Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007864.1 Hibiscus syriacus cultivar Beakdansim tig00110236_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: 1537186
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:698733 original size:19 final size:18
Alignment explanation
Indices: 698711--698775 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 18
698701 TATATATTTA
698711 AATTTTCTTTATTATTTTT
1 AATTTT-TTTATTATTTTT
698730 AA--TTTTTATTA-TTTT
1 AATTTTTTTATTATTTTT
698745 AATTTATTTTATTATTTATTT
1 AATTT-TTTTATTA-TT-TTT
698766 AATTTATTTT
1 AATTT-TTTT
698776 GTAATTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.15
16 7 0.17
17 3 0.08
18 8 0.20
19 2 0.05
20 1 0.03
21 13 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
AATTTTTTTATTATTTTT
Found at i:698743 original size:34 final size:35
Alignment explanation
Indices: 698680--698770 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 35
698670 TTATATTTAA
* **
698680 ATTTTATTATATTTAGATCCTTATATATTTAAATTT
1 ATTTTATTATTTTTA-ATTTTTATATATTTAAATTT
*
698716 -TCTTTATTATTTTTAATTTTTAT-TATTTTAATTT
1 AT-TTTATTATTTTTAATTTTTATATATTTAAATTT
698750 ATTTTATTATTTATTTAATTT
1 ATTTTATTA-TT-TTTAATTT
698771 ATTTTGTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
34 17 0.36
35 10 0.21
36 20 0.43
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (35 bp):
ATTTTATTATTTTTAATTTTTATATATTTAAATTT
Found at i:698746 original size:15 final size:16
Alignment explanation
Indices: 698718--698783 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
698708 TTAAATTTTC
698718 TTTATTATTTTTAATT
1 TTTATTATTTTTAATT
698734 TTTATTA-TTTTAATT
1 TTTATTATTTTTAATT
698749 TATT-TTATTATTT-A-T
1 T-TTATTATT-TTTAATT
*
698764 TTAATTTATTTTGTAATT
1 TTTA-TTATTTT-TAATT
698782 TT
1 TT
698784 ATTTTTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.02
15 16 0.39
16 17 0.41
17 4 0.10
18 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTATTTTTAATT
Found at i:698772 original size:34 final size:33
Alignment explanation
Indices: 698680--698788 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 33
698670 TTATATTTAA
* * *
698680 ATTTTATTATATTTAGATCCTTATATATTTAAATTT
1 ATTTTATTATTTTTA-AT-TTTAT-TATTTTAATTT
698716 -TCTTTATTATTTTTAATTTTTATTATTTTAATTT
1 AT-TTTATTATTTTTAA-TTTTATTATTTTAATTT
*
698750 ATTTTATTATTTATTTAA-TTTATT-TTGTAATTTT
1 ATTTTATTA-TT-TTTAATTTTATTATTTTAA-TTT
698784 ATTTT
1 ATTTT
698789 TAATTAGGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
33 5 0.08
34 31 0.49
35 9 0.14
36 18 0.29
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (33 bp):
ATTTTATTATTTTTAATTTTATTATTTTAATTT
Found at i:698780 original size:12 final size:11
Alignment explanation
Indices: 698722--698793 Score: 58
Period size: 13 Copynumber: 6.1 Consensus size: 11
698712 ATTTTCTTTA
698722 TTATTTTTAATTT
1 TTATTTTTAA--T
698735 TTATTATTTTAAT
1 TTA-T-TTTTAAT
*
698748 TTATTTTATTAT
1 TTATTTT-TAAT
698760 TTA--TTTAAT
1 TTATTTTTAAT
698769 TTATTTTGTAATT
1 TTATTTT-TAA-T
698782 TTATTTTTAAT
1 TTATTTTTAAT
698793 T
1 T
698794 AGGATTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 7 0.14
12 13 0.26
13 15 0.30
14 1 0.02
15 6 0.12
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (11 bp):
TTATTTTTAAT
Found at i:698785 original size:26 final size:26
Alignment explanation
Indices: 698722--698787 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 26
698712 ATTTTCTTTA
698722 TTATTTTTAATTTT-TATTATTTTAAT
1 TTATTTTTAATTTTAT-TTATTTTAAT
698748 TTA-TTTT-A--TTATTTA-TTTAAT
1 TTATTTTTAATTTTATTTATTTTAAT
698769 TTATTTTGTAATTTTATTT
1 TTATTTT-TAATTTTATTT
698788 TTAATTAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
21 9 0.26
22 8 0.24
23 2 0.06
24 2 0.06
25 4 0.12
26 9 0.26
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (26 bp):
TTATTTTTAATTTTATTTATTTTAAT
Found at i:699058 original size:38 final size:38
Alignment explanation
Indices: 699016--699092 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
699006 AATTTAGGTC
699016 TTTAGACTTTTAAATCTTTTAGAACTCTGATATTTTAG
1 TTTAGACTTTTAAATCTTTTAGAACTCTGATATTTTAG
699054 TTTAGACTTTTAAATCTTTTAGAACTCTGATATTTTAG
1 TTTAGACTTTTAAATCTTTTAGAACTCTGATATTTTAG
699092 T
1 T
699093 CCTTTGCCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (38 bp):
TTTAGACTTTTAAATCTTTTAGAACTCTGATATTTTAG
Found at i:701178 original size:19 final size:19
Alignment explanation
Indices: 701130--701190 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
701120 CTTGATTCGT
*
701130 ATTTTCTTATTCATAGCTC
1 ATTTTCATATTCATAGCTC
* * *
701149 A-TTTCAGATTCACAACTC
1 ATTTTCATATTCATAGCTC
701167 ATTTTCATATTCATAGCTC
1 ATTTTCATATTCATAGCTC
701186 ATTTT
1 ATTTT
701191 TAGACTCATA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (19 bp):
ATTTTCATATTCATAGCTC
Found at i:701199 original size:19 final size:19
Alignment explanation
Indices: 701138--701202 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
701128 GTATTTTCTT
701138 ATTCATAGCTCA-TTTCAG
1 ATTCATAGCTCATTTTCAG
* * *
701156 ATTCACAACTCATTTTCAT
1 ATTCATAGCTCATTTTCAG
*
701175 ATTCATAGCTCATTTTTAG
1 ATTCATAGCTCATTTTCAG
*
701194 ACTCATAGC
1 ATTCATAGC
701203 CTAATGTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 10 0.26
19 28 0.74
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (19 bp):
ATTCATAGCTCATTTTCAG
Found at i:705638 original size:21 final size:21
Alignment explanation
Indices: 705612--705652 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
705602 CTTGATGAAG
*
705612 CTCTAGGATAAATGTAGACAA
1 CTCTAGGATAAACGTAGACAA
*
705633 CTCTAGGATGAACGTAGACA
1 CTCTAGGATAAACGTAGACA
705653 TCCATTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
CTCTAGGATAAACGTAGACAA
Found at i:706077 original size:18 final size:18
Alignment explanation
Indices: 706056--706098 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
706046 CCATGCAAAC
*
706056 TTAAATGAACCGGTTTAA
1 TTAAATGAACCAGTTTAA
**
706074 TTAAATGAATTAGTTTAA
1 TTAAATGAACCAGTTTAA
706092 TTAAATG
1 TTAAATG
706099 TACTAGCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (18 bp):
TTAAATGAACCAGTTTAA
Found at i:706163 original size:19 final size:18
Alignment explanation
Indices: 706092--706210 Score: 107
Period size: 18 Copynumber: 6.6 Consensus size: 18
706082 ATTAGTTTAA
* * *
706092 TTAAATGTACTAGCATAC
1 TTAAATGAACTAACATGC
706110 TTAAA-G-ACTTAACATGC
1 TTAAATGAAC-TAACATGC
* * *
706127 TTAAAAGAAGTAAAATGC
1 TTAAATGAACTAACATGC
*
706145 TTTAAATGAACTATCATGC
1 -TTAAATGAACTAACATGC
*
706164 TTAAATGAACTTAAGATGC
1 TTAAATGAAC-TAACATGC
* *
706183 TTAAATGAAGTAACATTC
1 TTAAATGAACTAACATGC
706201 TTAAATGAAC
1 TTAAATGAAC
706211 AATCATGTAT
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
16 2 0.02
17 12 0.15
18 38 0.46
19 30 0.37
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (18 bp):
TTAAATGAACTAACATGC
Found at i:706163 original size:37 final size:37
Alignment explanation
Indices: 706119--706210 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
706109 CTTAAAGACT
706119 TAACATGCTTAAAAGAA-GTAAAATGCTTTAAATGAAC
1 TAACATGCTTAAAAGAACGTAAAATGC-TTAAATGAAC
* * * * *
706156 TATCATGCTTAAATGAACTTAAGATGCTTAAATGAAG
1 TAACATGCTTAAAAGAACGTAAAATGCTTAAATGAAC
* *
706193 TAACATTCTTAAATGAAC
1 TAACATGCTTAAAAGAAC
706211 AATCATGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 40 0.85
38 7 0.15
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (37 bp):
TAACATGCTTAAAAGAACGTAAAATGCTTAAATGAAC
Found at i:706324 original size:3 final size:3
Alignment explanation
Indices: 706318--706389 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
706308 TTTACTCATT
* *
706318 TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
706366 TTA TTA TTA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
706390 AAAAATAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:706338 original size:15 final size:15
Alignment explanation
Indices: 706318--706389 Score: 126
Period size: 15 Copynumber: 4.8 Consensus size: 15
706308 TTTACTCATT
*
706318 TTATTATTATTATTA
1 TTATTATTATTATAA
706333 TTATTATTATTATAA
1 TTATTATTATTATAA
706348 TTATTATTATTATAA
1 TTATTATTATTATAA
706363 TTATTATTATTATAA
1 TTATTATTATTATAA
*
706378 TAATTATTATTA
1 TTATTATTATTA
706390 AAAAATAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATAA
Found at i:708093 original size:17 final size:19
Alignment explanation
Indices: 708066--708101 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
708056 AGATGGCAAT
708066 CATTCTTTACATTT-TTTA
1 CATTCTTTACATTTATTTA
708084 CATT-TTTACATTTATTTA
1 CATTCTTTACATTTATTTA
708102 TTTCATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (19 bp):
CATTCTTTACATTTATTTA
Found at i:711635 original size:1 final size:1
Alignment explanation
Indices: 711625--711724 Score: 74
Period size: 1 Copynumber: 100.0 Consensus size: 1
711615 GCTTAAAGAG
* * ** * * * * *
711625 AAAAAGAAAAAAAAAAAAAAAAAAAAAAAGAAGGAAAAAAAAAGAAGAAAAAAAGAAAGAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
711690 AAAAAAGAAAAGAAAAAAGAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
711725 GGGGGTCAAG
Statistics
Matches: 73, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:711645 original size:11 final size:11
Alignment explanation
Indices: 711623--711723 Score: 100
Period size: 11 Copynumber: 9.1 Consensus size: 11
711613 ATGCTTAAAG
711623 AGAAAAAGAAAA
1 AGAAAAA-AAAA
711635 A-AAAAAAAAA
1 AGAAAAAAAAA
711645 A-AAAAAAAAGA
1 AGAAAAAAAA-A
*
711656 AGGAAAAAAAA
1 AGAAAAAAAAA
*
711667 AGAAGAAAAAA
1 AGAAAAAAAAA
*
711678 AGAAAGAAAAGA
1 AGAAA-AAAAAA
*
711690 A-AAAAAGAAA
1 AGAAAAAAAAA
*
711700 AGAAAAAAGAA
1 AGAAAAAAAAA
711711 AGAAAAAAGAAA
1 AGAAAAAA-AAA
711723 A
1 A
