 11227305--11227926 Score: 856
Period size: 319 Copynumber: 2.0 Consensus size: 316
11227295 GCACTATTTC
* * * * * *
11227305 AGCTACTTTCCAATGCTCAATTAATGCATCGTGACAACTACTTTTCGGAGGTCATTTATTGTAGA
1 AGCTACTTTCCAATGCTCAAATAATGCACCGTGACAACTACATTTCAGAGGTAATTTATTGCAGA
* ** * *
11227370 AATAATGCAACAATTGGCTTATTTTGTTAGACATTTACTGCATAATTCAAGCAACTTTTCTGAAA
66 AATAATGCAACAATTGACTTATTTTGTTAGACATTTACTAAAAAATTCAAGCAACTTTTCTCAAA
* *
11227435 ACAAGTGAAATAGTAGTGCATTATCATCTTTAACAACTTTTTAGTGATATATCAACTCAAATCAG
131 ACAAGTGAAATAGTAGTGCATTATCATCTTCAACAACTTTTCAGTGATATATCAACTCAAATCAG
* * * *
11227500 ACAACGTGTTTTTAACTCAAGCAAAATAATACACCCTTATAGCTATTGTTCAGTGAAATACGAAC
196 ACAACATATTTTTAACTCAAGCAAAATAATACACCCTTACAGCTATTGTTCAGTGAAATACAAAC
* * * *
11227565 TCACATCTTAAAACTTTTCAGTTTTGAATTATCATTTTAAATAAATTCATTGTTTT
261 TCAAATCTTAAAACCTTTCAGTTTTGAATTATCACTTCAAATAAATTCATTGTTTT
* * * *
11227621 AGCTACTTTCTAGTGCTCAAATAATGCACCGTGTCAGCTACATTTCAGAGGTAATTTATTGCA-A
1 AGCTACTTTCCAATGCTCAAATAATGCACCGTGACAACTACATTTCAGAGGTAATTTATTGCAGA
* * *
11227685 CAATAATGCAACAGTTGACTTATTTTTTTGGACATTTACTAAAAAATTCAAGCAA-TTTT-TCAA
66 -AATAATGCAACAATTGACTTATTTTGTTAGACATTTACTAAAAAATTCAAGCAACTTTTCTCAA
* *
11227748 AACAAATTGAGTGAAATAGTAGTGCATTATCATCTTCGACGACTTTTCAGTGATATATCAACTCA
130 AAC--A---AGTGAAATAGTAGTGCATTATCATCTTCAACAACTTTTCAGTGATATATCAACTCA
* *
11227813 AATCAGACAACATATTTTTGACT-AATGCAAAATAATGCACCCTTACAGCTATTGTTCAGTGAAA
190 AATCAGACAACATATTTTTAACTCAA-GCAAAATAATACACCCTTACAGCTATTGTTCAGTGAAA
*
11227877 TACAAACTCAAATCTTAAAACCTTTCATTTTTGAATTATCACTTCAAATA
254 TACAAACTCAAATCTTAAAACCTTTCAGTTTTGAATTATCACTTCAAATA
11227927 GAAAAATGTA
Statistics
Matches: 266, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
314 6 0.02
315 5 0.02
316 101 0.38
318 2 0.01
319 152 0.57
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (316 bp):
AGCTACTTTCCAATGCTCAAATAATGCACCGTGACAACTACATTTCAGAGGTAATTTATTGCAGA
AATAATGCAACAATTGACTTATTTTGTTAGACATTTACTAAAAAATTCAAGCAACTTTTCTCAAA
ACAAGTGAAATAGTAGTGCATTATCATCTTCAACAACTTTTCAGTGATATATCAACTCAAATCAG
ACAACATATTTTTAACTCAAGCAAAATAATACACCCTTACAGCTATTGTTCAGTGAAATACAAAC
TCAAATCTTAAAACCTTTCAGTTTTGAATTATCACTTCAAATAAATTCATTGTTTT
Found at i:11230972 original size:21 final size:21
Alignment explanation
Indices: 11230948--11231008 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
11230938 AACTTTGAAA
11230948 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
11230969 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
11230983 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
11231004 AAATG
1 AAATG
11231009 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:11231054 original size:36 final size:36
Alignment explanation
Indices: 11230940--11231059 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
11230930 TGGTAACCAA
11230940 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
