Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_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: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 21
Found at i:1753695 original size:19 final size:19
Alignment explanation
Indices: 1753673--1753823 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
1753663 CGAAACTAAA
1753673 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1753692 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1753707 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
1753725 TTCGCATTACGA---T-A-
1 TTCGCGTTGCGATTTTCAT
* * *
1753739 CTCTCGTTCCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1753758 TTCGCATTGCGA---T-A-
1 TTCGCGTTGCGATTTTCAT
* *
1753772 CTCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
1753791 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
1753810 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1753824 AGACATTAAG
Statistics
Matches: 91, Mismatches: 25, Indels: 31
0.62 0.17 0.21
Matches are distributed among these distances:
14 25 0.27
15 2 0.02
16 5 0.05
17 5 0.05
18 2 0.02
19 42 0.46
20 10 0.11
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1753719 original size:33 final size:33
Alignment explanation
Indices: 1753677--1753804 Score: 211
Period size: 33 Copynumber: 3.9 Consensus size: 33
1753667 ACTAAATTCG
* * *
1753677 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATACTCT
*
1753710 CGTTGCGATTTTCATTTCGCATTACGATACTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATACTCT
*
1753743 CGTTCCGATTTTCATTTCGCATTGCGATACTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATACTCT
1753776 CGTTGCGATTTTCATTTCGCATTGCGATA
1 CGTTGCGATTTTCATTTCGCATTGCGATA
1753805 GTCATTTCCG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATACTCT
Found at i:1753822 original size:20 final size:20
Alignment explanation
Indices: 1753776--1753869 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
1753766 GCGATACTCT
**
1753776 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
1753795 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
1753815 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
1753834 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
1753856 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
1753870 AATGAATGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1756401 original size:24 final size:24
Alignment explanation
Indices: 1756350--1756401 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1756340 ATCTGAGTAT
** *
1756350 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1756374 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1756398 TGAC
1 TGAC
1756402 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1757273 original size:20 final size:20
Alignment explanation
Indices: 1757250--1757367 Score: 96
Period size: 20 Copynumber: 5.8 Consensus size: 20
1757240 AGAATCTCGT
1757250 TGCGATTTAC-TAAATCACAA
1 TGCGA-TTACGTAAATCACAA
*
1757270 TGCGATTACGTAAATCGA-AG
1 TGCGATTACGTAAATC-ACAA
* * *
1757290 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCACAA
*
1757311 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCACAA
* * *
1757331 TGCTAATTAGGAAAATCACAA
1 TGC-GATTACGTAAATCACAA
* *
1757352 TGCAAATACGTAAATC
1 TGCGATTACGTAAATC
1757368 GCAACGCGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
19 4 0.05
20 43 0.54
21 32 0.41
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (20 bp):
TGCGATTACGTAAATCACAA
Found at i:1757305 original size:21 final size:21
Alignment explanation
Indices: 1757261--1757394 Score: 114
Period size: 21 Copynumber: 6.5 Consensus size: 21
1757251 GCGATTTACT
* * *
1757261 AAATCACAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
1757281 AAATCG-AAGTGCGAATTAGGA
1 AAATCGCAA-TGCGAATTAGGA
* *
1757302 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
*
1757322 AAATCGCAATGCTAATTAGGA
1 AAATCGCAATGCGAATTAGGA
* * * *
1757343 AAATCACAATGC-AAATACGT
1 AAATCGCAATGCGAATTAGGA
* * *
1757363 AAATCGCAACGCGAATTTGGG
1 AAATCGCAATGCGAATTAGGA
1757384 AAATCGCAATG
1 AAATCGCAATG
1757395 TGATGGTCAG
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.02
20 41 0.46
21 45 0.50
22 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATCGCAATGCGAATTAGGA
Found at i:1757313 original size:41 final size:41
Alignment explanation
Indices: 1757261--1757394 Score: 180
Period size: 41 Copynumber: 3.3 Consensus size: 41
1757251 GCGATTTACT
1757261 AAATCACAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCACAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
* *
1757302 AAATCGCAATGCGATTACGTAAATCGCAATGCTAATTAGGA
1 AAATCACAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * * * *
1757343 AAATCACAATGCAAATACGTAAATCGCAACGCGAATTTGGG
1 AAATCACAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
1757384 AAATCGCAATG
1 AAATCACAATG
1757395 TGATGGTCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 80 0.98
42 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (41 bp):
AAATCACAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:1773502 original size:20 final size:20
Alignment explanation
Indices: 1773477--1773521 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1773467 ATTCGCAACA
1773477 CGATTATGACTATCACAATG
1 CGATTATGACTATCACAATG
*
1773497 CGATTATGACTATCGCAATG
1 CGATTATGACTATCACAATG
1773517 CGATT
1 CGATT
1773522 TTCCAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (20 bp):
CGATTATGACTATCACAATG
Found at i:1773560 original size:21 final size:21
Alignment explanation
Indices: 1773509--1773561 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1773499 ATTATGACTA
1773509 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1773530 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1773551 TCGCAATGCGA
1 TCGCAATGCGA
1773562 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1773642 original size:21 final size:21
Alignment explanation
Indices: 1773608--1773680 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
1773598 ATACTGACTA
* *
1773608 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
1773629 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
1773649 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
1773670 TCGCAATGCGA
1 TCGCAATGCGA
1773681 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:1773695 original size:20 final size:20
Alignment explanation
Indices: 1773670--1773781 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
1773660 TTTTCATAAT
1773670 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
1773690 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1773710 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1773731 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1773751 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
1773771 TCGCAATGCGA
1 TCGCAATGCGA
1773782 TTTACATAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1773701 original size:41 final size:41
Alignment explanation
Indices: 1773536--1773789 Score: 143
Period size: 41 Copynumber: 6.3 Consensus size: 41
1773526 AATTTCGCGT
** * *
1773536 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCATAAATCGCAATGCGAATACGTAAATCGCAA
** *
1773577 TGC---TTGGA-AAATCGCAATGCG-ATAC-TGACTATCGCAA
1 TGCGATTTTCATAAATCGCAATGCGAATACGT-A-AATCGCAA
* * * * * * **
1773614 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCATAAATCGCAATGCGA-ATACGTAAATCGCAA
*
1773655 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCATAAATCGCAATGCGAATACGTAAATCGCAA
* * * *
1773696 CGCGA--TTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCA-TAAATCGCAATGCGAA-TACGTAAATCGCAA
* * * * *
1773737 TGCGA-ATACGTAAATCGCAATGCGAAT-CTTACTATCGCAA
1 TGCGATTTTCATAAATCGCAATGCGAATACGTA-AATCGCAA
*
1773777 TGCGATTTACATA
1 TGCGATTTTCATA
1773790 GCGCCATTCG
Statistics
Matches: 160, Mismatches: 38, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
35 1 0.01
36 4 0.03
37 22 0.14
38 2 0.01
39 4 0.03
40 35 0.22
41 87 0.54
42 1 0.01
43 3 0.02
44 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCGATTTTCATAAATCGCAATGCGAATACGTAAATCGCAA
Found at i:1774544 original size:12 final size:12
Alignment explanation
Indices: 1774527--1774551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1774517 TCTTCGGGGA
1774527 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1774539 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1774551 C
1 C
1774552 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:1774760 original size:24 final size:24
Alignment explanation
Indices: 1774726--1774779 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1774716 CTGAAACATC
* *
1774726 ATCAAAATCCGATTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
1774750 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1774774 ATCAAA
1 ATCAAA
1774780 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1775666 original size:40 final size:40
Alignment explanation
Indices: 1775582--1775667 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
1775572 ATACTGACTT
* ***
1775582 TCGCAACGCGATACTGACTTTCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
*
1775622 TCGCAACGCGATTCTGACTTTCGCAACGAGATTCTGAAAA
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
1775662 TCGCAA
1 TCGCAA
1775668 TCATCTTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
Found at i:1775667 original size:20 final size:20
Alignment explanation
Indices: 1775562--1775658 Score: 167
Period size: 20 Copynumber: 4.8 Consensus size: 20
1775552 TAATACAAAA
*
1775562 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
1775582 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
1775602 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
1775622 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
1775642 TCGCAACGAGATTCTGA
1 TCGCAACGCGATTCTGA
1775659 AAATCGCAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:1777209 original size:40 final size:42
Alignment explanation
Indices: 1777165--1777255 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1777155 CCTCTTCAAC
*
1777165 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