711724 AGGGGGTCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
10 18 0.24
11 39 0.53
12 17 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:711653 original size:25 final size:25
Alignment explanation
Indices: 711625--711724 Score: 103
Period size: 25 Copynumber: 3.9 Consensus size: 25
711615 GCTTAAAGAG
711625 AAAAAG-AAAAAAAAAAAAAAAAAA
1 AAAAAGAAAAAAAAAAAAAAAAAAA
711649 AAAAAGAAGGAAAAAAAAAGAAGAAAAAA
1 AAAAAGAA--AAAAAAAAA-AA-AAAAAA
* * * *
711678 AGAAAGAAAAGAAAAAAAGAAAAGA
1 AAAAAGAAAAAAAAAAAAAAAAAAA
* *
711703 AAAAAGAAAGAAAAAAGAAAAA
1 AAAAAGAAAAAAAAAAAAAAAA
711725 GGGGGTCAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.10
25 23 0.37
26 1 0.02
27 17 0.27
28 2 0.03
29 13 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAAAAAAAAAAAAAAAAA
Found at i:711675 original size:29 final size:27
Alignment explanation
Indices: 711628--711725 Score: 110
Period size: 29 Copynumber: 3.6 Consensus size: 27
711618 TAAAGAGAAA
*
711628 AAGAAAAAAAAAAAAAAAAAAAAAAAG
1 AAGAAAAAAAAAAAGAAAAAAAAAAAG
*
711655 AAGGAAAAAAAAAGAAGAAAAAAAGAAAG
1 AA-GAAAAAAAAA-AAGAAAAAAAAAAAG
* *
711684 -A-AAAGAAAAAAAGAAAAGAAAAAAG
1 AAGAAAAAAAAAAAGAAAAAAAAAAAG
711709 AAAGAAAAAAGAAAAAG
1 -AAGAAAAAA-AAAAAG
711726 GGGGTCAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
25 13 0.22
26 8 0.14
27 3 0.05
28 16 0.27
29 19 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (27 bp):
AAGAAAAAAAAAAAGAAAAAAAAAAAG
Found at i:711725 original size:17 final size:17
Alignment explanation
Indices: 711625--711725 Score: 89
Period size: 17 Copynumber: 5.7 Consensus size: 17
711615 GCTTAAAGAG
*
711625 AAAAAGAAAAAAAAAAAA
1 AAAAAG-AAAAAGAAAAA
* *
711643 AAAAAAAAAAAGAAGGAA
1 AAAAAGAAAAAGAA-AAA
*
711661 AAAAA-AAGAAGAAAAA
1 AAAAAGAAAAAGAAAAA
711677 AAGAAAG-AAAAGAAAAAA
1 AA-AAAGAAAAAG-AAAAA
*
711695 AGAAAAGAAAAAAGAAAGA
1 A-AAAAG-AAAAAGAAAAA
711714 AAAAAGAAAAAG
1 AAAAAGAAAAAG
711726 GGGGTCAAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.06
17 27 0.39
18 27 0.39
19 6 0.09
20 5 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAA
Found at i:712726 original size:93 final size:93
Alignment explanation
Indices: 712567--712827 Score: 454
Period size: 93 Copynumber: 2.8 Consensus size: 93
712557 CGTAGACCCA
712567 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
712632 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATGAATGTGCTC
712660 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
*
712725 TCATTAAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATGAATGTGCTC
* * *
712753 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAGAA-CC-ACAGAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTA-AAAACCA
712816 ATCATTGGAATT
65 ATCATT-GAATT
712828 AAAAGATGAA
Statistics
Matches: 161, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
91 1 0.01
92 14 0.09
93 146 0.91
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
TCATTGAATTTGGAAGATGAATGTGCTC
Found at i:713913 original size:116 final size:116
Alignment explanation
Indices: 713558--714317 Score: 1113
Period size: 116 Copynumber: 6.7 Consensus size: 116
713548 TTTCCAGTTC
* *
713558 GAGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGGAAGAAAAAGTTCATAATAAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * *
713620 GTTCAACCTTTTGCTCAACTCCATCA-TTCAATGGATCAGCTTTTCTAGTTA
66 GTTCAACCTTTTGCTCAAATCCATCACTT-GATGAATCAGCTTTGCCAGGTA
* * * *
713671 GAGTTCATAATGAGAAGAA--C-TCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
** * * * * * *
713733 GTTCAA-CTTTTGCTTGAATTCATCATTTGATGGATTAACATTGCCAGGTA
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
713783 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
713848 GTTCAACCTTTTGCTCAAATCCATCACTTGATAAATCAGCTTTGCCAGGTA
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
713899 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
713964 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
714015 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
714080 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
714131 GAGTTCATAA-GAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * *
714192 GTTCAACCTTTTGCTCAAATCTATCATTTGATGGATCAACTTT-CCAGAG-A
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAG-GTA
* * **
714242 AAGTTCATAATGAGAAGAACTCAT--T-TGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
714304 GTTCGACCTTTTGC
66 GTTCAACCTTTTGC
714318 ATAACTCTAT
Statistics
Matches: 598, Mismatches: 38, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
111 14 0.02
112 186 0.31
113 67 0.11
114 2 0.00
115 53 0.09
116 276 0.46
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (116 bp):
GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
Found at i:713922 original size:228 final size:228
Alignment explanation
Indices: 713558--714317 Score: 1128
Period size: 228 Copynumber: 3.3 Consensus size: 228
713548 TTTCCAGTTC
* *
713558 GAGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGGAAGAAAAAGTTCATAATAAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * *
713620 GTTCAACCTTTTGCTCAACTCCATCA-TTCAATGGATCAGCTTTTCTAGTTAGAGTTCATAATGA
66 GTTCAACCTTTTGCTCAAATCCATCACTT-GATGAATCAGCTTTGCCAGGTAGAGTTCATAATGA
* * * *
713684 GAAGAACTCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTGCTT
130 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* *
713748 GAATTCATCATTTGATGGATTAACATTGCCAGGTA
195 AAATTCATCATTTGATGGATCAAC-TTGCCAGGTA
713783 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
713848 GTTCAACCTTTTGCTCAAATCCATCACTTGATAAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
713913 AAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
131 AAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * *
713978 TCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTA
193 TTAAATTCATCATTTGATGGATCAAC-TTGCCAGGTA
714015 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
714080 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTAGAGTTCATAA-GAG
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
*
714144 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
131 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTA
*
714209 AA-TCTATCATTTGATGGATCAACTTTCCAGAG-A
196 AATTC-ATCATTTGATGGATCAACTTGCCAG-GTA
* * **
714242 AAGTTCATAATGAGAAGAACTCAT--T-TGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
714304 GTTCGACCTTTTGC
66 GTTCAACCTTTTGC
714318 ATAACTCTAT
Statistics
Matches: 493, Mismatches: 32, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
224 47 0.10
225 20 0.04
226 1 0.00
227 31 0.06
228 177 0.36
229 3 0.01
230 1 0.00
231 52 0.11
232 161 0.33
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (228 bp):
GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTA
AATTCATCATTTGATGGATCAACTTGCCAGGTA
Found at i:714205 original size:344 final size:342
Alignment explanation
Indices: 713558--714317 Score: 1101
Period size: 344 Copynumber: 2.2 Consensus size: 342
713548 TTTCCAGTTC
* *
713558 GAGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGGAAGAAAAAGTTCATAATAAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * *
713620 GTTCAACCTTTTGCTCAACTCCATCATTCAATGGATCAGCTTTTCTAGTTAGAGTTCATAATGAG
66 GTTCAACCTTTTGCTCAAATCCATCATTCAATGAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
**
713685 AAGAACTCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGA
131 AAGAACTCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTCAA
* * * *
713750 ATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAA
196 ATCCATCACTTGATGAATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAAC-CATCATCTGAA
713815 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
260 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
*
713880 AAATCAGCTTTGCCAG-GTA
325 AAATCAACTTT-CCAGAG-A
713899 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
713964 GTTCAACCTTTTGCTCAAATCCATCACTT-GATGAATCAGCTTTGCCAGGTAGAGTTCATAATGA
66 GTTCAACCTTTTGCTCAAATCCATCA-TTCAATGAATCAGCTTTGCCAGGTAGAGTTCATAATGA
* * * *
714028 GAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
130 GAAGAA--C-TCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTG
* *
714093 CTCAAATCCATCACTTGATGAATCAGCTTTGCCAGGTAGAGTTCATAA-GAGAAGAA-C-TCATC
191 CTCAAATCCATCACTTGATGAATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACCATCATC
* *
714155 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCATT
256 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACT
**
714220 TGATGGATCAACTTTCCAGAGA
321 TGATAAATCAACTTTCCAGAGA
* * **
714242 AAGTTCATAATGAGAAGAACTCAT--T-TGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
714304 GTTCGACCTTTTGC
66 GTTCAACCTTTTGC
714318 ATAACTCTAT
Statistics
Matches: 380, Mismatches: 30, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
340 47 0.12
341 20 0.05
342 1 0.00
343 28 0.07
344 182 0.48
345 3 0.01
346 1 0.00
347 52 0.14
348 46 0.12
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (342 bp):
GAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCATTCAATGAATCAGCTTTGCCAGGTAGAGTTCATAATGAG
AAGAACTCATCTAAAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTCAA
ATCCATCACTTGATGAATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACCATCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATA
AATCAACTTTCCAGAGA
Found at i:714523 original size:121 final size:125
Alignment explanation
Indices: 714240--714525 Score: 363
Period size: 121 Copynumber: 2.3 Consensus size: 125
714230 ACTTTCCAGA
* *
714240 GAAAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAAGTTCATAATGAGAAGAGCTTA
* * * * **
714305 TTCGACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAG
65 TTCAACCTTTGGAATAACTCTATCACAGAAGGAGATATATCATCAACAGCATCCCCAGAAG
* *
714366 G--AGTTCACAATAAGAAGAACTCATCTGAAG-AA-AGAAGAAGTTCATAATGAGAAGAGCTTAT
1 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTTCATAATGAGAAGAGCTTAT
* ** * *
714427 TCAACCTTTGGAATGACTCTATCACAGAAGGA-A-ATA-GGTCAACATCATCCCCAG-CG
66 TCAACCTTTGGAATAACTCTATCACAGAAGGAGATATATCATCAACAGCATCCCCAGAAG
*
714483 GAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAGAAGAA
1 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
714526 TTTATTCAAC
Statistics
Matches: 138, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
117 2 0.01
118 12 0.09
119 29 0.21
120 3 0.02
121 63 0.46
123 2 0.01
124 26 0.19
126 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (125 bp):
GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTTCATAATGAGAAGAGCTTAT
TCAACCTTTGGAATAACTCTATCACAGAAGGAGATATATCATCAACAGCATCCCCAGAAG
Found at i:714675 original size:3 final size:3
Alignment explanation
Indices: 714669--714707 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
714659 TTTACTCATT
714669 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
714708 AAAATAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:717170 original size:21 final size:19
Alignment explanation
Indices: 717146--717185 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
717136 TAATTGTTTT
717146 TTAAATTTATAAAAAATATTA
1 TTAAA-TTA-AAAAAATATTA
*
717167 TTAAATTAAAAAATTATTA
1 TTAAATTAAAAAAATATTA
717186 CAAATATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATTAAAAAAATATTA
Found at i:728789 original size:24 final size:23
Alignment explanation
Indices: 728762--728813 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
728752 TGACCCGAAT
*
728762 CCTGATCAGCATCGTTCTGAGAC
1 CCTGATCAGCACCGTTCTGAGAC
*
728785 ACCTGATCCGCACCGTTCTGAGAC
1 -CCTGATCAGCACCGTTCTGAGAC
728809 CCTGA
1 CCTGA
728814 ATATTTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (23 bp):
CCTGATCAGCACCGTTCTGAGAC
Found at i:736841 original size:36 final size:36
Alignment explanation
Indices: 736792--736899 Score: 166
Period size: 36 Copynumber: 3.1 Consensus size: 36
736782 GAAGGTGAAT
*
736792 AAGAAGAATGAAAGGAAGCATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
*
736828 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* *
736864 AAG-TGAACGGAAGGAAGCATC-GCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
736898 AA
1 AA
736900 TTGTTCATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
34 14 0.21
35 16 0.24
36 37 0.55
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (36 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
Found at i:739478 original size:13 final size:13
Alignment explanation
Indices: 739462--739488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
739452 CAAAATATAA
739462 GTAAATGTTTGAT
1 GTAAATGTTTGAT
739475 GTAAATGTTTGAT
1 GTAAATGTTTGAT
739488 G
1 G
739489 AAGGGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (13 bp):
GTAAATGTTTGAT
Found at i:744541 original size:19 final size:19
Alignment explanation
Indices: 744517--744562 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
744507 TAAATTTGGT
*
744517 TTTATATTAATTCCAATTC
1 TTTATATTAATTACAATTC
* *
744536 TTTATATTATTTATAATTC
1 TTTATATTAATTACAATTC
744555 -TTATATTA
1 TTTATATTA
744563 TAATTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATTAATTACAATTC
Found at i:744576 original size:13 final size:13
Alignment explanation
Indices: 744542--744579 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
744532 ATTCTTTATA
744542 TTATTTATAATTC
1 TTATTTATAATTC
*
744555 TTATATTATAATTT
1 TTAT-TTATAATTC
744569 TTATTTATAAT
1 TTATTTATAAT
744580 CATTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTATAATTC
Found at i:744589 original size:27 final size:26
Alignment explanation
Indices: 744542--744594 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
744532 ATTCTTTATA
*
744542 TTATTTATAATTCTTATATTATAATTT
1 TTATTTATAATTCTTAAATTA-AATTT
744569 TTATTTATAA-TCATTAAATTAAATTT
1 TTATTTATAATTC-TTAAATTAAATTT
744595 AGTTATTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTTATAATTCTTAAATTAAATTT
Found at i:745062 original size:23 final size:23
Alignment explanation
Indices: 745048--745140 Score: 161
Period size: 23 Copynumber: 4.1 Consensus size: 23
745038 GCATCACAGT
*
745048 ATCAATTCAGTAAGCATCATTGC
1 ATCAATTCAGCAAGCATCATTGC
*
745071 ATCAATTCAGTAAGCATCATTGC
1 ATCAATTCAGCAAGCATCATTGC
745094 ATCAATTCAGCAAGCATCATTGC
1 ATCAATTCAGCAAGCATCATTGC
745117 ATCAATTCAGCAAGCATCA-TGC
1 ATCAATTCAGCAAGCATCATTGC
745139 AT
1 AT
745141 TCATAAAGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
22 5 0.07
23 64 0.93
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (23 bp):
ATCAATTCAGCAAGCATCATTGC
Found at i:745089 original size:46 final size:46
Alignment explanation
Indices: 745035--745135 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
745025 CAGCAACCGA
* *
745035 CAAGCATCACAGTATCAATTCAGTAAGCATCATTGCATCAATTCAG
1 CAAGCATCACAGCATCAATTCAGCAAGCATCATTGCATCAATTCAG
* **
745081 TAAGCATCATTGCATCAATTCAGCAAGCATCATTGCATCAATTCAG
1 CAAGCATCACAGCATCAATTCAGCAAGCATCATTGCATCAATTCAG
745127 CAAGCATCA
1 CAAGCATCA
745136 TGCATTCATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (46 bp):
CAAGCATCACAGCATCAATTCAGCAAGCATCATTGCATCAATTCAG
Found at i:745258 original size:20 final size:20
Alignment explanation
Indices: 745233--745309 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
745223 AACCCTTACA
*
745233 AATATCAAGCAGAATCAAGC
1 AATATCAAACAGAATCAAGC
* *
745253 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAATCAAGC
* * *
745273 AATATAAAACATAATCAAGT
1 AATATCAAACAGAATCAAGC
*
745293 AATATCAAGCAGAATCA
1 AATATCAAACAGAATCA
745310 CTCACCAACT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.56, C:0.17, G:0.10, T:0.17
Consensus pattern (20 bp):
AATATCAAACAGAATCAAGC
Found at i:754495 original size:6 final size:6
Alignment explanation
Indices: 754484--754509 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
754474 TAATATTTCC
754484 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
754510 GTAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:754836 original size:21 final size:21
Alignment explanation
Indices: 754810--754850 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
754800 CTTTTTCTTC
754810 TCTCTTTCATTATTAACTTTG
1 TCTCTTTCATTATTAACTTTG
*
754831 TCTCTTTCATTTTTAACTTT
1 TCTCTTTCATTATTAACTTT
754851 TACTTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (21 bp):
TCTCTTTCATTATTAACTTTG
Found at i:758868 original size:12 final size:12
Alignment explanation
Indices: 758853--758922 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
758843 CAGGTTTGGA
758853 TTTGGGTTTAGG
1 TTTGGGTTTAGG
*
758865 TTTGGTTTTAGGG
1 TTTGGGTTTA-GG
*
758878 TTTAAGGTTTAGG
1 TTT-GGGTTTAGG
*
758891 TTTAGGTTT-GTG
1 TTTGGGTTTAG-G
*
758903 TTTGTGTTTTA-G
1 TTTG-GGTTTAGG
758915 TTTGGGTT
1 TTTGGGTT
758923 CATATTAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
11 4 0.09
12 24 0.51
13 14 0.30
14 5 0.11
ACGTcount: A:0.10, C:0.00, G:0.34, T:0.56
Consensus pattern (12 bp):
TTTGGGTTTAGG
Found at i:758886 original size:7 final size:6
Alignment explanation
Indices: 758844--758899 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
758834 GTTTTGATTC
*
758844 AGGTTT -GGATTT GGGTTT AGGTTT -GGTTTT AGGGTTT AAGGTTT AGGTTT
1 AGGTTT AGG-TTT AGGTTT AGGTTT AGG-TTT A-GGTTT -AGGTTT AGGTTT
758894 AGGTTT
1 AGGTTT
758900 GTGTTTGTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
5 4 0.09
6 26 0.60
7 10 0.23
8 3 0.07
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (6 bp):
AGGTTT
Found at i:759367 original size:22 final size:21
Alignment explanation
Indices: 759337--759377 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
759327 GGGATGAACA
759337 CAGATGAATTTCTAGAGAGAAGT
1 CAGATGAATTT-T-GAGAGAAGT
759360 CAGA-GAATTTTGAGAGAA
1 CAGATGAATTTTGAGAGAA
759378 TCGGAGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 6 0.33
23 4 0.22
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.24
Consensus pattern (21 bp):
CAGATGAATTTTGAGAGAAGT
Found at i:759616 original size:61 final size:61
Alignment explanation
Indices: 759547--759683 Score: 238
Period size: 61 Copynumber: 2.2 Consensus size: 61
759537 TCCTAGTTTT
759547 AAATTTGTTCAATTTAGTCTAAATTTAATGATGCAATGTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCTAAATTTAATGATGCAATGTATTAATTTAAGCTTCATATTTA
* * * *
759608 AAATTTGTTCAATTTAGTCTAAATTTCATGTTGCAATTTATTAATTTATGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCTAAATTTAATGATGCAATGTATTAATTTAAGCTTCATATTTA
759669 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
759684 GATCCTTATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCTAAATTTAATGATGCAATGTATTAATTTAAGCTTCATATTTA
Found at i:759743 original size:26 final size:27
Alignment explanation
Indices: 759711--759792 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 27
759701 CAATTCTTTT
759711 AATTAATATATATGTTTATAT-TAAT-A
1 AATTAATATATA-GTTTATATATAATGA
759737 AATTAATATATAGGTTATATATACTAATGA
1 AATTAATATATA-GTT-TATATA-TAATGA
759767 ACTATATAATATATAGTTTATATATA
1 A--AT-TAATATATAGTTTATATATA
759793 CTATATACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
26 15 0.31
27 5 0.10
29 4 0.08
30 4 0.08
31 6 0.12
32 5 0.10
33 9 0.19
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (27 bp):
AATTAATATATAGTTTATATATAATGA
Found at i:759792 original size:18 final size:18
Alignment explanation
Indices: 759769--759810 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
759759 ACTAATGAAC
*
759769 TATATAATATATAGTTTA
1 TATATAATATATACTTTA
*
759787 TATATACTATATACTTTA