11230977 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
11231012 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
11231049 -GTTGAAAAATG
1 CTTTGAAAAATG
11231060 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:11235573 original size:21 final size:21
Alignment explanation
Indices: 11235549--11235609 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
11235539 AACTTTGAAA
11235549 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
11235570 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
11235584 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
11235605 AAATG
1 AAATG
11235610 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:11235655 original size:36 final size:36
Alignment explanation
Indices: 11235541--11235660 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
11235531 TGGTAACCAA
11235541 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
11235578 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
11235613 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
11235650 -GTTGAAAAATG
1 CTTTGAAAAATG
11235661 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:11237271 original size:493 final size:493
Alignment explanation
Indices: 11236345--11237321 Score: 1891
Period size: 493 Copynumber: 2.0 Consensus size: 493
11236335 ATCATGCTGC
11236345 AGGGGCAGACACAAGATTTTATGTTGAGGGGGCGAACTTAAACTTAAGGGAGATGACCAAAAATT
1 AGGGGCAGACACAAGATTTTATGTTGAGGGGGCGAACTTAAACTTAAGGGAGATGACCAAAAATT
*
11236410 ACGGGAGGGCAAACTAAAATTCTAGGGGGCGAAATAGATTTTCAATTGGAAATACATAGAAAAAA
66 ACGGGAGGGCAAACTAAAATTCTAGGGGGCGAAACAGATTTTCAATTGGAAATACATAGAAAAAA
11236475 CTTAAACTTAAGGGATTAAACGTTGATAGATTAACATTTGTGCAGCATGTAATTTTGACGTATCA
131 CTTAAACTTAAGGGATTAAACGTTGATAGATTAACATTTGTGCAGCATGTAATTTTGACGTATCA
11236540 TCTTAGTTTTCTTATCTCAGTAATTTACCTGCTGCACTAATTACATGTTACGCTTTTCACACATT
196 TCTTAGTTTTCTTATCTCAGTAATTTACCTGCTGCACTAATTACATGTTACGCTTTTCACACATT
11236605 AACATGCGTGCTCAAGCACAGACAACTGTATATGCAAATATACCGTGCACATGGCATTGTCATTA
261 AACATGCGTGCTCAAGCACAGACAACTGTATATGCAAATATACCGTGCACATGGCATTGTCATTA
11236670 CCTGTTGCCACTTAAAATTGAAGACAGAACATGAATATCATCTGAAACTCAAAGAATTGGTAACA
326 CCTGTTGCCACTTAAAATTGAAGACAGAACATGAATATCATCTGAAACTCAAAGAATTGGTAACA
* * *
11236735 AACACAATCTCATGACAGAAAGTTGAAGCTTCAAACGAATAACACCAACGCATACCGTAAGGAAT
391 AACACAATCTCATGACAGAAAGTTGAAACTTCAAACGAATAACACCAACACATACCGGAAGGAAT
11236800 TTTTATGATTTCTTCATCACAACTAATGTGCAGATTTT
456 TTTTATGATTTCTTCATCACAACTAATGTGCAGATTTT
11236838 AGGGGCAGACACAAGATTTTATGTTGAGGGGGCGAACTTAAACTTAAGGGAGATGACCAAAAATT
1 AGGGGCAGACACAAGATTTTATGTTGAGGGGGCGAACTTAAACTTAAGGGAGATGACCAAAAATT
11236903 ACGGGAGGGCAAACTAAAATTCTAGGGGGCGAAACAGATTTTCAATTGGAAATACATAGAAAAAA
66 ACGGGAGGGCAAACTAAAATTCTAGGGGGCGAAACAGATTTTCAATTGGAAATACATAGAAAAAA
11236968 CTTAAACTTAAGGGATTAAACGTTGATAGATTAACATTTGTGCAGCATGTAATTTTGACGTATCA