1777205 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
1777247 GATGACAGG
1 GATGACAGG
1777256 TGAGTCGGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.44
41 3 0.07
42 22 0.49
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:1777220 original size:21 final size:21
Alignment explanation
Indices: 1777191--1777251 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1777181 TGAACGGTGG
*
1777191 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
1777212 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
1777233 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
1777252 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:1777642 original size:20 final size:20
Alignment explanation
Indices: 1777619--1777692 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1777609 AAACTTACTT
1777619 TCGCAACGCAAAAATGACTA
1 TCGCAACGCAAAAATGACTA
**
1777639 TCGCAACGCGGAAATGACTA
1 TCGCAACGCAAAAATGACTA
** **
1777659 TCGCAACGCGGAAATGAAAA
1 TCGCAACGCAAAAATGACTA
1777679 TCGCAACGACAAAA
1 TCGCAACG-CAAAA
1777693 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 44 0.94
21 3 0.06
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.12
Consensus pattern (20 bp):
TCGCAACGCAAAAATGACTA
Found at i:1777643 original size:40 final size:40
Alignment explanation
Indices: 1777599--1777685 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
1777589 TAGTTTACTT
* * **
1777599 TCGCAACAC-GAAACTTACTTTCGCAACGCAAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCAAAAATGAAAA
* **
1777639 TCGCAACGCGGAAATGACTATCGCAACGCGGAAATGAAAA
1 TCGCAACACGGAAATGACTATCGCAACGCAAAAATGAAAA
1777679 TCGCAAC
1 TCGCAAC
1777686 GACAAAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.16
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCAAAAATGAAAA
Found at i:1777734 original size:19 final size:19
Alignment explanation
Indices: 1777712--1777806 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
1777702 GAAACACAAA
1777712 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1777731 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1777747 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1777764 TCGCATTGCGA---T--TT
1 TCGCATTGCGATTTTCATT
1777778 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1777795 TCGCATTGCGAT
1 TCGCATTGCGAT
1777807 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 3, Indels: 24
0.69 0.03 0.27
Matches are distributed among these distances:
12 6 0.10
14 11 0.18
15 4 0.07
16 5 0.08
17 9 0.15
18 3 0.05
19 23 0.38
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1777785 original size:31 final size:32
Alignment explanation
Indices: 1777717--1777806 Score: 155
Period size: 31 Copynumber: 2.8 Consensus size: 32
1777707 ACAAATCGCA
*
1777717 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGA-TTTGTCG
1777750 TTGCGATTTTCATTTCGCATTGCGATTT-TCG
1 TTGCGATTTTCATTTCGCATTGCGATTTGTCG
1777781 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1777807 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 29 0.52
32 3 0.05
33 24 0.43
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTTGTCG
Found at i:1777825 original size:20 final size:19
Alignment explanation
Indices: 1777791--1777845 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1777781 TTGCGATTTT
*
1777791 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1777810 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1777830 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1777846 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1778389 original size:18 final size:18
Alignment explanation
Indices: 1778366--1778413 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1778356 CGGGTCGATC
1778366 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
1778384 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
1778402 AGGTGATGGCTC
1 AGGTGATGGCTC
1778414 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:1779495 original size:200 final size:195
Alignment explanation
Indices: 1779099--1779504 Score: 665
Period size: 200 Copynumber: 2.0 Consensus size: 195
1779089 TTATTCAATA
1779099 ATATCGTCAGGTTTCCACGTGTAGATTCAGCCTCTCCAGCTCAGGAAAAACCCAGGATAACCATG
1 ATATCGTCAGGTTTCCACGTGTAGATTCAGCCTCTCCAGCTCAGGAAAAACCCAGGATAACCATG
1779164 ATGGCGGGTAATGTGTCTAGTGTACCGACTACATCATCGTGTCCGAAGCGTAGACCAGTGATTAA
66 ATGGCGGGTAA---GTCTAGTGTACCGACTACATCATCGTGTCCGAAGCGTAGACCAGTGATTAA
1779229 GCAAAACTCCTCCCGCCCAAAACACGTATACGCCGGTGGAAAATCAAACCATCTCTTCATGACGT
128 GCAAAA--CCTCCCGCCCAAAACACGTATACGCCGGTGGAAAATCAAACCATCTCTTCATGACGT
1779294 TGTAT
191 TGTAT
1779299 ATATCGTCAGGTTTTCCACGTGTAGATTCAGCCTCTCCAGCTCAGG-AAAACCCAGGATAACCAT
1 ATATCGTCAGG-TTTCCACGTGTAGATTCAGCCTCTCCAGCTCAGGAAAAACCCAGGATAACCAT
1779363 GATGGGCGGGTAA-TCTAGTGTACCGACCTACATCATCGTGTCCGAAGCGTAGACCAGTGATTAA
65 GAT-GGCGGGTAAGTCTAGTGTACCGA-CTACATCATCGTGTCCGAAGCGTAGACCAGTGATTAA
1779427 GCAAAA-CTCCCGCCCAAAACACGTATACGCCGGTGGAAAATCAAACCATATCTCTTCATCATGA
128 GCAAAACCTCCCGCCCAAAACACGTATACGCCGGTGGAAAATCAAACC--ATCTC-T--TCATGA
1779491 CGTTGTAT
188 CGTTGTAT
1779499 AGTATC
1 A-TATC
1779505 TGGTAGATCC
Statistics
Matches: 197, Mismatches: 0, Indels: 17
0.92 0.00 0.08
Matches are distributed among these distances:
195 41 0.21
197 18 0.09
198 44 0.22
200 47 0.24
201 47 0.24
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (195 bp):
ATATCGTCAGGTTTCCACGTGTAGATTCAGCCTCTCCAGCTCAGGAAAAACCCAGGATAACCATG
ATGGCGGGTAAGTCTAGTGTACCGACTACATCATCGTGTCCGAAGCGTAGACCAGTGATTAAGCA
AAACCTCCCGCCCAAAACACGTATACGCCGGTGGAAAATCAAACCATCTCTTCATGACGTTGTAT
Found at i:1779920 original size:20 final size:20
Alignment explanation
Indices: 1779895--1779937 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1779885 AATAGTTTCT
1779895 GAAAATGAAAACCGCAACAC
1 GAAAATGAAAACCGCAACAC
* * *
1779915 GAAAATGACAATCGCAACGC
1 GAAAATGAAAACCGCAACAC
1779935 GAA
1 GAA
1779938 TTTGACTATC
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:0.51, C:0.23, G:0.19, T:0.07
Consensus pattern (20 bp):
GAAAATGAAAACCGCAACAC
Found at i:1780418 original size:41 final size:40
Alignment explanation
Indices: 1780324--1780436 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 40
1780314 GTTGCGAAAT
* **
1780324 CGTTGCGAAAGTCAGTATTGCGTTGCGAAATTAAGTATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAGTATCG
* * *
1780364 AGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTT-AAGTATCG
* *
1780405 CGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
1780437 CCAAATTTGC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 28 0.44
41 35 0.56
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (40 bp):
CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAGTATCG
Found at i:1780433 original size:20 final size:20
Alignment explanation
Indices: 1780324--1780432 Score: 112
Period size: 20 Copynumber: 5.4 Consensus size: 20
1780314 GTTGCGAAAT
*
1780324 CGTTGCGAAAGTCAGTATTG
1 CGTTGCGAAAGTCAGTATCG
* *
1780344 CGTTGCGAAATTAAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
1780364 AGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** *
1780384 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
1780405 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
1780425 CATTGCGA
1 CGTTGCGA
1780433 TTTTCCAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.04
20 54 0.74
21 14 0.19
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:1780450 original size:21 final size:21
Alignment explanation
Indices: 1780422--1780536 Score: 169
Period size: 21 Copynumber: 5.5 Consensus size: 21
1780412 ATAGTCAGTA
1780422 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
1780443 TTGCATTGCAATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1780464 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
1780485 TCGCATTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
1780506 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
1780526 TCGCATTGCGA
1 TCGCATTGCGA
1780537 ATTAGGAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
20 16 0.19
21 69 0.81
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1780551 original size:41 final size:42
Alignment explanation
Indices: 1780421--1780551 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
1780411 GATAGTCAGT
* * * *
1780421 ATCGCATTGCGATTTTCCAAATTTGCATTGC-AATTTTCCAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAA-TTACGAAA
* * * * *
1780463 TTCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCTAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACGAAA
* ** *
1780505 TTCGCATTGCGA-TTTACTTATTCGCATTGCGAATTAGGAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACGAAA
1780546 ATCGCA
1 ATCGCA
1780552 ACGCGAAATT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 27 0.36
42 48 0.63
43 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (42 bp):
ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACGAAA
Found at i:1780578 original size:21 final size:22
Alignment explanation
Indices: 1780526--1780578 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1780516 ATTTACTTAT
1780526 TCGCATTGCG-AATTAGGAAAA
1 TCGCATTGCGAAATTAGGAAAA
**
1780547 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTAGGAAAA
1780568 TCGCATTGCGA
1 TCGCATTGCGA
1780579 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTAGGAAAA
Found at i:1783496 original size:130 final size:130
Alignment explanation
Indices: 1783355--1783602 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
1783345 TATTTATATA
*
1783355 ATCAATTTGGTCCTAAATTAAAGAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1783420 TTAGCACATGATCTTGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
1783485 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
1783550 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
1783603 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1783633 original size:130 final size:129
Alignment explanation
Indices: 1783369--1783633 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
1783359 ATTTGGTCCT
* * *
1783369 AAATTAAAGAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCT
1 AAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
1783434 TGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
1783499 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
1783564 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1783628 -A
128 CA
1783629 AAATT
1 AAATT
1783634 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAAGAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1783955 original size:28 final size:26
Alignment explanation
Indices: 1783924--1783984 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1783914 AGTTGATACA
*
1783924 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTT-AAA-AATAAATTTAAGAATT
* * *
1783952 ATATTTTTAAACTAAATTTAATAATT
1 ATATTTTAAAAATAAATTTAAGAATT
1783978 ATATTTT
1 ATATTTT
1783985 TCATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTTTAAAAATAAATTTAAGAATT
Found at i:1784085 original size:16 final size:18
Alignment explanation
Indices: 1784064--1784097 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1784054 ATTTCTTATT
1784064 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1784080 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1784098 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1784244 original size:21 final size:21
Alignment explanation
Indices: 1784220--1784262 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1784210 TATTACCTTA
1784220 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1784241 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1784262 A
1 A
1784263 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:1784280 original size:35 final size:35
Alignment explanation
Indices: 1784231--1784316 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1784221 ATTGAAGTAT
** * *
1784231 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
1784266 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
1784301 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
1784317 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:1788433 original size:2 final size:2
Alignment explanation
Indices: 1788428--1788452 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1788418 ATATATATAT
1788428 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1788453 TGCGTGTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1799114 original size:62 final size:60
Alignment explanation
Indices: 1798942--1799115 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 60
1798932 CATCTCCAAT
* * * *
1798942 CTATAACTCTCAT-TTTAAATTGGTCTTTAAACTTTTGAATATTCCAGTTTCATCCCTAAA
1 CTATGACTCTC-TCTTTAAATTGGTCCTTAAACTTTTGAATATTCCAATTTCACCCCTAAA
* * * **
1799002 TTATG--TCTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCTTATTTCACCCCTAAA
1 CTATGACTCTCTC-TT-TAAATTGGTCCTTAAACTTTTGAATATTCCAATTTCACCCCTAAA
* * *
1799062 CTATGACACTCTCTCTTTAACTTGGTCCCTAAAGTTTTGAATATTCCAATTTCA
1 CTATG--ACTCTCTCTTTAAATTGGTCCTTAAACTTTTGAATATTCCAATTTCA
1799116 TCATCAAATT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
58 4 0.04
59 2 0.02
60 45 0.50
62 30 0.33
63 2 0.02
64 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (60 bp):
CTATGACTCTCTCTTTAAATTGGTCCTTAAACTTTTGAATATTCCAATTTCACCCCTAAA
Found at i:1799340 original size:60 final size:60
Alignment explanation
Indices: 1799247--1799361 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
1799237 GTATACACAT
**
1799247 ATAGTTTGGGATGAAACTGAAATGTTCAAAAAGTTTGGGGACTAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAACTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATGAAGGTC
* * *
1799307 ATAGTTTGGGGATGAAATTTAAATGTT-TAAAAGTTTAAGGACTAATTTAGAATGA
1 ATAGTTT-GGGATGAAACTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATGA
1799362 TAATCATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 32 0.65
61 17 0.35
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAACTGAAATGTTCAAAAAGTTTAAGGACTAATTTAGAATGAAGGTC
Found at i:1801265 original size:20 final size:22
Alignment explanation
Indices: 1801242--1801286 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1801232 TGAGTTGGGT
*
1801242 TTTAGGGATTT-AGGTTAA-GA
1 TTTAGAGATTTGAGGTTAAGGA
*
1801262 TTTAGAGATTTGAGTTTAAGGA
1 TTTAGAGATTTGAGGTTAAGGA
1801284 TTT
1 TTT
1801287 TGGAGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 6 0.29
22 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (22 bp):
TTTAGAGATTTGAGGTTAAGGA
Found at i:1805577 original size:44 final size:42
Alignment explanation
Indices: 1805505--1805602 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 42
1805495 GAACAAAAAA
* *
1805505 TATTATGGGTAAGTTATGGGCTGCTGACAGAAAATATTATGGGC
1 TATTATGAGTAAGTTATGGACTGCTGACAG--AATATTATGGGC
* * *
1805549 TATTATGAGTTAGTTATGGACTGTTGACAGAATATTATGGGT
1 TATTATGAGTAAGTTATGGACTGCTGACAGAATATTATGGGC
1805591 TAGTTATGAGTA
1 TA-TTATGAGTA
1805603 TATTATTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 13 0.28
43 8 0.17
44 26 0.55
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.37
Consensus pattern (42 bp):
TATTATGAGTAAGTTATGGACTGCTGACAGAATATTATGGGC
Found at i:1821924 original size:21 final size:21
Alignment explanation
Indices: 1821898--1821966 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
1821888 CAGTCGCTTG
*
1821898 TCGTCCGCCGTCCTCCGGCCA
1 TCGTCCGCCGTCCTCCGACCA
*
1821919 TCGTCCGCCGTCCTCCAACCA
1 TCGTCCGCCGTCCTCCGACCA
* * *
1821940 CCGTTCGCCGTCTTCCGACCA
1 TCGTCCGCCGTCCTCCGACCA
1821961 TCGTCC
1 TCGTCC
1821967 ACCGCCGCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.09, C:0.51, G:0.19, T:0.22
Consensus pattern (21 bp):
TCGTCCGCCGTCCTCCGACCA
Found at i:1828630 original size:29 final size:29
Alignment explanation
Indices: 1828570--1828630 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1828560 TTCTCTTATA
* *
1828570 AGATTCATTTTTCCATATAACTAAGGACT
1 AGATTCATTTTTCCAGATAACTAAAGACT
* * *
1828599 AGATTCATTTTTTCAGATAATTAAAGATT
1 AGATTCATTTTTCCAGATAACTAAAGACT
1828628 AGA
1 AGA
1828631 AAGAATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (29 bp):
AGATTCATTTTTCCAGATAACTAAAGACT
Found at i:1837329 original size:2 final size:2
Alignment explanation
Indices: 1837322--1837366 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1837312 GTGATTTGAT
1837322 TA TA TA 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
1837364 TA T
1 TA T
1837367 TTTCATCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1838082 original size:24 final size:25
Alignment explanation
Indices: 1838036--1838082 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1838026 TCTTCATTAT
1838036 ATTTCAATTATAATATATTAAAAAA
1 ATTTCAATTATAATATATTAAAAAA
*
1838061 ATTTCATTTA-AATGAT-TTAAAA
1 ATTTCAATTATAAT-ATATTAAAA
1838083 TATAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTTCAATTATAATATATTAAAAAA
Found at i:1838349 original size:2 final size:2
Alignment explanation
Indices: 1838342--1838367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1838332 TTAACATAAT
1838342 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
1838368 CTGCTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1840276 original size:16 final size:16
Alignment explanation
Indices: 1840264--1840410 Score: 56
Period size: 16 Copynumber: 9.1 Consensus size: 16
1840254 ATTTTATATA
1840264 TATTTTATATTATTAT
1 TATTTTATATTATTAT
* *
1840280 TATTTTTTATTTACTTCGT
1 TATTTTATA-TTA-TT-AT
*
1840299 ATATATTATA-TATTAT
1 -TATTTTATATTATTAT
*
1840315 TATTTTA-CTTA-TAT
1 TATTTTATATTATTAT
*
1840329 GTATATTATA-TATATAT
1 -TATTTTATATTAT-TAT
* *
1840346 TATGTATATATT-TT-G
1 TAT-TTTATATTATTAT
*
1840361 TATTTTATCTTATTAT
1 TATTTTATATTATTAT
** *
1840377 TCCTTTACT-TTTTTAT
1 TATTTTA-TATTATTAT
*
1840393 TATTTTATTTTCATTAT
1 TATTTTATATT-ATTAT
1840410 T
1 T
1840411 TAGTTTTTCT
Statistics
Matches: 94, Mismatches: 21, Indels: 31
0.64 0.14 0.21
Matches are distributed among these distances:
14 9 0.10
15 22 0.23
16 31 0.33
17 19 0.20
18 5 0.05
19 1 0.01
20 7 0.07
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTTTATATTATTAT
Found at i:1840317 original size:28 final size:27
Alignment explanation
Indices: 1840268--1840348 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
1840258 TATATATATT
*
1840268 TTATAT-TATTAT-TATTTTTTATTTAC
1 TTATATATATTATATA-TTATTATTTAC
*
1840294 TTCGTATATATTATATATTATTATTTTAC
1 TT-ATATATATTATATATTATTA-TTTAC
1840323 TTATATGTATATTATATATATATTAT
1 TTATA--TATATTATATAT-TATTAT
1840349 GTATATATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 13 0.29
29 9 0.20
30 13 0.29
31 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
TTATATATATTATATATTATTATTTAC
Found at i:1840353 original size:11 final size:11
Alignment explanation
Indices: 1840298--1840357 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
1840288 ATTTACTTCG
1840298 TATATATTATA
1 TATATATTATA
1840309 TAT-TATTAT-
1 TATATATTATA
1840318 T-T-TACTTATA
1 TATATA-TTATA
*
1840328 TGTATATTATA
1 TATATATTATA
*
1840339 TATATATTATG
1 TATATATTATA
1840350 TATATATT
1 TATATATT
1840358 TTGTATTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 3 0.07
9 5 0.12
10 7 0.16
11 26 0.60
12 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (11 bp):
TATATATTATA
Found at i:1840362 original size:11 final size:11
Alignment explanation
Indices: 1840297--1840363 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
1840287 TATTTACTTC
1840297 GTATATATTAT
1 GTATATATTAT
*
1840308 ATAT-TATTAT
1 GTATATATTAT
1840318 -T-T-TACTTAT
1 GTATATA-TTAT
* *
1840327 ATGTATATTAT
1 GTATATATTAT
*
1840338 ATATATATTAT
1 GTATATATTAT
*
1840349 GTATATATTTT
1 GTATATATTAT
1840360 GTAT
1 GTAT
1840364 TTTATCTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 3 0.06
9 5 0.10
10 7 0.15
11 31 0.65
12 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:1841775 original size:14 final size:15
Alignment explanation
Indices: 1841756--1841786 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1841746 TCCTTTACCA
1841756 TTTATTTTT-TTTAT
1 TTTATTTTTATTTAT
1841770 TTTATTTTTATTTAT
1 TTTATTTTTATTTAT
1841785 TT
1 TT
1841787 CTAGTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTATTTTTATTTAT
Found at i:1852344 original size:94 final size:94
Alignment explanation
Indices: 1852183--1852733 Score: 735
Period size: 94 Copynumber: 5.8 Consensus size: 94
1852173 AATTTCAGAG
* * *
1852183 CCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCATGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
1852248 GGGACCGCTGGTTGTCAATAAACAATTTC
66 GGGACCGCTGGTTGTCAATAAACAATTTC
**
1852277 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
* ** ***
1852342 GGGACCGATGACTGTCAACTTCTCAA-TTC
66 GGGACCGCTGGTTGTCAA-TAAACAATTTC
* * *
1852371 AGAGCCGATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGA
* *
1852436 TGAAGGGACCGCTGGTTGACAATAAACAATTTC
62 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
* **
1852469 CCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
* ** ***
1852534 GGGACCGATGACTGTCAACTTCTCAATTTC
66 GGGACCGCTGGTTGTCAA-TAAACAATTTC
* *
1852564 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGA
*
1852629 CGAAGGGACCGCTGGTTGACAATAAACAATTTC
62 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
**
1852662 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
1852727 GGGACCG
66 GGGACCG
1852734 ATGAGCCAAT
Statistics
Matches: 392, Mismatches: 54, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
94 218 0.56
95 12 0.03
97 4 0.01
98 84 0.21
99 74 0.19
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (94 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAATTTC
Found at i:1852417 original size:192 final size:193
Alignment explanation
Indices: 1852077--1852737 Score: 1144
Period size: 192 Copynumber: 3.4 Consensus size: 193
1852067 AAATTCAGAT
* * *
1852077 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
* **
1852142 GGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACCGATGACTGT-------CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
1852207 ATATTGGACTCTAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
124 ATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGACAATAAACA
1852272 ATTTC
189 ATTTC
1852277 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
*
1852342 GGGACCGATGACTGTCAACTTCTCAA-TTCAGAGCCGATTTCAACTTCACAACGAAGGATATTGG
66 GGGACCGATGACTGTCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1852406 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGACAATAAACAATTTC
131 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGACAATAAACAATTTC
*
1852469 CCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1852534 GGGACCGATGACTGTCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 GGGACCGATGACTGTCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1852599 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGACAATAAACAATTTC
131 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGACAATAAACAATTTC
1852662 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1852727 GGGACCGATGA
66 GGGACCGATGA
1852738 GCCAATTTCA
Statistics
Matches: 444, Mismatches: 16, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
192 186 0.42
193 184 0.41
200 74 0.17
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (193 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
GGGACCGATGACTGTCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGACAATAAACAATTTC
Found at i:1852789 original size:77 final size:77
Alignment explanation
Indices: 1852662--1852810 Score: 262
Period size: 77 Copynumber: 1.9 Consensus size: 77
1852652 AAACAATTTC
**
1852662 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
1852727 GGGACCGATGAG
66 GGGACCGATGAG
* *
1852739 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
1852804 GGGACCG
66 GGGACCG
1852811 CTGGTTGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (77 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
GGGACCGATGAG
Found at i:1852850 original size:171 final size:171
Alignment explanation
Indices: 1852565--1852904 Score: 653
Period size: 171 Copynumber: 2.0 Consensus size: 171
1852555 CTCAATTTCA
*
1852565 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
1852630 GAAGGGACCGCTGGTTGACAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGAC
66 GAAGGGACCGCTGGTTGACAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGAC
1852695 TCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGAT
131 TCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGAT
1852736 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
1852801 GAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAATGAAGGATATTGGAC
66 GAAGGGACCGCTGGTTGACAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGAC
1852866 TCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCG
131 TCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCG
1852905 CTGACTGTCA
Statistics
Matches: 166, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (171 bp):
GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGGTTGACAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGAC
TCAAGACAGTACAAGTTCAACTTCACGACGAAGGGACCGAT
Found at i:1852900 original size:94 final size:94
Alignment explanation
Indices: 1852739--1853147 Score: 374
Period size: 106 Copynumber: 4.1 Consensus size: 94
1852729 GACCGATGAG
* * *
1852739 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
** *
1852804 GGGACCGCTGGTTGTCAATAAACAATTTC
66 GGGACCGCTGACTGTCAAAAAACAATTTC
* *
1852833 CCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
1852898 GGGACCGCTGACTGTCAACAAACAACTTCTCAATTTC
66 GGGACCGCTGACTGTC-A-AAA-AA-----CAATTTC
* * * *
1852935 AGAGCCTATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGTTTAACTTCACGA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGA
*
1853000 CGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATGAC
62 CGAAGGGACCGCTGACTGTCAAAAAACAA--T-T---T--C
* * *
1853041 AGAGCCAATTTCAACTTCAC-ACAGAAGGTTATTGGACTCAAGACAGCAAAAGCTCAACTTCAC-
1 ----CCAATTTCAACTTCACAAC-GAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
* **
1853104 AGCGAAGGG-GCGACTGACTGTCAACGAACAATTTC
61 A-CGAAGGGACCG-CTGACTGTCAAAAAACAATTTC
*
1853139 TCAATTTCA
1 CCAATTTCA
1853148 TAACCAATTC
Statistics
Matches: 267, Mismatches: 25, Indels: 46
0.79 0.07 0.14
Matches are distributed among these distances:
94 82 0.31
95 1 0.00
96 2 0.01
97 2 0.01
98 4 0.01
100 2 0.01
101 1 0.00
102 7 0.03
103 3 0.01
104 4 0.01
105 5 0.02
106 154 0.58
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (94 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
GGGACCGCTGACTGTCAAAAAACAATTTC
Found at i:1853021 original size:106 final size:105
Alignment explanation
Indices: 1852833--1853162 Score: 457
Period size: 106 Copynumber: 3.1 Consensus size: 105
1852823 AAACAATTTC
* *
1852833 CCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCAC-ACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
1852898 GGGACCGCTGACTGTCAACAAACAACTTCTCAATTTCAGAG
65 GGGACCGCTGACTGTCAACAAACAACTTCTCAATTTCAGAG
* * *
1852939 CCTATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGTTTAACTTCACGACGAA
1 CCAATTTCAACTTCACA-CGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAA
**
1853004 GGGACCGCTGACTGTCAACAAACAACTTCTCAATGACAGAG
65 GGGACCGCTGACTGTCAACAAACAACTTCTCAATTTCAGAG
* * *
1853045 CCAATTTCAACTTCACACAGAAGGTTATTGGACTCAAGACAGCAAAAGCTCAACTTCAC-AGCGA
1 CCAATTTCAACTTCACAC-GAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGA-CGA
* * * * *
1853109 AGGG-GCGACTGACTGTCAACGAACAATTTCTCAATTTCATAA
64 AGGGACCG-CTGACTGTCAACAAACAACTTCTCAATTTCAGAG
*
1853151 CCAATTCCAACT
1 CCAATTTCAACT
1853163 GCACGAACAG
Statistics
Matches: 199, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
105 5 0.03
106 194 0.97
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (105 bp):
CCAATTTCAACTTCACACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
GGACCGCTGACTGTCAACAAACAACTTCTCAATTTCAGAG
Found at i:1854850 original size:18 final size:18
Alignment explanation
Indices: 1854798--1854888 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 18
1854788 TATATATATA
*
1854798 TATATTGTATTTTATCTTAT
1 TATATT-TATTTT-TATTAT
1854818 TATTACTTTACTTTTTATTAT
1 TA-TA-TTTA-TTTTTATTAT
*
1854839 TATATTTATTTTCATTAT
1 TATATTTATTTTTATTAT
*
1854857 T-TAGTTT-TTCTAGTATTAT
1 TATA-TTTATT-T-TTATTAT
*
1854876 TATATATATTTTT
1 TATATTTATTTTT
1854889 TTCCTCTCTC
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
17 4 0.07
18 15 0.26
19 13 0.23
20 8 0.14
21 11 0.19
22 6 0.11
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TATATTTATTTTTATTAT
Found at i:1857428 original size:35 final size:35
Alignment explanation
Indices: 1857388--1857465 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
1857378 CATACGGGAA
1857388 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1857423 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1857458 CATACGAG
1 CATACGAG
1857466 TGCGAGCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (35 bp):
CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
Found at i:1857489 original size:41 final size:41
Alignment explanation
Indices: 1857444--1857575 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
1857434 ATGGTTCTCC
1857444 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
* * *** **
1857485 CCATGCAGT--G-G-AATAGAGAGGTCGTTCTCCCCATGCGAGGTCC
1 CCATGCA-TACGAGCCATA-CGA-GT-G--CGAGCCATGCGAGGTGG
1857528 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1857569 CCATGCA
1 CCATGCA
1857576 GTGGAATAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 3 0.04
41 27 0.40
42 2 0.03
43 20 0.30
44 3 0.04
45 3 0.04
46 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (41 bp):
CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
Found at i:1857521 original size:43 final size:43
Alignment explanation
Indices: 1857472--1857635 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
1857462 CGAGTGCGAG
1857472 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
** * * ***
1857515 CCATGCGAGGTCCCCATGCA-TACGAGCCATA-CGA-GT-G--CGAG
1 CCATGCGAGGTGGCCATGCAGT--G-G-AATAGAGAGGTCGTTCTCC
1857556 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
1857599 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCG
1 CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCG
1857636 CCATGCAGCC
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 3 0.03
41 20 0.21
42 2 0.02
43 57 0.59
44 3 0.03
45 3 0.03
46 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.35, T:0.18
Consensus pattern (43 bp):
CCATGCGAGGTGGCCATGCAGTGGAATAGAGAGGTCGTTCTCC
Found at i:1857582 original size:84 final size:84
Alignment explanation
Indices: 1857441--1857618 Score: 338
Period size: 84 Copynumber: 2.1 Consensus size: 84
1857431 CCAATGGTTC
1857441 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1857506 TCGTTCTCCCCATGCGAGG
66 TCGTTCTCCCCATGCGAGG
1857525 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1 TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
1857590 TCGTTCTCCCCATGCGAGG
66 TCGTTCTCCCCATGCGAGG
**
1857609 TGGCCATGCA
1 TCCCCATGCA
1857619 GTGGAATAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (84 bp):
TCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGAGAGG
TCGTTCTCCCCATGCGAGG
Found at i:1857680 original size:29 final size:29
Alignment explanation
Indices: 1857630--1857738 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
1857620 TGGAATAGAG
* *
1857630 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
1857659 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
* *
1857688 AGGTCGCCATGTACTCCCGGCGACCTTAT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1857717 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
1857739 CCATTCCCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 72 0.97
30 2 0.03
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:1857757 original size:13 final size:13
Alignment explanation
Indices: 1857739--1857770 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1857729 AGTCCCGGCG
*
1857739 CCATTCCCATCGT
1 CCATTCCCATCAT
1857752 CCATTCCCATCAT
1 CCATTCCCATCAT
1857765 CCATTC
1 CCATTC
1857771 ACATGCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.47, G:0.03, T:0.31
Consensus pattern (13 bp):
CCATTCCCATCAT
Found at i:1857787 original size:23 final size:23
Alignment explanation
Indices: 1857757--1857803 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1857747 ATCGTCCATT
1857757 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
1857780 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
1857803 C
1 C
1857804 ATATAGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.45, G:0.09, T:0.21
Consensus pattern (23 bp):
CCCATCATCCATTCACATGCAGC
Found at i:1857952 original size:25 final size:25
Alignment explanation
Indices: 1857924--1857975 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1857914 TGTACAATTA
*
1857924 TTGGTGAAATAATTAAGGCAGTCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
*
1857949 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
1857974 TT
1 TT
1857976 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TTGGTGAAATAATTAAGGCAGCCGG
Found at i:1858016 original size:23 final size:23
Alignment explanation
Indices: 1857988--1858033 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1857978 AAAAGAAAGA
1857988 AAGAAAGGGAGAAGAGATTGTAG
1 AAGAAAGGGAGAAGAGATTGTAG
*
1858011 AAGAAAGGGAGAAGTGATTGTAG
1 AAGAAAGGGAGAAGAGATTGTAG
1858034 CCGAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.15
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGTAG
Found at i:1858046 original size:4 final size:4
Alignment explanation
Indices: 1858037--1858094 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
1858027 ATTGTAGCCG
** **
1858037 AGAA AGAA AGAA AGGG AGAA AGGAA AGAA AGAA AGAA AGGG AGAA AGGAA
1 AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A-GAA
*
1858087 AGTA AGAA
1 AGAA AGAA
1858095 GAATTCGAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 34 0.81
5 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:1858064 original size:17 final size:16
Alignment explanation
Indices: 1858036--1858067 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1858026 GATTGTAGCC
1858036 GAGAAAGAAAGAAAGG
1 GAGAAAGAAAGAAAGG
1858052 GAGAAAGGAAAGAAAG
1 GAGAAA-GAAAGAAAG
1858068 AAAGAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAGAAAGG
Found at i:1858065 original size:25 final size:25
Alignment explanation
Indices: 1858037--1858094 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
1858027 ATTGTAGCCG
1858037 AGAAAGAAAGAAAGGGAGAAAGGAA
1 AGAAAGAAAGAAAGGGAGAAAGGAA
1858062 AGAAAGAAAGAAAGGGAGAAAGGAA
1 AGAAAGAAAGAAAGGGAGAAAGGAA
*
1858087 AGTAAGAA
1 AGAAAGAA
1858095 GAATTCGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAGAAAGGGAGAAAGGAA
Found at i:1858360 original size:45 final size:47
Alignment explanation
Indices: 1858298--1858388 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
1858288 TTATATAGTT
1858298 AAAAAATAATTAATTAGTTTGTATT-GTT-AATAGTT-AGTTATATA
1 AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
* *
1858342 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
1858389 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 6 0.15
45 17 0.41
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (47 bp):
AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
Found at i:1860770 original size:17 final size:17
Alignment explanation
Indices: 1860748--1860780 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1860738 CAATGATTTT
*
1860748 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
1860765 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
1860781 GATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:1861019 original size:12 final size:13
Alignment explanation
Indices: 1860982--1861474 Score: 219
Period size: 12 Copynumber: 36.8 Consensus size: 13
1860972 AAATAATAAC
*
1860982 TAAATAATTATTA
1 TAAATCATTATTA
1860995 TAAAATCATTATTA
1 T-AAATCATTATTA
*
1861009 T-AATGATTATTA
1 TAAATCATTATTA
1861021 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
1861040 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
1861057 TAAATCATTA-T-
1 TAAATCATTATTA
*
1861068 TAAATCATTTTTA
1 TAAATCATTATTA
*
1861081 T-AATGATTATTA
1 TAAATCATTATTA
1861093 CTAAATCATTATTA
1 -TAAATCATTATTA
*
1861107 T-AATGATTATTA
1 TAAATCATTATTA
*
1861119 TCAAATCATTACTA
1 T-AAATCATTATTA
*
1861133 T-AATGATTATTA
1 TAAATCATTATTA
1861145 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
1861164 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
1861181 TAAATCATTA-T-
1 TAAATCATTATTA
1861192 TAAATCATTATTA
1 TAAATCATTATTA
*
1861205 T-AATGATTATTA
1 TAAATCATTATTA
*
1861217 TCAAATCATTACTA
1 T-AAATCATTATTA
*
1861231 T-AATGATTATTA
1 TAAATCATTATTA
1861243 TCAAATCATTACTAAATCA
1 T-AAATCATTA-T---T-A
*
1861262 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
1861279 TAAATCATTA-T-
1 TAAATCATTATTA
*
1861290 TAAATCATTTTTA
1 TAAATCATTATTA
*
1861303 T-AATGATTATTAA
1 TAAATCATTATT-A
1861316 TAAATCATTATTA
1 TAAATCATTATTA
*
1861329 T-AATGATTATTA
1 TAAATCATTATTA
*
1861341 TCAAATCATTACTA
1 T-AAATCATTATTA
*
1861355 T-AATGATTATTA
1 TAAATCATTATTA
*
1861367 TCAAATCATTA--C
1 T-AAATCATTATTA
*
1861379 TAAAT-ATTTGTTCA
1 TAAATCA-TTATT-A
*
1861393 TTAA--A-TATT-
1 TAAATCATTATTA
1861402 TAAATCATTA-T-
1 TAAATCATTATTA
1861413 TAAATCATTATTA
1 TAAATCATTATTA
*
1861426 T-AATGATTATTA
1 TAAATCATTATTA
*
1861438 TCAAATCATTACTA
1 T-AAATCATTATTA
*
1861452 T-AATGATTATTA
1 TAAATCATTATTA
1861464 TCAAATCATTA
1 T-AAATCATTA
1861475 CTAAATCATC
Statistics
Matches: 377, Mismatches: 44, Indels: 117
0.70 0.08 0.22
Matches are distributed among these distances:
9 3 0.01
10 1 0.00
11 49 0.13
12 122 0.32
13 12 0.03
14 112 0.30
15 3 0.01
16 24 0.06
17 3 0.01
18 9 0.02
19 33 0.09
20 3 0.01
21 3 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
TAAATCATTATTA
Found at i:1861026 original size:26 final size:26
Alignment explanation
Indices: 1860988--1861474 Score: 393
Period size: 26 Copynumber: 19.7 Consensus size: 26
1860978 TAACTAAATA
*
1860988 ATTATTATAAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
1861014 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
1861039 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
1861060 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
1861086 ATTATTA-CTAAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
1861112 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
1861138 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
1861163 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* *
1861184 ATCATTATTAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
1861210 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
1861236 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
1861261 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
1861282 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
1861308 ATTATTAAT-AAATCATTATTATAATG
1 ATTATT-ATCAAATCATTATTATAATG
*
1861334 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
1861360 ATTATTATCAAATCATTACTA-AAT-
1 ATTATTATCAAATCATTATTATAATG
* * *
1861384 ATTTGTTCATTAAAT-A-T-TTA-AATC
1 A-TTATT-ATCAAATCATTATTATAATG
1861408 ATTA-T-T-AAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
1861431 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
1861457 ATTATTATCAAATCATTA
1 ATTATTATCAAATCATTA
1861475 CTAAATCATC
Statistics
Matches: 373, Mismatches: 56, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.01
20 2 0.01
21 13 0.03
22 10 0.03
23 57 0.15
24 22 0.06
25 29 0.08
26 233 0.62
27 3 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATTATCAAATCATTATTATAATG
Found at i:1861099 original size:98 final size:96
Alignment explanation
Indices: 1860982--1861351 Score: 391
Period size: 98 Copynumber: 3.8 Consensus size: 96
1860972 AAATAATAAC
*
1860982 TAAATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTA-AATCATCAAAT
1 TAAATCATTATTAT-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATCAT--AAT
*
1861046 CATTAAAT-ATT-TAAATCAT-T-ATTAAATCATTTT
63 CATCAAATCATTATAAATCATATCATTAAAT-A--TT
* * * *
1861079 TATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATT
1 TA-AATCATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATTACTATAATCATAATC
1861144 ATCAAATCATTACTAAATCATCAAATCATTAAATATT
64 ATCAAATCATTA-TAAATCAT---ATCATTAAATATT
* * *
1861181 TAAATCATTA-T-TAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTAT
1 TAAATCATTATTATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATCATAATCAT
1861244 CAAATCATTACTAAATCATCAAATCATTAAATATT
66 CAAATCATTA-TAAATCAT---ATCATTAAATATT
* * * * *
1861279 TAAATCATTA-T-TAAATCATTTTTATAATGATTATTAAT-AAATCATTATTATAATGATTATTA
1 TAAATCATTATTATAAATCATTATTATAATGATTATT-ATCAAATCATTACTATAATCATAATCA
1861341 TCAAATCATTA
65 TCAAATCATTA
1861352 CTATAATGAT
Statistics
Matches: 253, Mismatches: 8, Indels: 23
0.89 0.03 0.08
Matches are distributed among these distances:
97 10 0.04
98 206 0.81
99 8 0.03
100 9 0.04
101 7 0.03
102 4 0.02
104 2 0.01
105 7 0.03
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (96 bp):
TAAATCATTATTATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATCATAATCAT
CAAATCATTATAAATCATATCATTAAATATT
Found at i:1861135 original size:124 final size:124
Alignment explanation
Indices: 1860980--1861477 Score: 557
Period size: 124 Copynumber: 4.0 Consensus size: 124
1860970 CTAAATAATA
* * *
1860980 ACTA-AATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
*
1861044 ATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTA-CTAAATCATT
66 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATC-AAATCATT
*
1861103 ATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
1 ACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
1861168 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
66 ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
* * * *
1861227 ACTATAATGATTATTATCAAATCATTACTA-AATCATCAAATCATTAAAT-ATT--TAAATCAT-
1 ACTATAATGATTATTATCAAATCATTACTATAATGAT--TATTATCAAATCATTACTAAATCATC
*
1861287 ---T-ATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATTATCAAATC
64 AAATCATTAAAT-A--TTTA-AATCATTA-T--TAAATCATTATTATAATGATTATTATCAAATC
1861348 ATT
122 ATT
* *
1861351 ACTATAATGATTATTATCAAATCATTACTA-AAT-ATTTGTTCATTAAAT-ATT--TAAATCATT
1 ACTATAATGATTATTATCAAATCATTACTATAATGA-TTATT-ATCAAATCATTACTAAATC---
* * * * *
1861411 ATTAAATCATT--AT-TATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
61 ATCAAATCATTAAATATTTAA--ATCATTATTAAATCATTATTATAATGATTATTATCAAATCAT
1861473 T
124 T
1861474 ACTA
1 ACTA
1861478 AATCATCAAA
Statistics
Matches: 334, Mismatches: 18, Indels: 46
0.84 0.05 0.12
Matches are distributed among these distances:
117 7 0.02
118 2 0.01
120 4 0.01
121 7 0.02
122 10 0.03
123 62 0.19
124 215 0.64
125 13 0.04
126 8 0.02
129 2 0.01
130 1 0.00
131 3 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (124 bp):
ACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAA
ATCATTAAATATTTAAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATT
Found at i:1861352 original size:98 final size:98
Alignment explanation
Indices: 1861089--1861354 Score: 489
Period size: 98 Copynumber: 2.7 Consensus size: 98
1861079 TATAATGATT
*
1861089 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1861154 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
1861187 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1861252 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
* *
1861285 ATTATTAAATCATTTTTATAATGATTATTAAT-AAATCATTATTATAATGATTATTATCAAATCA
1 ATTATTAAATCATTATTATAATGATTATT-ATCAAATCATTACTATAATGATTATTATCAAATCA
1861349 TTACTA
65 TTACTA
1861355 TAATGATTAT
Statistics
Matches: 164, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 162 0.99
99 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (98 bp):
ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATC
Found at i:1861440 original size:97 final size:98
Alignment explanation
Indices: 1861311--1861532 Score: 383
Period size: 97 Copynumber: 2.3 Consensus size: 98
1861301 TATAATGATT
*
1861311 ATTAATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
****
1861376 TACTAAAT-ATTTGTTCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
1861408 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1861473 TACTAAATCATCAAATCATTAAATATTTAAATC
66 TACTAAATCATCAAATCATTAAATATTTAAATC
*
1861506 ATTATTAAATCATTTTTATAATGATTA
1 ATTATTAAATCATTATTATAATGATTA
1861533 ATAAATACAT
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 72 0.61
98 46 0.39
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (98 bp):
ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATC
Found at i:1861489 original size:71 final size:69
Alignment explanation
Indices: 1861339--1861493 Score: 190
Period size: 71 Copynumber: 2.2 Consensus size: 69
1861329 TAATGATTAT
* *
1861339 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTGTTCATTAAATATTTA
1 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTATTCATCAAATATTTA
1861404 AATC
66 AATC
* *
1861408 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA-TTATT-ATCAAATC
1 --TATCAAATCATTACTATAATGATTATTATCAAATCATTACTA-AAT-ATTTATTCATCAAAT-
1861471 ATTACTAAATC
61 ATT--TAAATC
1861482 -ATCAAATCATTA
1 TATCAAATCATTA
1861494 AATATTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
71 57 0.77
72 10 0.14
73 1 0.01
74 6 0.08
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.43
Consensus pattern (69 bp):
TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATATTTATTCATCAAATATTTA
AATC
Found at i:1863662 original size:26 final size:24
Alignment explanation
Indices: 1863604--1863662 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
1863594 CTAATAAACC
*
1863604 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
1863628 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
1863656 TAATAAT
1 TAATAAT
1863663 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:1864441 original size:41 final size:44
Alignment explanation
Indices: 1864396--1864505 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 44
1864386 GTTTAAAGAC
*
1864396 ACTAACAAATTAATTAATATTTTTTATAT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTTTTATATATATATATAACTTAA
*
1864437 ACTAAGAAACTAATTAACTAATTTTTTATATAATAATATATAACTTAA
1 ACTAACAAACTAATTAA-T-ATTTTTTATAT-AT-ATATATAACTTAA
*
1864485 ACTAATAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
1864506 AACTTAAACT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
41 15 0.26
42 1 0.02
43 11 0.19
45 1 0.02
47 4 0.07
48 23 0.40
49 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (44 bp):
ACTAACAAACTAATTAATATTTTTTATATATATATATAACTTAA
Found at i:1864499 original size:28 final size:28
Alignment explanation
Indices: 1864467--1864534 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
1864457 ATTTTTTATA
*
1864467 TAATAATATATAACTTAAACTAATAAAC
1 TAATAATATATAACTTAAACTAACAAAC
*
1864495 TAAT-ATAATATAACTTAAACTTACAAAC
1 TAATAAT-ATATAACTTAAACTAACAAAC
*
1864523 TAATAATTTATA
1 TAATAATATATA
1864535 CTAACAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (28 bp):
TAATAATATATAACTTAAACTAACAAAC
Found at i:1864895 original size:32 final size:32
Alignment explanation
Indices: 1864859--1864922 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1864849 GGAATCTCTG
1864859 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
1864891 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
1864923 GCAGGACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
AGCTATGAGCTATGATGCAACGCATGCATGCA
Found at i:1865052 original size:51 final size:52
Alignment explanation
Indices: 1864995--1865099 Score: 194
Period size: 51 Copynumber: 2.0 Consensus size: 52
1864985 CCATGCACAG
1864995 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCAC-CCCATGCA
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACGCCCATGCA
1865046 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACGTCCCATGCA
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACG-CCCATGCA
1865099 T
1 T
1865100 CCCCTCCCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 43 0.83
53 9 0.17
ACGTcount: A:0.19, C:0.51, G:0.09, T:0.21
Consensus pattern (52 bp):
TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACGCCCATGCA
Found at i:1865094 original size:17 final size:16
Alignment explanation
Indices: 1865023--1865194 Score: 127
Period size: 17 Copynumber: 10.4 Consensus size: 16
1865013 CATCCCCTCC
1865023 CCCATGCATTCCCAC-
1 CCCATGCATTCCCACT
1865038 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
* *
1865055 CCAATGCACCATCCC-CT
1 CCCATGCA--TTCCCACT
1865072 CCCCCATGCATTCCCACGT
1 --CCCATGCATTCCCAC-T
* * *
1865091 CCCATGCATCCCCTCC
1 CCCATGCATTCCCACT
1865107 CCCATGCATTCCCACAT
1 CCCATGCATTCCCAC-T
* * *
1865124 CCCATG-TTGATCCCTCC
1 CCCATGCAT--TCCCACT
1865141 CCCATGCATTCCCAC-
1 CCCATGCATTCCCACT
* * *
1865156 CCCATGCATCCCCTCC
1 CCCATGCATTCCCACT
1865172 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
1865189 CCCATG
1 CCCATG
1865195 TTGATTGCAT
Statistics
Matches: 123, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
15 28 0.23
16 32 0.26
17 43 0.35
18 8 0.07
19 12 0.10
ACGTcount: A:0.17, C:0.52, G:0.09, T:0.22
Consensus pattern (16 bp):
CCCATGCATTCCCACT
Found at i:1865106 original size:33 final size:33
Alignment explanation
Indices: 1865023--1865194 Score: 226
Period size: 33 Copynumber: 5.2 Consensus size: 33
1865013 CATCCCCTCC
* *
1865023 CCCATGCATTCCC-ACCCCATGCATTCCCACGT
1 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
*
1865055 CCAATGCACCATCCCCTCCCCCATGCATTCCCACGT
1 CCCATG---CATCCCCTCCCCCATGCATTCCCACGT
*
1865091 CCCATGCATCCCCTCCCCCATGCATTCCCACAT
1 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
*
1865124 CCCATGTTGAT-CCCTCCCCCATGCATTCCCAC--
1 CCCATG--CATCCCCTCCCCCATGCATTCCCACGT
1865156 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
1 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
1865189 CCCATG
1 CCCATG
1865195 TTGATTGCAT
Statistics
Matches: 124, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.02
31 21 0.17
32 11 0.09
33 38 0.31
34 21 0.17
35 8 0.06
36 23 0.19
ACGTcount: A:0.17, C:0.52, G:0.09, T:0.22
Consensus pattern (33 bp):
CCCATGCATCCCCTCCCCCATGCATTCCCACGT
Found at i:1865110 original size:16 final size:16
Alignment explanation
Indices: 1865017--1865184 Score: 126