1 TATATAATATATACTTTA
759805 TATATA
1 TATATA
759811 TAGTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (18 bp):
TATATAATATATACTTTA
Found at i:759825 original size:33 final size:32
Alignment explanation
Indices: 759740--759823 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 32
759730 ATTAATAAAT
*
759740 TAATATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAAT-AACTATA
*
759773 TAATATATAGTTTATATATACT-ATATACTTTA
1 TAATATATAGTTTATATATACTAATA-ACTATA
*
759805 T-ATATATAGTTTTTATATA
1 TAATATATAGTTTATATATA
759824 TAGGTCATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
31 18 0.38
32 8 0.17
33 21 0.45
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (32 bp):
TAATATATAGTTTATATATACTAATAACTATA
Found at i:759851 original size:18 final size:20
Alignment explanation
Indices: 759820--759863 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
759810 ATAGTTTTTA
*
759820 TATATAGGTCATATGTAAAC
1 TATATAGGTCATATATAAAC
*
759840 TATATA-GT-ATATATAAAT
1 TATATAGGTCATATATAAAC
759858 TATATA
1 TATATA
759864 TGTAGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (20 bp):
TATATAGGTCATATATAAAC
Found at i:764188 original size:44 final size:43
Alignment explanation
Indices: 764121--764559 Score: 369
Period size: 43 Copynumber: 10.2 Consensus size: 43
764111 ACAGAAATTA
* * *
764121 GCGGAGTTTGTAT-AAAAAAACGTCGCTATATATCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAAACGCCGCTATATATCTAACCTTTT
* ** *
764164 GCGGCGTTTGTTCTAAAAAAACGTCGCTATCCATCTAACCTATT
1 GCGGCGTTTGTTC-AAAAAAACGCCGCTATATATCTAACCTTTT
* *
764208 GCGGCGTTTGTTC-CAAAAACGCCAG-TATATATC-AATCTTTT
1 GCGGCGTTTGTTCAAAAAAACGCC-GCTATATATCTAACCTTTT
* * * * *
764249 ACGGCGTTTGTAT-AAAAAAAAGCCACTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAAACGCCGCTATATATCTAACCTTTT
* ** * * *
764292 GCGGCGTTTGTTCCAAAAAATACCGCTATCTATCTGACCTATT
1 GCGGCGTTTGTTCAAAAAAACGCCGCTATATATCTAACCTTTT
** * * *
764335 GCGATGTATGTTCCAAAAAAACGCCGCTATATATCTGACCTATT
1 GCGGCGTTTGTT-CAAAAAAACGCCGCTATATATCTAACCTTTT
* *
764379 GTGGCGTTTGTTC-CAAAAACGCCGCTATAGATATC-AACCTTTT
1 GCGGCGTTTGTTCAAAAAAACGCCGCTAT--ATATCTAACCTTTT
* * *
764422 GCGGCGTTAGTTC-CAAAAACGCCTCTATAGATATC-AACCTTTT
1 GCGGCGTTTGTTCAAAAAAACGCCGCTAT--ATATCTAACCTTTT
* * * *
764465 GCGGCGTTTGTTC-CAAAAACACCGCTATAGATATAAACCTTTT
1 GCGGCGTTTGTTCAAAAAAACGCCGCTATATATCT-AACCTTTT
* * *
764508 GCGGCGTTTATTC-CAAAAACGCCGCTATAGATCTCAACCTTTT
1 GCGGCGTTTGTTCAAAAAAACGCCGCTATATATCT-AACCTTTT
764551 GCGGCGTTT
1 GCGGCGTTT
764560 TTGGTTCTCA
Statistics
Matches: 331, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
41 19 0.06
42 46 0.14
43 187 0.56
44 79 0.24
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTTCAAAAAAACGCCGCTATATATCTAACCTTTT
Found at i:764533 original size:129 final size:127
Alignment explanation
Indices: 764136--764558 Score: 410
Period size: 129 Copynumber: 3.3 Consensus size: 127
764126 GTTTGTATAA
* * * * * **
764136 AAAAACGTCGCTATATATCT-GACCTTTTGCGGCGTTTGTTCTAAAAAA-ACGTCGCTATCCATC
1 AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTAGTTCCAAAAAACAC--CGCTATATATC
* *
764199 TAACCTATTGCGGCGTTTGTTCCAAAAACGCCAG-TAT-ATATCAATCTTTTACGGCGTTTGTAT
64 TAACCTATTGCGGCGTTTGTTCCAAAAACGCC-GCTATAATAT-AACCTTTTGCGGCGTTTGT-T
**
764262 AA
126 CC
* * * * * * *
764264 AAAAAAGCCACTATAGATCT-GACCTTTTGCGGCGTTTGTTCCAAAAAATACCGCTATCTATCTG
1 AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTAGTTCCAAAAAACACCGCTATATATCTA
** * * * * *
764328 ACCTATTGCGATGTATGTTCCAAAAAAACGCCGCTATATATCTGACCTATTGTGGCGTTTGTTCC
66 ACCTATTGCGGCGTTTGTTCC--AAAAACGCCGCTATA-ATATAACCTTTTGCGGCGTTTGTTCC
* * *
764393 AAAAACGCCGCTATAGATATCAACCTTTTGCGGCGTTAGTTCC-AAAAACGCCTCTATAGATATC
1 AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTAGTTCCAAAAAACACCGCTAT--ATATC
* * *
764457 -AACCTTTTGCGGCGTTTGTTCCAAAAACACCGCTATAGATATAAACCTTTTGCGGCGTTTATTC
64 TAACCTATTGCGGCGTTTGTTCCAAAAACGCCGCTATA-ATAT-AACCTTTTGCGGCGTTTGTTC
764521 C
127 C
764522 AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTT
1 AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTT
764559 TTTGGTTCTC
Statistics
Matches: 245, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
127 29 0.12
128 61 0.25
129 97 0.40
130 51 0.21
131 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (127 bp):
AAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTAGTTCCAAAAAACACCGCTATATATCTA
ACCTATTGCGGCGTTTGTTCCAAAAACGCCGCTATAATATAACCTTTTGCGGCGTTTGTTCC
Found at i:764799 original size:27 final size:27
Alignment explanation
Indices: 764764--764840 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
764754 TAGTATAAAT
*
764764 TATATTATATAGTATATAAATATCAAC
1 TATAATATATAGTATATAAATATCAAC
* *
764791 TATAGTATATAGTATAGAAATATCAAC
1 TATAATATATAGTATATAAATATCAAC
* *
764818 TATAATATATAGTTTATATATAT
1 TATAATATATAGTATATAAATAT
764841 AGTTCATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATCAAC
Found at i:764842 original size:47 final size:45
Alignment explanation
Indices: 764791--764929 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 45
764781 AAATATCAAC
764791 TATAGTATATAGTATAGAAATATCAACTATAATATATAGTTTATATA
1 TATAGTATATA-TATA-AAATATCAACTATAATATATAGTTTATATA
* *
764838 TATAGT-TCATATGTAAACTAT--ACTGTATAGTATATATAGTTTATATA
1 TATAGTAT-ATATATAAAATATCAAC--TATA--ATATATAGTTTATATA
* * * *
764885 TATAATATATAATATATAAATGTCAACTATAGTATATAATTTATA
1 TATAGTATAT-ATATA-AAATATCAACTATAATATATAGTTTATA
764930 AATAGAAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
43 2 0.03
45 9 0.12
46 4 0.05
47 44 0.59
48 5 0.07
49 8 0.11
51 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (45 bp):
TATAGTATATATATAAAATATCAACTATAATATATAGTTTATATA
Found at i:765034 original size:31 final size:31
Alignment explanation
Indices: 764994--765162 Score: 135
Period size: 33 Copynumber: 5.4 Consensus size: 31
764984 TCGTTAATAA
*
764994 ACTATATATATAGTTCATATGTAAACTATAT
1 ACTATATATATAGTTTATATGTAAACTATAT
* * ** *
765025 A--GTATATATAGTTTATATATGTAGTATAT
1 ACTATATATATAGTTTATATGTAAACTATAT
* * ** * *
765054 ATTATATAAATAGTTTATATTGTTCATTAATAA
1 ACTATATATATAGTTTATA-TGTAAACT-ATAT
765087 ACTATATATATAGTTTATATGTAAACTATAT
1 ACTATATATATAGTTTATATGTAAACTATAT
* * * *
765118 AGTTTATATATATAATTCATATGTAAACTACTAA
1 A--CTATATATATAGTTTATATGTAAACTA-TAT
765152 ACTATATATAT
1 ACTATATATAT
765163 TATATAGTTT
Statistics
Matches: 107, Mismatches: 24, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
29 23 0.21
31 19 0.18
32 18 0.17
33 44 0.41
34 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (31 bp):
ACTATATATATAGTTTATATGTAAACTATAT
Found at i:765043 original size:20 final size:20
Alignment explanation
Indices: 765020--765129 Score: 66
Period size: 20 Copynumber: 5.3 Consensus size: 20
765010 ATATGTAAAC
765020 TATATAGTATATATAGTTTA
1 TATATAGTATATATAGTTTA
765040 TATAT-GTAGTATATA-TTATA
1 TATATAGTA-TATATAGTT-TA
* * *
765060 TAAATAGTTTATATTGTTCATTAA
1 TATATAGTATATATAG-T--TT-A
*
765084 TAAACTA-TATATATAGTTTA
1 TATA-TAGTATATATAGTTTA
* *
765104 TATGTA-AACTATATAGTTTA
1 TATATAGTA-TATATAGTTTA
765124 TATATA
1 TATATA
765130 TAATTCATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
19 8 0.11
20 41 0.58
21 4 0.06
22 1 0.01
23 2 0.03
24 13 0.18
25 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (20 bp):
TATATAGTATATATAGTTTA
Found at i:765068 original size:93 final size:92
Alignment explanation
Indices: 764939--765127 Score: 297
Period size: 93 Copynumber: 2.0 Consensus size: 92
764929 AAATAGAAAC
* *
764939 TATAGTTTATATATATAATAATACTATATAATTAGTTTATATAGTTCGTTAATAAACTATATATA
1 TATAGTTTATATATATAATAATACTATATAAATAGTTTATATAGTTCATTAATAAACTATATATA
765004 TAGTTCATATGTAAACTATATAGTATA
66 TAGTTCATATGTAAACTATATAGTATA
* * * *
765031 TATAGTTTATATATGTAGTATATATTATATAAATAGTTTATATTGTTCATTAATAAACTATATAT
1 TATAGTTTATATATATAATA-ATACTATATAAATAGTTTATATAGTTCATTAATAAACTATATAT
* *
765096 ATAGTTTATATGTAAACTATATAGTTTA
65 ATAGTTCATATGTAAACTATATAGTATA
765124 TATA
1 TATA
765128 TATAATTCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 18 0.20
93 70 0.80
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (92 bp):
TATAGTTTATATATATAATAATACTATATAAATAGTTTATATAGTTCATTAATAAACTATATATA
TAGTTCATATGTAAACTATATAGTATA
Found at i:765139 original size:22 final size:22
Alignment explanation
Indices: 765094--765220 Score: 60
Period size: 22 Copynumber: 6.2 Consensus size: 22
765084 TAAACTATAT
* *
765094 ATATAGTTTATATGTA-AACT-
1 ATATAGTTTATATATATAATTC
765114 ATATAGTTTATATATATAATTC
1 ATATAGTTTATATATATAATTC
*
765136 ATAT-G--TA-A-ACTACTAA-AC
1 ATATAGTTTATATA-TA-TAATTC
* * *
765154 -TATA-TATAT-TATATAGTTT
1 ATATAGTTTATATATATAATTC
* * *
765173 ACATAGTTTATATATATAGTTT
1 ATATAGTTTATATATATAATTC
* *
765195 ATATAGTTTATACATATAGTTC
1 ATATAGTTTATATATATAATTC
765217 ATAT
1 ATAT
765221 GTAAACTATA
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
17 4 0.05
18 6 0.07
19 9 0.11
20 19 0.23
21 8 0.10
22 37 0.45
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (22 bp):
ATATAGTTTATATATATAATTC
Found at i:765193 original size:13 final size:13
Alignment explanation
Indices: 765175--765199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
765165 TATAGTTTAC
765175 ATAGTTTATATAT
1 ATAGTTTATATAT
765188 ATAGTTTATATA
1 ATAGTTTATATA
765200 GTTTATACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:765282 original size:81 final size:80
Alignment explanation
Indices: 765113--765274 Score: 197
Period size: 81 Copynumber: 2.0 Consensus size: 80
765103 ATATGTAAAC
* **
765113 TATATAGTTTATATATATAATTCATATGTAAACTACTAAACTATATATATTATATAGTTTACATA
1 TATATAGTTTATACATATAATTCATATGTAAACTACTAAACTATATATATTATATAGTAAACATA
*
765178 GTTTATATATATAGTT
66 G-TTATATATACAGTT