131 CTTAAACTTAAGGGATTAAACGTTGATAGATTAACATTTGTGCAGCATGTAATTTTGACGTATCA
11237033 TCTTAGTTTTCTTATCTCAGTAATTTACCTGCTGCACTAATTACATGTTACGCTTTTCACACATT
196 TCTTAGTTTTCTTATCTCAGTAATTTACCTGCTGCACTAATTACATGTTACGCTTTTCACACATT
*
11237098 AACATGCGTGCTCAAGCACAGACAATTGTATATGCAAATATACCGTGCACATGGCATTGTCATTA
261 AACATGCGTGCTCAAGCACAGACAACTGTATATGCAAATATACCGTGCACATGGCATTGTCATTA
* *
11237163 GCTGTTGCCACTTAAAATTGAAGACATAACATGAATATCATCTGAAACTCAAAGAATTGGTAACA
326 CCTGTTGCCACTTAAAATTGAAGACAGAACATGAATATCATCTGAAACTCAAAGAATTGGTAACA
11237228 AACACAATCTCATGACAGAAAGTTGAAACTTCAAACGAATAACACCAACACATACCGGAAGGAAT
391 AACACAATCTCATGACAGAAAGTTGAAACTTCAAACGAATAACACCAACACATACCGGAAGGAAT
11237293 TTTTATGATTTCTTCATCACAACTAATGT
456 TTTTATGATTTCTTCATCACAACTAATGT
11237322 ACTGCCAAGA
Statistics
Matches: 477, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
493 477 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (493 bp):
AGGGGCAGACACAAGATTTTATGTTGAGGGGGCGAACTTAAACTTAAGGGAGATGACCAAAAATT
ACGGGAGGGCAAACTAAAATTCTAGGGGGCGAAACAGATTTTCAATTGGAAATACATAGAAAAAA
CTTAAACTTAAGGGATTAAACGTTGATAGATTAACATTTGTGCAGCATGTAATTTTGACGTATCA
TCTTAGTTTTCTTATCTCAGTAATTTACCTGCTGCACTAATTACATGTTACGCTTTTCACACATT
AACATGCGTGCTCAAGCACAGACAACTGTATATGCAAATATACCGTGCACATGGCATTGTCATTA
CCTGTTGCCACTTAAAATTGAAGACAGAACATGAATATCATCTGAAACTCAAAGAATTGGTAACA
AACACAATCTCATGACAGAAAGTTGAAACTTCAAACGAATAACACCAACACATACCGGAAGGAAT
TTTTATGATTTCTTCATCACAACTAATGTGCAGATTTT
Found at i:11237772 original size:16 final size:16
Alignment explanation
Indices: 11237751--11237783 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11237741 ATGTTAAAAG
11237751 ATATTTATATGATTTA
1 ATATTTATATGATTTA
11237767 ATATTTATATGATTTA
1 ATATTTATATGATTTA
11237783 A
1 A
11237784 ACAAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTTATATGATTTA
Found at i:11240961 original size:33 final size:32
Alignment explanation
Indices: 11240876--11240996 Score: 120
Period size: 32 Copynumber: 3.8 Consensus size: 32
11240866 AAGGGAATAT
* * *
11240876 CTTGGGGCTTGAGAGCCTACCCAAGGGAGTAC
1 CTTGGGGCTTAAGAGCCTACCCAAGGAAGTAA
* *
11240908 CTTAGGGCTTAAGAGCCTACCCAATGAAGTAA
1 CTTGGGGCTTAAGAGCCTACCCAAGGAAGTAA
* **
11240940 CTTGGGGGCCTT-AGAGCCTACCCAAGGAAATTT
1 CTT-GGGG-CTTAAGAGCCTACCCAAGGAAGTAA
*
11240973 CTTGGGGCCTCAA-AGCCTACCCAA
1 CTTGGGG-CTTAAGAGCCTACCCAA
11240997 TGTCACCTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
32 48 0.64
33 24 0.32
34 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (32 bp):
CTTGGGGCTTAAGAGCCTACCCAAGGAAGTAA
Found at i:11246270 original size:32 final size:32
Alignment explanation
Indices: 11246201--11246285 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 32
11246191 CAGATACTAG
***
11246201 CAGTGTTGCATTCAGATAATGCATTGCATAGT
1 CAGTGTTGCATTCAGATAATGCACAACATAGT
* *
11246233 TAGTGTTGCATTCAGATAATTCACAACAGT-GT
1 CAGTGTTGCATTCAGATAATGCACAACA-TAGT
** *
11246265 CAGTGTCACATTTAGATAATG