Period size: 16 Copynumber: 10.2 Consensus size: 16
1865007 ATGCACCATC
1865017 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
*
1865033 CCC-ACCCCATGCATT
1 CCCTCCCCCATGCATT
* * * *
1865048 CCCACGTCCAATGCACCATC
1 CCCTC-CCCCATG---CATT
1865068 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
* * *
1865084 CCCACGTCCCATGCATC
1 CCCTC-CCCCATGCATT
1865101 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
* * *
1865117 CCCACATCCCATG-TTGAT
1 CCCTC-CCCCATGCAT--T
1865135 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
* *
1865151 CCC-ACCCCATGCATC
1 CCCTCCCCCATGCATT
1865166 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
1865182 CCC
1 CCC
1865185 ACGTCCCATG
Statistics
Matches: 116, Mismatches: 25, Indels: 22
0.71 0.15 0.13
Matches are distributed among these distances:
15 27 0.23
16 41 0.35
17 30 0.26
18 6 0.05
19 5 0.04
20 7 0.06
ACGTcount: A:0.17, C:0.54, G:0.08, T:0.21
Consensus pattern (16 bp):
CCCTCCCCCATGCATT
Found at i:1865176 original size:65 final size:66
Alignment explanation
Indices: 1865022--1865199 Score: 252
Period size: 65 Copynumber: 2.7 Consensus size: 66
1865012 CCATCCCCTC
* * * ***
1865022 CCCCATGCATTCCC-ACCCCATGCATTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCC
1 CCCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATG-TTGATCCCCTCCCCCATGCATTCC
1865086 CA
65 CA
*
1865088 CGTCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGAT-CCCTCCCCCATGCATTC
1 C--CCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATCCCCTCCCCCATGCATTC
1865152 CCA
64 CCA
1865155 CCCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGAT
1 CCCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGAT
1865200 TGCATGCATC
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
65 43 0.43
66 1 0.01
67 21 0.21
68 14 0.14
69 22 0.22
ACGTcount: A:0.17, C:0.51, G:0.09, T:0.22
Consensus pattern (66 bp):
CCCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATCCCCTCCCCCATGCATTCCC
A
Found at i:1865213 original size:44 final size:44
Alignment explanation
Indices: 1865158--1865249 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
1865148 ATTCCCACCC
1865158 CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
1 CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
1865202 CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
1 CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
1865246 CATG
1 CATG
1865250 TCCCATGTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.16, C:0.42, G:0.14, T:0.27
Consensus pattern (44 bp):
CATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTG
Found at i:1865254 original size:18 final size:18
Alignment explanation
Indices: 1865231--1865267 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1865221 GCATTCCCAC
1865231 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
1865249 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
1865267 G
1 G
1865268 GCCCTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (18 bp):
GTCCCATGTTGATTGCAT
Found at i:1865322 original size:29 final size:29
Alignment explanation
Indices: 1865289--1865377 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
1865279 TAATACACAC
1865289 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
1865318 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
1865347 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
1865376 AG
1 AG
1865378 ACCACTGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:1868578 original size:2 final size:2
Alignment explanation
Indices: 1868571--1868623 Score: 52
Period size: 2 Copynumber: 25.5 Consensus size: 2
1868561 TCTTGTCCTT
* * * *
1868571 TA TA TA TA TA TCC TT TA TA TA TA TA TCC TT TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
1868615 TA TA TA TA T
1 TA TA TA TA T
1868624 GAATGCCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1868613 original size:17 final size:15
Alignment explanation
Indices: 1868566--1868611 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
1868556 ATAAATCTTG
1868566 TCCTTTATATATATA
1 TCCTTTATATATATA
1868581 TCCTTTATATATATA
1 TCCTTTATATATATA
1868596 TCCTTTATATATATA
1 TCCTTTATATATATA
1868611 T
1 T
1868612 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (15 bp):
TCCTTTATATATATA
Found at i:1885623 original size:255 final size:255
Alignment explanation
Indices: 1885171--1885672 Score: 941
Period size: 255 Copynumber: 2.0 Consensus size: 255
1885161 ATACATTCAT
1885171 AGCCACAAGGTTTCTCAAAGCTACCCTAAGCTATCTAATTAGCTCTACAGGACGGTAGACAGTTT
1 AGCCACAAGGTTTCTCAAAGCTACCCTAAGCTATCTAATTAGCTCTACAGGACGGTAGACAGTTT
*
1885236 CCAAAGTTTTTAAGACTTTTCAGGGTACCAGTGTTGGTGTATCTCTATCAATTCTTGGCACTAAA
66 CCAAAGTTTTTAAGACTTTTCAGGATACCAGTGTTGGTGTATCTCTATCAATTCTTGGCACTAAA
* *
1885301 AGTGAAGCTTACAAAGAACATAGCCATTCACTAATGAACATTTAAATCTCTCTAAAAATCTAGAT
131 AGTGAAACTTACAAAGAACATAGCCATTCACTAATGAACATTTAAATCTCTCTAAAAATCCAGAT
*
1885366 TTTATTAGGCATTCCCCCAACATTTTATTTCCAAAGGACCTTATACAATTGTTTTCTCAA
196 TTTATTAGGCACTCCCCCAACATTTTATTTCCAAAGGACCTTATACAATTGTTTTCTCAA
1885426 AGCCACAAGGTTTCTCAAAGCTACCCTAAGCTATCTAATTAGCTCTACAGGACGGTAGACAGTTT
1 AGCCACAAGGTTTCTCAAAGCTACCCTAAGCTATCTAATTAGCTCTACAGGACGGTAGACAGTTT
*
1885491 CCAAAGTTTTTAAGACTTTTCAGGATTCCAGTGTTGGTGTATCTCTATCAATTCTTGGCACTAAA
66 CCAAAGTTTTTAAGACTTTTCAGGATACCAGTGTTGGTGTATCTCTATCAATTCTTGGCACTAAA
*
1885556 AGTGAAACTTACAAAGAACATAGCCATTCACTAATGAATATTTAAATCTCTCTAAAAATCCAGAT
131 AGTGAAACTTACAAAGAACATAGCCATTCACTAATGAACATTTAAATCTCTCTAAAAATCCAGAT
*
1885621 TTTCTTAGGCACTCCCCCAACATTTTATTTCCAAAGGACCTTATACAATTGT
196 TTTATTAGGCACTCCCCCAACATTTTATTTCCAAAGGACCTTATACAATTGT
1885673 CTGGTTCTGT
Statistics
Matches: 240, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
255 240 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (255 bp):
AGCCACAAGGTTTCTCAAAGCTACCCTAAGCTATCTAATTAGCTCTACAGGACGGTAGACAGTTT
CCAAAGTTTTTAAGACTTTTCAGGATACCAGTGTTGGTGTATCTCTATCAATTCTTGGCACTAAA
AGTGAAACTTACAAAGAACATAGCCATTCACTAATGAACATTTAAATCTCTCTAAAAATCCAGAT
TTTATTAGGCACTCCCCCAACATTTTATTTCCAAAGGACCTTATACAATTGTTTTCTCAA
Found at i:1891754 original size:8 final size:8
Alignment explanation
Indices: 1891732--1891793 Score: 97
Period size: 8 Copynumber: 7.5 Consensus size: 8
1891722 TCCGGATTTG
1891732 CAAAACAAA
1 CAAAA-AAA
*
1891741 AAAAAACAA
1 CAAAAA-AA
1891750 CAAAAAAA
1 CAAAAAAA
1891758 CAAAAAAA
1 CAAAAAAA
1891766 CAAAAAAA
1 CAAAAAAA
1891774 CAAAAAAA
1 CAAAAAAA
1891782 CAAAAAAA
1 CAAAAAAA
1891790 CAAA
1 CAAA
1891794 CTAAAAACAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
8 39 0.78
9 11 0.22
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1891800 original size:1 final size:1
Alignment explanation
Indices: 1891733--1891789 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
1891723 CCGGATTTGC
* * * * * * *
1891733 AAAACAAAAAAAAACAACAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1891790 CAAACTAAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1907011 original size:17 final size:16
Alignment explanation
Indices: 1906965--1907018 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
1906955 ATGAAAACGA
1906965 AAAATAAATAAAGTAAG
1 AAAATAAATAAA-TAAG
**
1906982 AAACGAACA-AAATAAAG
1 AAAATAA-ATAAAT-AAG
1906999 AAAATAAATAAATAAG
1 AAAATAAATAAATAAG
1907015 AAAA
1 AAAA
1907019 ATATAGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 9 0.30
17 20 0.67
18 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (16 bp):
AAAATAAATAAATAAG
Found at i:1907052 original size:17 final size:16
Alignment explanation
Indices: 1907032--1907071 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1907022 TAGAGAAACG
*
1907032 AAAAATGAAGTAAGATA
1 AAAAATGAA-TAAAATA
1907049 AAAAATGAATAAAATA
1 AAAAATGAATAAAATA
1907065 AATAAAT
1 AA-AAAT
1907072 AAAATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
AAAAATGAATAAAATA
Found at i:1907094 original size:13 final size:13
Alignment explanation
Indices: 1907033--1907082 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
1907023 AGAGAAACGA
1907033 AAAATGAAGTAAGAT
1 AAAATGAA-TAA-AT
*
1907048 AAAA--AATGAAT
1 AAAATGAATAAAT
*
1907059 AAAATAAATAAAT
1 AAAATGAATAAAT
1907072 AAAATGAATAA
1 AAAATGAATAA
1907083 GTAATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 2 0.07
13 18 0.60
15 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (13 bp):
AAAATGAATAAAT
Found at i:1909306 original size:102 final size:102
Alignment explanation
Indices: 1909130--1909394 Score: 467
Period size: 102 Copynumber: 2.6 Consensus size: 102
1909120 TTTCAAGGGA
* * *
1909130 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTTAATGGAAACTATCT
1 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACTATCT
*
1909195 TAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
66 CAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
* *
1909232 AATGTTTATATTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACTATCT
1 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACTATCT
1909297 CAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
66 CAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
*
1909334 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACT
1 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACT
1909395 GTAACACCCC
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 154 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (102 bp):
AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACTATCT
CAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
Found at i:1909326 original size:36 final size:37
Alignment explanation
Indices: 1909241--1909326 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
1909231 CAATGTTTAT
* * * * *
1909241 ATTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
* *
1909278 GTTTCAAAGGAAACTATCTCAAGAGAGACAAAA-TTC
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
1909314 ATTTCAAGGGAAA
1 ATTTCAAGGGAAA
1909327 TGTTTTCAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (37 bp):
ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
Found at i:1911726 original size:37 final size:37