* * *
765194 TATATAGTTTATACATATAGTTCATATGTAAACTA-TATAGTATATATAATTCATAT-GTAAAC-
1 TATATAGTTTATACATATAATTCATATGTAAACTACTAAACTATATAT-ATT-ATATAGTAAACA
765256 TA-TTAGTATATACAGTT
64 TAGTTA-TATATACAGTT
765273 TA
1 TA
765275 CATATAGTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.04
79 12 0.17
80 12 0.17
81 40 0.56
82 4 0.06
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (80 bp):
TATATAGTTTATACATATAATTCATATGTAAACTACTAAACTATATATATTATATAGTAAACATA
GTTATATATACAGTT
Found at i:765356 original size:22 final size:22
Alignment explanation
Indices: 765329--765392 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
765319 ATTACTATAT
765329 ATAAACTATATAGTTTATATTA
1 ATAAACTATATAGTTTATATTA
*
765351 ATAAACTATATAATTTATATTA
1 ATAAACTATATAGTTTATATTA
*
765373 ATAAACTATGTAGTTTATAT
1 ATAAACTATATAGTTTATAT
765393 ATAGTTCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATAAACTATATAGTTTATATTA
Found at i:765438 original size:22 final size:22
Alignment explanation
Indices: 765411--765453 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
765401 ATAGTTCATA
*
765411 TATAAACTATATAGTTTATGCC
1 TATAAACAATATAGTTTATGCC
*
765433 TATAAACAATGTAGTTTATGC
1 TATAAACAATATAGTTTATGC
765454 ATGGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
TATAAACAATATAGTTTATGCC
Found at i:765482 original size:2 final size:2
Alignment explanation
Indices: 765477--765745 Score: 143
Period size: 2 Copynumber: 134.5 Consensus size: 2
765467 TTTATACTTA
* * *
765477 AT AT AT AT AT AT AT AT AT AT AGT TT AT AT AT AGT AT AT AA AA AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT
* * * * *
765521 GT AA AT AT AA ACT AT AT AGT -T CT TT AT AT AT A- AT AT AT AT ACT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
765564 TT AT AT AT AA ACT AT AT AGT TT AT GT AT AGT TT AT AT -T A- AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
765605 AA ACT AT AT AT -T TT AT AC AT A- AT AT AT AT A- AT TT TT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
765645 AGT AT AT A- AT A- AT AT AA AT AT A- ACT AT AT AGT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
765685 AT A- AT AT -T AT -T AT AT AGT -T CAT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT
765725 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
765746 GTTGTTTCAA
Statistics
Matches: 208, Mismatches: 31, Indels: 56
0.71 0.11 0.19
Matches are distributed among these distances:
1 14 0.07
2 177 0.85
3 17 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:765612 original size:33 final size:31
Alignment explanation
Indices: 765558--765620 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
765548 ATATAATATA
765558 TATACTTTATATATAAACTATATAGTTTATG
1 TATACTTTATATATAAACTATATAGTTTATG
* *
765589 TATAGTTTATATTAATAAACTATATATTTTAT
1 TATACTTTATA-T-ATAAACTATATAGTTTAT
765621 ACATAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.36
32 1 0.04
33 17 0.61
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (31 bp):
TATACTTTATATATAAACTATATAGTTTATG
Found at i:765613 original size:53 final size:53
Alignment explanation
Indices: 765556--765745 Score: 138
Period size: 53 Copynumber: 3.5 Consensus size: 53
765546 ATATATAATA
* * * * *
765556 TATATACTTTATATATAA-ACTATATAGTTTATGTATAGTTTATATTAATAAAC
1 TATATACTTTATACATAATA-TATATAATTTATATATAGTATATAATAATAAAC
* * *
765609 TATATATTTTATACATAATATATATAATTTTTATATAGTATATAATAATATAAA
1 TATATACTTTATACATAATATATATAATTTATATATAGTATATAATAATA-AAC
* * *
765663 TATA-ACTATATA-GTATATATATATAATATTATTATATAGTTCATATATATATATATA-
1 TATATACTTTATACATA-ATATATATAAT-TTA-TATATAG-T-ATATA-ATA-ATAAAC
* *
765720 TATATA-TATATATATATATATATATA
1 TATATACTTTATACATA-ATATATATA
765746 GTTGTTTCAA
Statistics
Matches: 112, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 58 0.52
54 9 0.08
55 7 0.06
56 1 0.01
57 15 0.13
58 17 0.15
59 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (53 bp):
TATATACTTTATACATAATATATATAATTTATATATAGTATATAATAATAAAC
Found at i:765633 original size:33 final size:33
Alignment explanation
Indices: 765570--765696 Score: 88
Period size: 33 Copynumber: 4.0 Consensus size: 33
765560 TACTTTATAT
** * *
765570 ATAAACTATATAGTTTATGTATAGTTTATATTA
1 ATAAACTATATAGTTTATACATAATATATATTA
*
765603 ATAAACTATATATTTTATACATAATATATA-TA
1 ATAAACTATATAGTTTATACATAATATATATTA
*** * *
765635 AT-TTTTATATAGTATATA-ATAATATA-AAT-
1 ATAAACTATATAGTTTATACATAATATATATTA
*
765664 AT-AACTATATAGTATATATATATAATAT-TATTA
1 ATAAACTATATAGT-T-TATACATAATATATATTA
765697 TATAGTTCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
29 11 0.15
30 9 0.12
31 15 0.21
32 13 0.18
33 25 0.34
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (33 bp):
ATAAACTATATAGTTTATACATAATATATATTA
Found at i:766810 original size:26 final size:26
Alignment explanation
Indices: 766774--766870 Score: 176
Period size: 26 Copynumber: 3.7 Consensus size: 26
766764 TGCCTAACAA
*
766774 CTCAACTCTTCATGAGTCTCTATTTC
1 CTCACCTCTTCATGAGTCTCTATTTC
766800 CTCACCTCTTCATGAGTCTCTATTTC
1 CTCACCTCTTCATGAGTCTCTATTTC
*
766826 CTCACCTCTTCATGATTCTCTATTTC
1 CTCACCTCTTCATGAGTCTCTATTTC
766852 CTCACCTCTTCATGAGTCT
1 CTCACCTCTTCATGAGTCT
766871 ATTTCTTCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.16, C:0.34, G:0.07, T:0.42
Consensus pattern (26 bp):
CTCACCTCTTCATGAGTCTCTATTTC
Found at i:772104 original size:3 final size:3
Alignment explanation
Indices: 772096--772123 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
772086 GAGGTGATGC
772096 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
772124 ACATATTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:785244 original size:6 final size:6
Alignment explanation
Indices: 785227--785371 Score: 254
Period size: 6 Copynumber: 24.2 Consensus size: 6
785217 AAGGGGATGC
*
785227 TCATGG TGATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG
1 TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG
785275 TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG
1 TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG
* * *
785323 TCATGG TAATGG TCATGG TCATGG TCATGG TCATGG TGATGA TCATGG
1 TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG TCATGG
785371 T
1 T
785372 GATCATAAAG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 131 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (6 bp):
TCATGG
Found at i:799858 original size:23 final size:23
Alignment explanation
Indices: 799828--799877 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
799818 AACGTGGCCT
799828 CCTCCACGAAGCTTCCCTCGAGC
1 CCTCCACGAAGCTTCCCTCGAGC
799851 CCTCCACGAAGCTTCCCTCGAGC
1 CCTCCACGAAGCTTCCCTCGAGC
799874 CCTC
1 CCTC
799878 TGGTCGCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.50, G:0.16, T:0.18
Consensus pattern (23 bp):
CCTCCACGAAGCTTCCCTCGAGC
Found at i:810941 original size:37 final size:37
Alignment explanation
Indices: 810891--810974 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
810881 CAAAGTTTCC
810891 CTCATGGAAGTTATAACCGCCATGAAAGGTAGACATT
1 CTCATGGAAGTTATAACCGCCATGAAAGGTAGACATT
810928 CTCATGGAAGTTATAACCGCCATGAAAGGTAGACATT
1 CTCATGGAAGTTATAACCGCCATGAAAGGTAGACATT
810965 CTCATGGAAG
1 CTCATGGAAG
810975 ACCTTTCAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (37 bp):
CTCATGGAAGTTATAACCGCCATGAAAGGTAGACATT
Found at i:818129 original size:18 final size:18
Alignment explanation
Indices: 818106--818141 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
818096 AAAAAGAGAT
818106 GTTTTGTACTTAATTGAG
1 GTTTTGTACTTAATTGAG
*
818124 GTTTTGTACTTGATTGAG
1 GTTTTGTACTTAATTGAG
818142 CTGCATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (18 bp):
GTTTTGTACTTAATTGAG
Found at i:821275 original size:43 final size:43
Alignment explanation
Indices: 821214--821300 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
821204 TACGTTAAAG
821214 ATGCCATACAGAATATTATATCTATTGATAATAAATGCAGTTT
1 ATGCCATACAGAATATTATATCTATTGATAATAAATGCAGTTT
* *
821257 ATGCCATATAGAATATTATTTCTATTGATAATAAATGCAGTTT
1 ATGCCATACAGAATATTATATCTATTGATAATAAATGCAGTTT
821300 A
1 A
821301 ATCTCGGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (43 bp):
ATGCCATACAGAATATTATATCTATTGATAATAAATGCAGTTT
Found at i:825959 original size:11 final size:11
Alignment explanation
Indices: 825943--826031 Score: 61
Period size: 11 Copynumber: 7.4 Consensus size: 11
825933 ATATTATATA
825943 ATTTTGAAAAT
1 ATTTTGAAAAT
825954 ATTTTGAAAAT
1 ATTTTGAAAAT
* *
825965 ATATATGATATAT
1 AT-TTTGA-AAAT
825978 AATTTTGAAAAT
1 -ATTTTGAAAAT
*
825990 ATATATATGATATAT
1 AT-T-T-TGA-AAAT
* *
826005 AGTTTTTAAAAC
1 A-TTTTGAAAAT
826017 ATTTTGAAAAT
1 ATTTTGAAAAT
826028 ATTT
1 ATTT
826032 ATAATATATG
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
11 27 0.45
12 11 0.18
13 10 0.17
14 6 0.10
15 5 0.08
16 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (11 bp):
ATTTTGAAAAT
Found at i:825977 original size:36 final size:35
Alignment explanation
Indices: 825930--826186 Score: 194
Period size: 36 Copynumber: 7.4 Consensus size: 35
825920 AATATATATG
* *
825930 TATATAT-TATATAATTTTGAAAATATTTTGAAAA
1 TATATATATATATAATTTTTAAAACATTTTGAAAA
*
825964 TATATATGATATATAA-TTTTGAAA-A---T----A
1 TATATAT-ATATATAATTTTTAAAACATTTTGAAAA
*
825991 TATATATGATATATAGTTTTTAAAACATTTTGAAAA
1 TATATAT-ATATATAATTTTTAAAACATTTTGAAAA
* * *
826027 TATTTATAATATATGATTTTTTTAAACATTTTGAAAA
1 TATATAT-ATATAT-AATTTTTAAAACATTTTGAAAA
* ***
826064 TATATA-ATATGTAATTTTTAAATTTTTTTTGAAAA
1 TATATATATATATAATTTTTAAA-ACATTTTGAAAA
*
826099 CGTATATATATTATATAGTTTTTAAAACATTTTGAAAA
1 --TATATATA-TATATAATTTTTAAAACATTTTGAAAA
* * *
826137 CATATATATTATATAGTTTTTAAAACATTTTTAAAA
1 TATATATA-TATATAATTTTTAAAACATTTTGAAAA
* * *