1 CAGTGTTGCATTCAGATAATG
11246286 TCAAGTAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
32 41 0.98
33 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (32 bp):
CAGTGTTGCATTCAGATAATGCACAACATAGT
Found at i:11252654 original size:37 final size:37
Alignment explanation
Indices: 11252581--11252655 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
11252571 GTTGAAAAAT
* *
11252581 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
11252618 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
11252655 A
1 A
11252656 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:11265394 original size:30 final size:24
Alignment explanation
Indices: 11265328--11265385 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
11265318 GTAATTAGTC
11265328 AACACATGGCTAATCCTAATGAAG
1 AACACATGGCTAATCCTAATGAAG
11265352 AACACATGGCTAATCCTAATGAAG
1 AACACATGGCTAATCCTAATGAAG
11265376 AACACATGGC
1 AACACATGGC
11265386 AGCAGCTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (24 bp):
AACACATGGCTAATCCTAATGAAG
Found at i:11275376 original size:18 final size:18
Alignment explanation
Indices: 11275339--11275382 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11275329 CAAGGTTGAT
*
11275339 GACCCCGGTGTAGCCGAC
1 GACCCCGGTGTAGCCAAC
*
11275357 GACCCCGGTGTAGTCAAC
1 GACCCCGGTGTAGCCAAC
11275375 GAGCCCCG
1 GA-CCCCG
11275383 CGCCATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.18, C:0.39, G:0.32, T:0.11
Consensus pattern (18 bp):
GACCCCGGTGTAGCCAAC
Found at i:11275522 original size:36 final size:37
Alignment explanation
Indices: 11275480--11275549 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
11275470 TTATTTTTAA
**
11275480 AATTATTAATTTACTTTTTA-TTTATTTTTTTAATAC
1 AATTATTAATTTACTTTGAATTTTATTTTTTTAATAC
* *
11275516 AATTATTATTTTTCTTTGAATTTTATTTTTTTAA
1 AATTATTAATTTACTTTGAATTTTATTTTTTTAA
11275550 AATTTTATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (37 bp):
AATTATTAATTTACTTTGAATTTTATTTTTTTAATAC
Found at i:11275755 original size:23 final size:23
Alignment explanation
Indices: 11275704--11275759 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
11275694 GTCACCTCTC
*
11275704 TATTTTTTTAATTTAAAACTTAAAT
1 TATTTTTATAATTTAAAA--TAAAT
11275729 TATTTTTATAATTTAAAA-AAAT
1 TATTTTTATAATTTAAAATAAAT
11275751 ATATTTTTA
1 -TATTTTTA
11275760 ATGGCGATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 8 0.28
25 17 0.59
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTTTATAATTTAAAATAAAT
Found at i:11276073 original size:29 final size:30
Alignment explanation
Indices: 11276041--11276104 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
11276031 CCCATTAAAT
11276041 CATTTTC-AAAATTAATTTGGAATCTATGG
1 CATTTTCTAAAATTAATTTGGAATCTATGG
*
11276070 CA-TTTCTAAAATTAATTTGGGATCTATGG
1 CATTTTCTAAAATTAATTTGGAATCTATGG
*
11276099 TATTTT
1 CATTTT