Alignment explanation
Indices: 1911655--1911748 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
1911645 TCAATGTTTA
*
1911655 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAATGGAGACAAAATTT
* *
1911692 TGTTTCAAGGGAAACTATCTCAA-GCGAGATAAAATCTT
1 TGTTTCAAGAGAAACTATCTCAATG-GAGACAAAAT-TT
* * *
1911730 T-TTTTAAGAAAAACAATCT
1 TGTTTCAAGAGAAACTATCT
1911749 TGAGTGAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 1 0.02
37 44 0.92
38 3 0.06
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAATGGAGACAAAATTT
Found at i:1911791 original size:36 final size:37
Alignment explanation
Indices: 1911703--1911826 Score: 99
Period size: 36 Copynumber: 3.4 Consensus size: 37
1911693 GTTTCAAGGG
* * * *
1911703 AAACTATCTCAAGCGAGATAAAATCTTTTTTTAAGAA
1 AAACAATCTCAAGTGAAATAAAATCTTATTTTAAGAA
** * *
1911740 AAACAATCTTGAGTGAAAT-AAATCTTATTTTGAGTA
1 AAACAATCTCAAGTGAAATAAAATCTTATTTTAAGAA
* *** * * *
1911776 AAACAGTCTCAAGTGAGGCAAAGT-ATGTTTTAAGAA
1 AAACAATCTCAAGTGAAATAAAATCTTATTTTAAGAA
1911812 AAACAATCTCAAGTG
1 AAACAATCTCAAGTG
1911827 CGATAAATCA
Statistics
Matches: 66, Mismatches: 20, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
36 49 0.74
37 17 0.26
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (37 bp):
AAACAATCTCAAGTGAAATAAAATCTTATTTTAAGAA
Found at i:1914721 original size:21 final size:21
Alignment explanation
Indices: 1914695--1914735 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1914685 CCCACTTAAT
1914695 CATCTTCATCTAGTCTTCCAG
1 CATCTTCATCTAGTCTTCCAG
* **
1914716 CATCTTGATCTTTTCTTCCA
1 CATCTTCATCTAGTCTTCCA
1914736 TCTTCTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.32, G:0.07, T:0.44
Consensus pattern (21 bp):
CATCTTCATCTAGTCTTCCAG
Found at i:1916975 original size:17 final size:17
Alignment explanation
Indices: 1916955--1917045 Score: 51
Period size: 17 Copynumber: 5.1 Consensus size: 17
1916945 GAAACGAACG
1916955 AAATAAAGAAAATAAAT
1 AAATAAAGAAAATAAAT
*
1916972 AAAT-AAGAAAA-ATAT
1 AAATAAAGAAAATAAAT
* * *
1916987 AGAGAAACGAAAATGAAGT
1 AAATAAA-GAAAAT-AAAT
*
1917006 AAGATAAAAAATGAATAAAAT
1 AA-ATAAAGAA--AAT-AAAT
* *
1917027 AAATAAATAAAATGAAT
1 AAATAAAGAAAATAAAT
1917044 AA
1 AA
1917046 GTAATAATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
15 5 0.09
16 9 0.16
17 14 0.25
18 3 0.05
19 5 0.09
20 11 0.20
21 8 0.15
ACGTcount: A:0.70, C:0.01, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATAAAGAAAATAAAT
Found at i:1917057 original size:13 final size:13
Alignment explanation
Indices: 1916996--1917045 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
1916986 TAGAGAAACG
1916996 AAAATGAAGTAAGAT
1 AAAATGAA-TAA-AT
*
1917011 AAAA--AATGAAT
1 AAAATGAATAAAT
*
1917022 AAAATAAATAAAT
1 AAAATGAATAAAT
1917035 AAAATGAATAA
1 AAAATGAATAA
1917046 GTAATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 2 0.07
13 18 0.60
15 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (13 bp):
AAAATGAATAAAT
Found at i:1919354 original size:24 final size:25
Alignment explanation
Indices: 1919316--1919364 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
1919306 AAGGTTATAT
*
1919316 TAAAATTTTTAAAGGTGCAAAATTA
1 TAAAATTTTTAAAGGTACAAAATTA
*
1919341 TAAAA-TTTTAAAGGTATAAAATTA
1 TAAAATTTTTAAAGGTACAAAATTA
1919365 GATAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (25 bp):
TAAAATTTTTAAAGGTACAAAATTA
Found at i:1919371 original size:24 final size:24
Alignment explanation
Indices: 1919317--1919371 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1919307 AGGTTATATT
* *
1919317 AAAATTTTTAAAGGTGCAAAATTAT
1 AAAA-TTTTAAAGGTACAAAATTAG
*
1919342 AAAATTTTAAAGGTATAAAATTAG
1 AAAATTTTAAAGGTACAAAATTAG
*
1919366 ATAATT
1 AAAATT
1919372 AATAAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (24 bp):
AAAATTTTAAAGGTACAAAATTAG
Found at i:1924936 original size:16 final size:16
Alignment explanation
Indices: 1924907--1925023 Score: 177
Period size: 16 Copynumber: 7.4 Consensus size: 16
1924897 TGTTCATTTA
1924907 ATAAA-GAA-ACGAAC
1 ATAAACGAACACGAAC
*
1924921 ATAAGCGAACACGAAC
1 ATAAACGAACACGAAC
*
1924937 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
1924953 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
1924969 ATAAATC-AACACGAAC
1 ATAAA-CGAACACGAAC
1924985 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
1925001 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
1925017 ATAAACG
1 ATAAACG
1925024 TTGGAGACCC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
14 4 0.04
15 4 0.04
16 84 0.90
17 1 0.01
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:1924951 original size:32 final size:32
Alignment explanation
Indices: 1924907--1925023 Score: 202
Period size: 32 Copynumber: 3.7 Consensus size: 32
1924897 TGTTCATTTA
*
1924907 ATAAA-GAA-ACGAACATAAGCGAACACGAAC
1 ATAAATGAACACGAACATAAACGAACACGAAC
1924937 ATAAATGAACACGAACATAAACGAACACGAAC
1 ATAAATGAACACGAACATAAACGAACACGAAC
*
1924969 ATAAATCAACACGAACATAAACGAACACGAAC
1 ATAAATGAACACGAACATAAACGAACACGAAC
1925001 ATAAATGAACACGAACATAAACG
1 ATAAATGAACACGAACATAAACG
1925024 TTGGAGACCC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
30 5 0.06
31 3 0.04
32 74 0.90
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.09
Consensus pattern (32 bp):
ATAAATGAACACGAACATAAACGAACACGAAC
Found at i:1926044 original size:21 final size:21
Alignment explanation
Indices: 1926020--1926059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1926010 GCGTAGAATT
*
1926020 TGTCCCGAAGGACCACATAGA
1 TGTCCCAAAGGACCACATAGA
*
1926041 TGTCCCAAAGGACTACATA
1 TGTCCCAAAGGACCACATA
1926060 TAACACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (21 bp):
TGTCCCAAAGGACCACATAGA
Found at i:1927001 original size:44 final size:46
Alignment explanation
Indices: 1926900--1927004 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
1926890 TGCACTACCC
* * * *
1926900 ATGCATCGATACACAAATTACCTTCGATGTTTTCATTTTTAAAGGG
1 ATGCATCGATGCACCAATTACATTCGATGTTTTCATTTTTAAAGAG
* *
1926946 ATGCATCGATGCACCAATTGCATTTGATG-TTTC-TTCTTTAAAGAG
1 ATGCATCGATGCACCAATTACATTCGATGTTTTCATT-TTTAAAGAG
1926991 -TGCATCGATGCACC
1 ATGCATCGATGCACC
1927005 TTGCTCAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 16 0.31
45 12 0.23
46 24 0.46
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (46 bp):
ATGCATCGATGCACCAATTACATTCGATGTTTTCATTTTTAAAGAG
Found at i:1928477 original size:10 final size:10
Alignment explanation
Indices: 1928462--1928533 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 10
1928452 ATAAATGAAT
1928462 GAACATAAAC
1 GAACATAAAC
1928472 GAACATAACCGAAC
1 GAACAT-A---AAC
1928486 GAACATAAAC
1 GAACATAAAC
1928496 GAACATAACCGAAC
1 GAACAT-A---AAC
*
1928510 GAACATAAAT
1 GAACATAAAC
*
1928520 GAACATAACC
1 GAACATAAAC
1928530 GAAC
1 GAAC
1928534 GTTCACGAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 29 0.57
11 2 0.04
13 2 0.04
14 18 0.35
ACGTcount: A:0.54, C:0.24, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:1928486 original size:14 final size:14
Alignment explanation
Indices: 1928469--1928517 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
1928459 AATGAACATA
1928469 AACGAACATAACCG
1 AACGAACATAACCG
1928483 AACGAACAT-A---
1 AACGAACATAACCG
1928493 AACGAACATAACCG
1 AACGAACATAACCG
1928507 AACGAACATAA
1 AACGAACATAA
1928518 ATGAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
13 1 0.03
14 20 0.65
ACGTcount: A:0.55, C:0.24, G:0.12, T:0.08
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1928489 original size:24 final size:24
Alignment explanation
Indices: 1928462--1928534 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
1928452 ATAAATGAAT
1928462 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
1928486 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
1928510 GAACATAAATGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
1928534 G
1 G
1928535 TTCACGAACG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:1945305 original size:16 final size:16
Alignment explanation
Indices: 1945284--1945317 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1945274 TAAAATGAAG
1945284 AAGAAATTAAAGGACT
1 AAGAAATTAAAGGACT
* *
1945300 AAGAAATTTATGGACT
1 AAGAAATTAAAGGACT
1945316 AA
1 AA
1945318 ATTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGAAATTAAAGGACT
Found at i:1964229 original size:12 final size:12
Alignment explanation
Indices: 1964212--1964250 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
1964202 AAGGTTGTGA
1964212 TTTGGTATTCCC
1 TTTGGTATTCCC
1964224 TTTGGTTGATTGCCC
1 TTTGG-T-ATT-CCC
1964239 TTTGGTATTCCC
1 TTTGGTATTCCC
1964251 ATTTAGCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 4 0.17
15 8 0.33
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.49
Consensus pattern (12 bp):
TTTGGTATTCCC
Found at i:1978759 original size:64 final size:65
Alignment explanation
Indices: 1978689--1978820 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
1978679 GAAGCACCAA
* *
1978689 CGAGCGG-AAAAGAAGAATCTGATTCTTTCGGCTGGTTGCATCTACGATGATTGGGATGTGAATC
1 CGAGCGGAAAAAAAAGAATCTGATTCTTTCGGCTGGTTGCATCTACGACGATTGGGATGTGAATC
1978753 CGAGCGGAAAAAAAAGAATCTGATTCTTTCGGCTGGTTGCATCTACGACGATTGGGATGTGAATC
1 CGAGCGGAAAAAAAAGAATCTGATTCTTTCGGCTGGTTGCATCTACGACGATTGGGATGTGAATC
1978818 CGA
1 CGA
1978821 ACAGTGAATG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 7 0.11
65 58 0.89
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (65 bp):
CGAGCGGAAAAAAAAGAATCTGATTCTTTCGGCTGGTTGCATCTACGACGATTGGGATGTGAATC
Found at i:1984118 original size:40 final size:40
Alignment explanation
Indices: 1984064--1984153 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
1984054 AAATAAACTG
* * * *
1984064 AATAAA-ATAATAAATCAAAGTAAGATATAATAATACAAT
1 AATAAAGATGATAAATAAAAGCAAGATATAACAATACAAT
*
1984103 AATAAAGATGATAAATAAAAGCAAGATATGACAATACAAT
1 AATAAAGATGATAAATAAAAGCAAGATATAACAATACAAT
1984143 AATAAAGATGA
1 AATAAAGATGA
1984154 ATATTTACCG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.13
40 39 0.87
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.22
Consensus pattern (40 bp):
AATAAAGATGATAAATAAAAGCAAGATATAACAATACAAT
Done.