826173 AACATAAATATATA
1 TATATATATATATA
826187 TATATATATA
Statistics
Matches: 181, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
27 16 0.09
28 7 0.04
29 1 0.01
31 1 0.01
32 1 0.01
34 16 0.09
35 26 0.14
36 59 0.33
37 31 0.17
38 10 0.06
39 13 0.07
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (35 bp):
TATATATATATATAATTTTTAAAACATTTTGAAAA
Found at i:825993 original size:27 final size:26
Alignment explanation
Indices: 825954--826015 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 26
825944 TTTTGAAAAT
825954 ATTTTG-AAAATATATATGATATATA
1 ATTTTGAAAAATATATATGATATATA
825979 ATTTTGAAAATATATATATGATATATA
1 ATTTTGAAAA-ATATATATGATATATA
* *
826006 GTTTTTAAAA
1 ATTTTGAAAA
826016 CATTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 6 0.18
26 3 0.09
27 24 0.73
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (26 bp):
ATTTTGAAAAATATATATGATATATA
Found at i:826021 original size:63 final size:61
Alignment explanation
Indices: 825930--826046 Score: 162
Period size: 63 Copynumber: 1.9 Consensus size: 61
825920 AATATATATG
* *
825930 TATATATTATATAATTTTGAAAATATTTTGAAAATATATATGATATATAATTTTGAAAATA
1 TATATATTATATAATTTTGAAAACATTTTGAAAATATATATAATATATAATTTTGAAAATA
* * * *
825991 TATATATGATATATAGTTTTTAAAACATTTTGAAAATATTTATAATATATGATTTT
1 TATATAT--TATATAATTTTGAAAACATTTTGAAAATATATATAATATATAATTTT
826047 TTTAAACATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 7 0.15
63 41 0.85
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (61 bp):
TATATATTATATAATTTTGAAAACATTTTGAAAATATATATAATATATAATTTTGAAAATA
Found at i:826127 original size:73 final size:74
Alignment explanation
Indices: 825979--826160 Score: 192
Period size: 75 Copynumber: 2.5 Consensus size: 74
825969 ATGATATATA
* * *** *
825979 ATTTTGAAAATATATATATGATATATAGTTTTTAAA-ACATTTTGAAAATATTTATAATATATGA
1 ATTTTGAAAACATATATA--ATATATAATTTTTAAATTTTTTTTGAAAATATATATAATATATGA
* *
826043 TTTTTTTAAAC
64 GTTTTTAAAAC
* *
826054 ATTTTG-AAA-ATATATAATATGTAATTTTTAAATTTTTTTTGAAAACGTATATATATTATAT-A
1 ATTTTGAAAACATATATAATATATAATTTTTAAATTTTTTTTGAAAA--TATATATAATATATGA
826116 GTTTTTAAAAC
64 GTTTTTAAAAC
* *
826127 ATTTTGAAAACATATATATTATATAGTTTTTAAA
1 ATTTTGAAAACATATATAATATATAATTTTTAAA
826161 ACATTTTTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
71 14 0.16
72 9 0.10
73 23 0.26
74 18 0.20
75 26 0.29
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (74 bp):
ATTTTGAAAACATATATAATATATAATTTTTAAATTTTTTTTGAAAATATATATAATATATGAGT
TTTTAAAAC
Found at i:826183 original size:110 final size:109
Alignment explanation
Indices: 825980--826179 Score: 287
Period size: 110 Copynumber: 1.8 Consensus size: 109
825970 TGATATATAA
* * *
825980 TTTTGAAAATATATATATGATATATAGTTTTTAAAACATTTTGAAAATATTTATAATATATGATT
1 TTTTGAAAATATATATAT-ATATATAGTTTTTAAAACATTTTGAAAACATATATAATATATGAGT
* * *
826045 TTTTTAAACATTTTGAAAATATATAATATGTAATTTTTAAATTTT
65 TTTTAAAACATTTTGAAAAAACATAATATGTAATTTTTAAATTTT
*
826090 TTTTGAAAACGTATATATAT-TATATAGTTTTTAAAACATTTTGAAAACATATATATTATAT-AG
1 TTTTGAAAA--TATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAATATATGAG
*
826153 TTTTTAAAACATTTTTAAAAAACATAA
64 TTTTTAAAACATTTTGAAAAAACATAA
826180 ATATATATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
109 24 0.30
110 47 0.59
112 9 0.11
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (109 bp):
TTTTGAAAATATATATATATATATAGTTTTTAAAACATTTTGAAAACATATATAATATATGAGTT
TTTAAAACATTTTGAAAAAACATAATATGTAATTTTTAAATTTT
Found at i:826211 original size:54 final size:55
Alignment explanation
Indices: 826138--826243 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 55
826128 TTTTGAAAAC
826138 ATATATATTATATAGTTTTTAAAACATTTTTAAAAAACATAAATATATATATATAT
1 ATATATATTATATAGTTTTTAAAACATTTTTAAAAAACATAAATA-ATATATATAT
* * * *
826194 ATATATATTATA-A-TTTTTAAAACGTTTTTGAAAAATATATATAATATATA
1 ATATATATTATATAGTTTTTAAAACATTTTTAAAAAACATAAATAATATATA
826244 AGTTTTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 7 0.15
54 26 0.57
55 1 0.02
56 12 0.26
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (55 bp):
ATATATATTATATAGTTTTTAAAACATTTTTAAAAAACATAAATAATATATATAT
Found at i:826268 original size:39 final size:38
Alignment explanation
Indices: 826188--826317 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 38
826178 AAATATATAT
*
826188 ATATATATATATATTATAA-TTTTTAAAACGTTTTTGAAAA
1 ATATATATA-ATA-TATAAGTTTTTAAAACATTTTTG-AAA
826228 ATATATATAATATATAAGTTTTTAAAACAATTTTTGAAA
1 ATATATATAATATATAAGTTTTTAAAAC-ATTTTTGAAA
* * * *
826267 ATATA-A-ATTATAT-AGTTTTGAAAATTATTTTTTAAA
1 ATATATATAATATATAAGTTTTTAAAA-CATTTTTGAAA
*
826303 CATATATATTATATA
1 -ATATATATAATATA
826318 GTTTTAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
36 19 0.25
37 11 0.14
38 7 0.09
39 25 0.32
40 15 0.19
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (38 bp):
ATATATATAATATATAAGTTTTTAAAACATTTTTGAAA
Found at i:826280 original size:37 final size:36
Alignment explanation
Indices: 826194--826334 Score: 121
Period size: 36 Copynumber: 3.9 Consensus size: 36
826184 ATATATATAT
* *
826194 ATATATATTATA-A-TTTTTAAAAC-GTTTTTGAAAA
1 ATATAAATTATATAGTTTTTAAAACAATTTTTG-AAA
*
826228 ATATATATAATATATAAGTTTTTAAAACAATTTTTGAAA
1 ATATA-A-ATTATAT-AGTTTTTAAAACAATTTTTGAAA
* ** *
826267 ATATAAATTATATAGTTTTGAAAATTATTTTTTAAA
1 ATATAAATTATATAGTTTTTAAAACAATTTTTGAAA
*
826303 CATATATATTATATAG-TTTTAAAA-AATGTTTT
1 -ATATAAATTATATAGTTTTTAAAACAAT-TTTT
826335 TTTATTATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
34 5 0.06
35 2 0.02
36 35 0.40
37 20 0.23
38 2 0.02
39 18 0.20
40 6 0.07
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.48
Consensus pattern (36 bp):
ATATAAATTATATAGTTTTTAAAACAATTTTTGAAA
Found at i:826316 original size:129 final size:126
Alignment explanation
Indices: 826063--826317 Score: 313
Period size: 129 Copynumber: 2.0 Consensus size: 126
826053 CATTTTGAAA
* *** * *
826063 ATATATAATATGTAATTTTTAAATTTTTTTTGAAAACGTATATATATTATATAGTTTTTAAAACA
1 ATATATAATATATAATTTTTAAAACGTTTTTGAAAACATATATATAATATATAGTTTTTAAAACA
* *
826128 TTTTGAAAACATATATATTATATAGTTTTTAAAACATTTTTAAAAAACATAAATATATATAT
66 TTTTGAAAACATATAAATTATATAGTTTTGAAAACATTTTT-AAAAACATAAATATATATAT
826190 ATATATATATATTATAATTTTTAAAACGTTTTTGAAAA-ATATATATAATATATAAGTTTTTAAA
1 ATATATA-ATA-TATAATTTTTAAAACGTTTTTGAAAACATATATATAATATAT-AGTTTTTAAA
* * *
826254 ACAATTTTTG-AAA-ATATAAATTATATAGTTTTGAAAATTATTTTT-TAAACATATATAT-TAT
63 AC-A-TTTTGAAAACATATAAATTATATAGTTTTGAAAA-CATTTTTAAAAACATAAATATATAT
826315 AT
125 AT
826317 A
1 A
826318 GTTTTAAAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
127 13 0.12
128 27 0.24
129 56 0.50
130 10 0.09
131 5 0.05
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (126 bp):
ATATATAATATATAATTTTTAAAACGTTTTTGAAAACATATATATAATATATAGTTTTTAAAACA
TTTTGAAAACATATAAATTATATAGTTTTGAAAACATTTTTAAAAACATAAATATATATAT
Found at i:826336 original size:37 final size:36
Alignment explanation
Indices: 826194--826335 Score: 123
Period size: 37 Copynumber: 3.9 Consensus size: 36
826184 ATATATATAT
* *
826194 ATATATATTATA-A-TTTT-TAAAACGTTTTTGAAAA
1 ATATATATTATATAGTTTTAAAAAATGTTTTTG-AAA
826228 ATATATATAATATATAAGTTTTTAAAACAA--TTTTTGAAA
1 ATATATAT--TATAT-AG-TTTTAAAA-AATGTTTTTGAAA
* * * * *
826267 ATATAAATTATATAGTTTTGAAAATTATTTTTTAAA
1 ATATATATTATATAGTTTTAAAAAATGTTTTTGAAA
826303 CATATATATTATATAGTTTTAAAAAATGTTTTT
1 -ATATATATTATATAGTTTTAAAAAATGTTTTT
826336 TTATTATATT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
34 9 0.10
35 7 0.08
36 14 0.16
37 33 0.38
38 1 0.01
39 10 0.11
40 10 0.11
41 2 0.02
42 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (36 bp):
ATATATATTATATAGTTTTAAAAAATGTTTTTGAAA
Found at i:826342 original size:3 final size:3
Alignment explanation
Indices: 826336--826385 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
826326 AAATGTTTTT
826336 TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
826381 TTA TT
1 TTA TT
826386 TACCATCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:827946 original size:31 final size:31
Alignment explanation
Indices: 827908--828185 Score: 504
Period size: 31 Copynumber: 9.0 Consensus size: 31
827898 CCCGAAGGAC
* * *
827908 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
827939 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
827970 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
828001 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
828032 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
828063 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
828094 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
828125 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
828156 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
828186 CCCTCGACCC
Statistics
Matches: 241, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
31 240 1.00
32 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:830860 original size:20 final size:22
Alignment explanation
Indices: 830825--830865 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
830815 AAAAATATAC
830825 TAAAATAAATTATTTTTAAAAT
1 TAAAATAAATTATTTTTAAAAT
830847 TAAAA-AAA-TATTTTTAAAA
1 TAAAATAAATTATTTTTAAAA
830866 AGTAATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATAAATTATTTTTAAAAT
Found at i:830939 original size:16 final size:16
Alignment explanation
Indices: 830908--830950 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
830898 ATTAAGAAAA
*
830908 AATTATTT-TATAACT
1 AATTATTTATTTAACT
830923 AATTATTTATTTAACT
1 AATTATTTATTTAACT
830939 -ATTATTATATTT
1 AATTATT-TATTT
830951 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTTATTTAACT
Found at i:836226 original size:33 final size:32