11276105 TTACAGTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.13
29 24 0.77
30 3 0.10
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
CATTTTCTAAAATTAATTTGGAATCTATGG
Found at i:11277730 original size:85 final size:85
Alignment explanation
Indices: 11277619--11277776 Score: 262
Period size: 85 Copynumber: 1.9 Consensus size: 85
11277609 TTTTTCTCTA
* * * *
11277619 AAACGTCGTAGTACGTGTTGATGTTTTGTGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAT
1 AAACGCCGCAGTACGTGTTGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAATAGGTATTGAT
11277684 GTTTTGCGGCGTTTTCCCAC
66 GTTTTGCGGCGTTTTCCCAC
* *
11277704 AAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTATTGAT
1 AAACGCCGCAGTACGTGTTGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAATAGGTATTGAT
11277769 GTTTTGCG
66 GTTTTGCG
11277777 ACATTTTTGC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (85 bp):
AAACGCCGCAGTACGTGTTGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAATAGGTATTGAT
GTTTTGCGGCGTTTTCCCAC
Found at i:11277797 original size:43 final size:43
Alignment explanation
Indices: 11277594--11277776 Score: 262
Period size: 43 Copynumber: 4.3 Consensus size: 43
11277584 CAATAAGTTA
** * * *
11277594 TGATGTTTAACGGCGTTTTTCTCTA-AAACGTCGTAGTACGTGT
1 TGATGTTTTGCGGCGTTTTTCTC-ACAAACGCCGCAGTAGGTGT
* *
11277637 TGATGTTTTGTGGCGTTTTTCTCACAAACGCCGCAATAGGTGT
1 TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTGT
*
11277680 TGATGTTTTGCGGCG-TTTTCCCACAAACGCCGCAGTAGGTGT
1 TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTGT
*
11277722 TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTAT
1 TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTGT
11277765 TGATGTTTTGCG
1 TGATGTTTTGCG
11277777 ACATTTTTGC
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 41 0.33
43 85 0.67
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (43 bp):
TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGCAGTAGGTGT
Found at i:11278263 original size:21 final size:21
Alignment explanation
Indices: 11278237--11278286 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11278227 TACTTCCGTA
*
11278237 GCTGCTCTGGCTGCGT-TCGCT
1 GCTGCTCTGGATGCGTCT-GCT
*
11278258 GCTGCTCTGGATGCGTCTGTT
1 GCTGCTCTGGATGCGTCTGCT
11278279 GCTGCTCT
1 GCTGCTCT
11278287 CTCTGCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.30, G:0.32, T:0.36
Consensus pattern (21 bp):
GCTGCTCTGGATGCGTCTGCT
Found at i:11280234 original size:42 final size:42
Alignment explanation
Indices: 11280140--11280225 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
11280130 TTATAATAGT
*
11280140 TTACGATGTTTGTAAACCAAACGCCACCACATGCCAACTCTA
1 TTACGACGTTTGTAAACCAAACGCCACCACATGCCAACTCTA
* * *
11280182 TTACGACGTTTGTAAACCAAACGCCACTATATTCCAACTCTA
1 TTACGACGTTTGTAAACCAAACGCCACCACATGCCAACTCTA
11280224 TT
1 TT
11280226 GTGGCGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (42 bp):