Alignment explanation
Indices: 836181--836257 Score: 100
Period size: 33 Copynumber: 2.4 Consensus size: 32
836171 TTAAATTTTG
* * *
836181 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGAAAGTATTTAACTA
* *
836213 TTTTAATTTATCGAACTTTAAAGTATTTAACTA
1 TTTCAA-TTATCGAACTTGAAAGTATTTAACTA
836246 TTTCAATTATCG
1 TTTCAATTATCG
836258 TAAACTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 11 0.29
33 27 0.71
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.47
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGAAAGTATTTAACTA
Found at i:839151 original size:18 final size:18
Alignment explanation
Indices: 839122--839166 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
839112 CTACATGCAG
*
839122 CAACCTGAAGGTTTCACT
1 CAACCTGGAGGTTTCACT
*
839140 CAACTTGGAGGTTTCACT
1 CAACCTGGAGGTTTCACT
839158 CAACCTGGA
1 CAACCTGGA
839167 AACGAGCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (18 bp):
CAACCTGGAGGTTTCACT
Found at i:841344 original size:85 final size:85
Alignment explanation
Indices: 841201--841367 Score: 264
Period size: 85 Copynumber: 2.0 Consensus size: 85
841191 ACAGTGTCCC
* * *
841201 ATGAAAGATGTCTGAAAGATTTGACGATTTCTAAAAGACCTCTAAAAGATTTGATGATTTCTTCA
1 ATGAAAGATGTCCGAAAGATTTAACGATTCCTAAAAGACCTCTAAAAGATTTGATGATTTCTTCA
841266 AGCTCTATGCATGCCTGCAA
66 AGCTCTATGCATGCCTGCAA
* *
841286 ATGAAAGATGTCCGAAAGATTTAACGATTCCTGAAATACCT-TCAAAAGATTTGATGATTTCTTC
1 ATGAAAGATGTCCGAAAGATTTAACGATTCCTAAAAGACCTCT-AAAAGATTTGATGATTTCTTC
*
841350 AAGCTCTATGTATGCCTG
65 AAGCTCTATGCATGCCTG
841368 GAAGCCGCGT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
84 1 0.01
85 74 0.99
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (85 bp):
ATGAAAGATGTCCGAAAGATTTAACGATTCCTAAAAGACCTCTAAAAGATTTGATGATTTCTTCA
AGCTCTATGCATGCCTGCAA
Found at i:847826 original size:10 final size:10
Alignment explanation
Indices: 847800--847831 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
847790 ATGTTAGATG
847800 AAATTAAATA
1 AAATTAAATA
847810 AAA-TAAATA
1 AAATTAAATA
847819 AAATTAAATA
1 AAATTAAATA
847829 AAA
1 AAA
847832 ATGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATTAAATA
Found at i:855748 original size:31 final size:31
Alignment explanation
Indices: 855679--855751 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
855669 CTACATTTTC
* * **
855679 TTTTATGATTGTTATTTTAAGTTGTAACCTA
1 TTTTATGGTTGTCATTTTAAGTTACAACCTA
*
855710 TTTTATGGTTGTCATTTTAAGTTACACCCTA
1 TTTTATGGTTGTCATTTTAAGTTACAACCTA
855741 TTTTATGGTTG
1 TTTTATGGTTG
855752 CACCACTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.53
Consensus pattern (31 bp):
TTTTATGGTTGTCATTTTAAGTTACAACCTA
Found at i:855761 original size:17 final size:17
Alignment explanation
Indices: 855722--855787 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
855712 TTATGGTTGT
* *
855722 CATTTTAAGTTACACC-
1 CATTTTAGGTTGCACCA
855738 CTATTTTATGGTTGCACCA
1 C-ATTTTA-GGTTGCACCA
*
855757 C-TTTTCAAGTTGCACCA
1 CATTTT-AGGTTGCACCA
855774 CATTTTAGGTTGCA
1 CATTTTAGGTTGCA
855788 ACTCTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
16 1 0.02
17 27 0.66
18 12 0.29
19 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (17 bp):
CATTTTAGGTTGCACCA
Found at i:855779 original size:35 final size:33
Alignment explanation
Indices: 855692--855787 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 33
855682 TATGATTGTT
** * *
855692 ATTTTAAGTTGTAACCTATTTTATGGTTG--TC
1 ATTTTAAGTTACACCCTATTTTATGGTTGCACC
855723 ATTTTAAGTTACACCCTATTTTATGGTTGCACC
1 ATTTTAAGTTACACCCTATTTTATGGTTGCACC
*
855756 ACTTTTCAAGTTGCACCAC-ATTTTA-GGTTGCA
1 A-TTTT-AAGTTACACC-CTATTTTATGGTTGCA
855788 ACTCTTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
31 26 0.47
33 2 0.04
34 11 0.20
35 15 0.27
36 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (33 bp):
ATTTTAAGTTACACCCTATTTTATGGTTGCACC
Found at i:855795 original size:34 final size:34
Alignment explanation
Indices: 855706--855795 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 34
855696 TAAGTTGTAA
*
855706 CCTATTTTATGGTTG--TCA-TTTTAAGTTACAC
1 CCTATTTTATGGTTGCAACACTTTTAAGTTACAC
* *
855737 CCTATTTTATGGTTGCACCACTTTTCAAGTTGCAC
1 CCTATTTTATGGTTGCAACACTTTT-AAGTTACAC
*
855772 CAC-ATTTTA-GGTTGCAACTCTTTT
1 C-CTATTTTATGGTTGCAACACTTTT
855796 TATGTTGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
31 15 0.30
33 2 0.04
34 17 0.34
35 15 0.30
36 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (34 bp):
CCTATTTTATGGTTGCAACACTTTTAAGTTACAC
Found at i:855971 original size:12 final size:12
Alignment explanation
Indices: 855933--856017 Score: 50
Period size: 12 Copynumber: 7.0 Consensus size: 12
855923 ATGTAGAAAG
855933 TTTATTAAAAA-
1 TTTATTAAAAAT
* *
855944 TATA-TAAATAAA
1 TTTATTAAA-AAT
855956 TTTATTAAAAAT
1 TTTATTAAAAAT
*
855968 TTTAATAAAAAT
1 TTTATTAAAAAT
* *
855980 ATATATTAAATTAT
1 -TTTATTAAA-AAT
* *
855994 TTGTA-TATAACT
1 TT-TATTAAAAAT
856006 TTTATTAAAAAT
1 TTTATTAAAAAT
856018 ATATAAATTA
Statistics
Matches: 54, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
10 4 0.07
11 7 0.13
12 24 0.44
13 15 0.28
14 4 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (12 bp):
TTTATTAAAAAT
Found at i:855978 original size:35 final size:36
Alignment explanation
Indices: 855919--856025 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 36
855909 CAAATAATTT
* *
855919 ATTTATGTAGAAAGTTTATTAAAAATATATAAATAA
1 ATTTATGTAAAAATTTTATTAAAAATATATAAATAA
* *
855955 ATTTAT-TAAAAATTTTAATAAAAATATAT-ATTAA
1 ATTTATGTAAAAATTTTATTAAAAATATATAAATAA
* *
855989 ATTATTTGTATATAACTTTTATTAAAAATATATAAAT
1 ATT-TATGTA-A-AAATTTTATTAAAAATATATAAAT
856026 TAGAAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
34 7 0.12
35 22 0.38
36 8 0.14
37 1 0.02
38 18 0.31
39 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (36 bp):
ATTTATGTAAAAATTTTATTAAAAATATATAAATAA
Found at i:856651 original size:16 final size:16
Alignment explanation
Indices: 856570--856653 Score: 71
Period size: 16 Copynumber: 5.2 Consensus size: 16
856560 GATCCGAATT
* *
856570 GAAAATAACTCGAATC
1 GAAATTAACTCGAACC
* *
856586 AAAATTAACCCGAACC
1 GAAATTAACTCGAACC
** *
856602 GAAAACAA-TCTGAATC
1 GAAATTAACTC-GAACC
* *
856618 GAAATTAACCCGATCC
1 GAAATTAACTCGAACC
856634 GAAATTAACTCGAACC
1 GAAATTAACTCGAACC
856650 GAAA
1 GAAA
856654 GCAACCTGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
15 1 0.02
16 48 0.96
17 1 0.02
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.17
Consensus pattern (16 bp):
GAAATTAACTCGAACC
Found at i:856653 original size:32 final size:32
Alignment explanation
Indices: 856570--856653 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
856560 GATCCGAATT
*
856570 GAAAATAACTCGAATCAAAATTAACCCGAACC
1 GAAAATAACTCGAATCGAAATTAACCCGAACC
* *
856602 GAAAACAA-TCTGAATCGAAATTAACCCGATCC
1 GAAAATAACTC-GAATCGAAATTAACCCGAACC
* *
856634 GAAATTAACTCGAACCGAAA
1 GAAAATAACTCGAATCGAAA
856654 GCAACCTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 2 0.05
32 40 0.91
33 2 0.05
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.17
Consensus pattern (32 bp):
GAAAATAACTCGAATCGAAATTAACCCGAACC
Found at i:858916 original size:21 final size:21
Alignment explanation
Indices: 858865--858917 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
858855 ATTATGACTA
858865 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
858886 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
858907 TCGCAATGCGA
1 TCGCAATGCGA
858918 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:858937 original size:41 final size:41
Alignment explanation
Indices: 858892--859123 Score: 132
Period size: 41 Copynumber: 5.7 Consensus size: 41
858882 AATTTCGCGT
*
858892 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * *
858933 TGCGAATTTGGAAATTCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
** * * * * * **
858974 TGTAATTTTCCTAATTCGCATTACGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
* *
859015 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
859056 CGCGA-TTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
* * * *
859097 TGCGA-ATACGTAAATCGCAATGCGAAT
1 TGCGATTTTCCTAATTCGCAATGCGAAT
859124 CTTACTATCG
Statistics
Matches: 144, Mismatches: 40, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
39 2 0.01
40 26 0.18
41 114 0.79
43 1 0.01
44 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:858953 original size:21 final size:21
Alignment explanation
Indices: 858904--858958 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
858894 CGATTTTCCC
*
858904 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
**
858925 AA-TCGCAATGCGAATTTGGA
1 AATTCGCAATGCGAATAAGGA
858945 AATTCGCAATGCGA
1 AATTCGCAATGCGA
858959 TACTGACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:859002 original size:21 final size:21
Alignment explanation
Indices: 858978--859034 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
858968 TCGCAATGTA
*
858978 ATTTTCCTAATTCGCATTACG
1 ATTTTCATAATTCGCATTACG
* * * *
858999 ATTTACGT-ATTCGCGTTGCG
1 ATTTTCATAATTCGCATTACG
859019 ATTTTCATAATTCGCA
1 ATTTTCATAATTCGCA
859035 ATGCGAATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (21 bp):
ATTTTCATAATTCGCATTACG
Found at i:859039 original size:21 final size:21
Alignment explanation
Indices: 858865--859040 Score: 69
Period size: 21 Copynumber: 8.5 Consensus size: 21
858855 ATTATGACTA
*
858865 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** **
858886 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
* * *
858907 TCGCAATGCGA--ATAAGTAAA
1 TCGCAATGCGATTTTCA-TAAT
**
858927 TCGCAATGCGAATTTGGA-AAT
1 TCGCAATGCG-ATTTTCATAAT
** *
858948 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