TTACGACGTTTGTAAACCAAACGCCACCACATGCCAACTCTA
Found at i:11282494 original size:41 final size:41
Alignment explanation
Indices: 11282442--11282595 Score: 125
Period size: 41 Copynumber: 3.8 Consensus size: 41
11282432 CAAAAAAATT
* * * *
11282442 CCACAATTGATT-GCACTATTATGGCGTTTGTT-AAAACAACG
1 CCACTATTGATTAACACTATTACGACGTTT-TTCAAAA-AACG
* *
11282483 CCACTATTGATTAAAACTATTACGACGTTTTTCTAAAAACG
1 CCACTATTGATTAACACTATTACGACGTTTTTCAAAAAACG
* * * *
11282524 CCACTATTGATTAACACTATTGC-AGCGTTTGTCTAAAAATG
1 CCACTATTGATTAACACTATTACGA-CGTTTTTCAAAAAACG
* * * * *
11282565 CCACTATTTATTATCATTATTGCGGCGTTTT
1 CCACTATTGATTAACACTATTACGACGTTTT
11282596 AGGAATAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 77 0.82
42 16 0.17
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (41 bp):
CCACTATTGATTAACACTATTACGACGTTTTTCAAAAAACG
Found at i:11282646 original size:42 final size:40
Alignment explanation
Indices: 11282582--11282781 Score: 149
Period size: 42 Copynumber: 4.8 Consensus size: 40
11282572 TTATTATCAT
* *
11282582 TATTGCGGCGTTT-TAGGAATAAATGCCACTATATGTGTAATC
1 TATTGCGGCGTTTGT-GGTATAAACGCCACTATAT-T-TAATC
****
11282624 TATTGCGGCGTTTGTGGTATAAACATTGCTA-ATTTACCGATC
1 TATTGCGGCGTTTGTGGTATAAACGCCACTATATTTA---ATC
*
11282666 TATTGCGGTGTTT-TGGCTA-AAACGCCACTATATATTAATC
1 TATTGCGGCGTTTGTGG-TATAAACGCCACTATAT-TTAATC
* * *
11282706 TATTGTGGCGTTTGTGGTATAAACGCCGCTA-ATTTACCACCC
1 TATTGCGGCGTTTGTGGTATAAACGCCACTATATTTA--A-TC
* * *
11282748 TATTGCGGCGTTTGTTGTAAAAACGCCGCTATAT
1 TATTGCGGCGTTTGTGGTATAAACGCCACTATAT
11282782 GTCAACTCTA
Statistics
Matches: 127, Mismatches: 18, Indels: 25
0.75 0.11 0.15
Matches are distributed among these distances:
39 5 0.04
40 19 0.15
41 26 0.20
42 71 0.56
43 6 0.05
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (40 bp):
TATTGCGGCGTTTGTGGTATAAACGCCACTATATTTAATC
Found at i:11282769 original size:82 final size:84
Alignment explanation
Indices: 11282582--11282781 Score: 232
Period size: 82 Copynumber: 2.4 Consensus size: 84
11282572 TTATTATCAT
* *
11282582 TATTGCGGCGTTTTAGG--AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTATA
1 TATTGCGGCGTTTT-GGCTAA-AAACGCCACTATATATGTAATCTATTGCGGCGTTTGTGGTATA
** *
11282645 AACATTGCTAATTTACCGATC
64 AACACCGCTAATTTACCGACC
* *
11282666 TATTGCGGTGTTTTGGCT-AAAACGCCACTATATAT-TAATCTATTGTGGCGTTTGTGGTATAAA
1 TATTGCGGCGTTTTGGCTAAAAACGCCACTATATATGTAATCTATTGCGGCGTTTGTGGTATAAA
*
11282729 CGCCGCTAATTTACC-ACCC
66 CACCGCTAATTTACCGA-CC
* *
11282748 TATTGCGGCGTTTGTTG-TAAAAACGCCGCTATAT
1 TATTGCGGCGTTT-TGGCTAAAAACGCCACTATAT
11282782 GTCAACTCTA
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
81 1 0.01
82 53 0.53
83 32 0.32
84 14 0.14
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (84 bp):
TATTGCGGCGTTTTGGCTAAAAACGCCACTATATATGTAATCTATTGCGGCGTTTGTGGTATAAA
CACCGCTAATTTACCGACC
Done.