** *
858968 TCGCAATGTAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * * *
858989 TCGCATTACGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
859009 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
859030 TCGCAATGCGA
1 TCGCAATGCGA
859041 ATACGTAAAT
Statistics
Matches: 109, Mismatches: 36, Indels: 20
0.66 0.22 0.12
Matches are distributed among these distances:
19 2 0.02
20 45 0.41
21 61 0.56
23 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:859055 original size:20 final size:20
Alignment explanation
Indices: 859030--859141 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
859020 TTTTCATAAT
859030 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
859050 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
859070 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
859091 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
859111 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
859131 TCGCAATGCGA
1 TCGCAATGCGA
859142 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:859702 original size:19 final size:19
Alignment explanation
Indices: 859667--859738 Score: 126
Period size: 19 Copynumber: 3.7 Consensus size: 19
859657 GAGAATGAAA
859667 ATCGCAACGCGGAAATAACT
1 ATCGCAACGC-GAAATAACT
859687 ATCGCAACGCGAAATAACT
1 ATCGCAACGCGAAATAACT
*
859706 ATCGCAACGCGAAATAAAT
1 ATCGCAACGCGAAATAACT
859725 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
859739 CCAAAATCGC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 41 0.80
20 10 0.20
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATAACT
Found at i:859747 original size:19 final size:18
Alignment explanation
Indices: 859664--859749 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 18
859654 TTCGAGAATG
859664 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGC-GAAAT
*
859683 AACTATCGCAACGCGAAAT
1 AA-AATCGCAACGCGAAAT
*
859702 AACTATCGCAACGCGAAAT
1 AA-AATCGCAACGCGAAAT
*
859721 AAATATCGCAACGCGAAACC
1 AAA-ATCGCAACGCGAAA-T
859741 AAAATCGCA
1 AAAATCGCA
859750 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
19 48 0.79
20 13 0.21
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAT
Found at i:859748 original size:38 final size:38
Alignment explanation
Indices: 859664--859749 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 38
859654 TTCGAGAATG
* *
859664 AAAATCGCAACGCGGAAATAACTATCGCAACGCGAAAT
1 AAAATCGCAACGCGGAAATAAATATCGCAACGCGAAAC
*
859702 AACTATCGCAACGC-GAAATAAATATCGCAACGCGAAACC
1 AA-AATCGCAACGCGGAAATAAATATCGCAACGCGAAA-C
859741 AAAATCGCA
1 AAAATCGCA
859750 TTGCGATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 30 0.71
39 12 0.29
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (38 bp):
AAAATCGCAACGCGGAAATAAATATCGCAACGCGAAAC
Found at i:859830 original size:52 final size:52
Alignment explanation
Indices: 859752--859861 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
859742 AAATCGCATT
**
859752 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTC
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTC
* *
859804 GCGATTTTCATTTCGCTTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTC
859856 GCGATT
1 GCGATT
859862 CTCTCGTTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.44
Consensus pattern (52 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTC
Found at i:859838 original size:14 final size:14
Alignment explanation
Indices: 859821--859874 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
859811 TCATTTCGCT
859821 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
859835 TTGCGATAGTCATTTCGCG
1 TTGCGAT--TC---TCTCG
859854 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
859868 TTGCGAT
1 TTGCGAT
859875 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 18 0.55
16 2 0.06
17 2 0.06
19 11 0.33
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:859893 original size:34 final size:33
Alignment explanation
Indices: 859811--859898 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
859801 GTCGCGATTT
*
859811 TCATTTCGCTTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
859844 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
859877 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
859899 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
Found at i:862092 original size:21 final size:21
Alignment explanation
Indices: 862068--862134 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
862058 TCATTCCTCG
862068 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
862089 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
862110 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
862131 AGAG
1 AGAG
862135 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:862092 original size:42 final size:42
Alignment explanation
Indices: 862016--862134 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
862006 GACTCGCCTG
* * * * * * *
862016 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
862058 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
862100 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
862135 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:863502 original size:14 final size:14
Alignment explanation
Indices: 863483--863518 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
863473 ATTGTTTAAT
863483 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
863497 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
863511 TGATTTGT
1 TGATTTGT
863519 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:863649 original size:19 final size:19
Alignment explanation
Indices: 863625--863709 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
863615 AAAAAGTACT
*
863625 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
863644 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
863658 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
863677 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
863696 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
863710 CTAAATTCGC
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 41 0.71
20 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:863726 original size:19 final size:19
Alignment explanation
Indices: 863657--863719 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
863647 GCAACGAGAG
863657 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
863676 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
863695 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
863714 ATTCGC
1 AATCGC
863720 GTTGCGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 41 0.98
20 1 0.02
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:863761 original size:33 final size:32
Alignment explanation
Indices: 863713--863877 Score: 269
Period size: 33 Copynumber: 5.0 Consensus size: 32
863703 CGCGAAACTA
863713 AATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
863745 -ATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AATT--CGCGTTGCGATTTTCATTTCGCATTGCG
863778 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 -AATTCGCGTTGCGATTTTCATTTCGCATTGCG
863811 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 -AATTCGCGTTGCGATTTTCATTTCGCATTGCG
863844 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 -AATTCGCGTTGCGATTTTCATTTCGCATTGCG
863877 A
1 A
863878 TAGTAATTTC
Statistics
Matches: 127, Mismatches: 2, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
31 3 0.02
32 1 0.01
33 120 0.94
35 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (32 bp):
AATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:863897 original size:20 final size:19
Alignment explanation
Indices: 863847--863900 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
863837 CATTGCGAAA
** *
863847 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATAGTAAT
*
863866 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATAGTAAT
863885 TTCCGCGTTGCGATAG
1 TT-CGCGTTGCGATAG
863901 ACATTAAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (19 bp):
TTCGCGTTGCGATAGTAAT
Found at i:866186 original size:12 final size:12
Alignment explanation
Indices: 866169--866193 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
866159 TCTTTAGGGA
866169 CTTTTTCTTCTT
1 CTTTTTCTTCTT
866181 CTTTTTCTTCTT
1 CTTTTTCTTCTT
866193 C
1 C
866194 AGAATTATAT
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:866402 original size:24 final size:24
Alignment explanation
Indices: 866368--866421 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
866358 CTGAAACATC
*
866368 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
866392 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
866416 ATCAAA
1 ATCAAA
866422 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:867246 original size:20 final size:20
Alignment explanation
Indices: 867213--867291 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
867203 GAATAAGTAA
* *
867213 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
867233 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
867254 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
867274 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
867292 AAATCGCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:867298 original size:20 final size:20
Alignment explanation
Indices: 867251--867300 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
867241 GAGATAATAC
867251 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
867271 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
867291 AAAATCGCAA
1 AAAATCGCAA
867301 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Done.