Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 28
Found at i:5557885 original size:30 final size:28
Alignment explanation
Indices: 5557851--5557911 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
5557841 TTGCTTTCTC
* * *
5557851 TTTTTGAATTTTTCTTTTCTTTTCTTTTTT
1 TTTTTAAATTTTT-TCTTCTTTT-TGTTTT
5557881 TTTTTAAATTTTTTCTTCTTTTTGTTTT
1 TTTTTAAATTTTTTCTTCTTTTTGTTTT
5557909 TTT
1 TTT
5557912 CTTTCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.29
29 8 0.29
30 12 0.43
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.80
Consensus pattern (28 bp):
TTTTTAAATTTTTTCTTCTTTTTGTTTT
Found at i:5564621 original size:13 final size:13
Alignment explanation
Indices: 5564612--5564673 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
5564602 ATATGACGCG
5564612 CATTTATGACACA
1 CATTTATGACACA
5564625 CATTTATGACACA
1 CATTTATGACACA
5564638 CATTTATGACACA
1 CATTTATGACACA
** *
5564651 CATTTATGATGCG
1 CATTTATGACACA
5564664 CATTTATGAC
1 CATTTATGAC
5564674 GTTCATTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:5564680 original size:26 final size:26
Alignment explanation
Indices: 5564603--5564673 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
5564593 GTCATAAATA
5564603 TATGACGCGCATTTATGACACACATT
1 TATGACGCGCATTTATGACACACATT
* *
5564629 TATGACACACATTTATGACACACATT
1 TATGACGCGCATTTATGACACACATT
*
5564655 TATGATGCGCATTTATGAC
1 TATGACGCGCATTTATGAC
5564674 GTTCATTGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (26 bp):
TATGACGCGCATTTATGACACACATT
Found at i:5564774 original size:85 final size:85
Alignment explanation
Indices: 5564630--5564817 Score: 213
Period size: 85 Copynumber: 2.2 Consensus size: 85
5564620 ACACACATTT
* * ** *
5564630 ATGACACACATTTA--TGACACACATTTATGATGCGCATTTATGACGTTCATTGAGCGTCATTGA
1 ATGACACACATTTATGTGTCACAAATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGA
* * *
5564693 AGCCCCCATCA-TAAATTAAG
66 AGCACACATCACTAAA-AAAG
* * *
5564713 ATGACACACATTTATGTGTCATAAATTTATGACACGCATGTATGAC-TTACATTGCGTGTCATTG
1 ATGACACACATTTATGTGTCACAAATTTATGACACGCATGTATGACGTT-CATTGAGCGTCATTG
*
5564777 AAGCACACGTCACTAAAAAAG
65 AAGCACACATCACTAAAAAAG
*
5564798 ATGACACACATTTGTGTGTC
1 ATGACACACATTTATGTGTC
5564818 GTGATTGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
83 14 0.16
84 2 0.02
85 68 0.77
86 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (85 bp):
ATGACACACATTTATGTGTCACAAATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGA
AGCACACATCACTAAAAAAG
Found at i:5584022 original size:17 final size:18
Alignment explanation
Indices: 5583990--5584027 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5583980 TTATATTTTA
5583990 TTAAATATAAAAAATAAT
1 TTAAATATAAAAAATAAT
* *
5584008 TTAAA-ATAAATAATACT
1 TTAAATATAAAAAATAAT
5584025 TTA
1 TTA
5584028 TTATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATATAAAAAATAAT
Found at i:5584376 original size:20 final size:19
Alignment explanation
Indices: 5584332--5584384 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
5584322 ATATATTTTC
*
5584332 CAACAATTGGTATC-TTTT
1 CAACAATTGGTATCATTCT
*
5584350 TAACAATTGGTATCAATTCT
1 CAACAATTGGTATC-ATTCT
5584370 CAACAATTGGTATCA
1 CAACAATTGGTATCA
5584385 GAGCTTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 16 0.53
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
CAACAATTGGTATCATTCT
Found at i:5586417 original size:18 final size:18
Alignment explanation
Indices: 5586394--5586451 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
5586384 CAACAATTGG
*
5586394 TAACAATTGATATCTTTT
1 TAACAATTGGTATCTTTT
*
5586412 TAACAATTGGTGTCCTTTTGT
1 TAACAATTGGTAT-C-TTT-T
5586433 TAACAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
5586451 T
1 T
5586452 CATTAAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.38
19 4 0.12
20 4 0.12
21 13 0.38
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (18 bp):
TAACAATTGGTATCTTTT
Found at i:5586451 original size:21 final size:19
Alignment explanation
Indices: 5586394--5586451 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 19
5586384 CAACAATTGG
*
5586394 TAACAATTGATATC-TTTT
1 TAACAATTGGTATCTTTTT
*
5586412 TAACAATTGGTGTCCTTTTGT
1 TAACAATTGGTAT-CTTTT-T
5586433 TAACAATTGGTATCTTTTT
1 TAACAATTGGTATCTTTTT
5586452 CATTAAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 11 0.32
19 2 0.06
20 8 0.24
21 13 0.38
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (19 bp):
TAACAATTGGTATCTTTTT
Found at i:5586695 original size:22 final size:22
Alignment explanation
Indices: 5586663--5586725 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
5586653 AATACTAAGA
*
5586663 GGTATCAATACCCCTATGAATG
1 GGTACCAATACCCCTATGAATG
* *
5586685 GGTACCGATACCCCTATGATTG
1 GGTACCAATACCCCTATGAATG
*
5586707 GGTATCAATACCCCTATGA
1 GGTACCAATACCCCTATGA
5586726 CTGCTCAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (22 bp):
GGTACCAATACCCCTATGAATG
Found at i:5588852 original size:16 final size:16
Alignment explanation
Indices: 5588833--5588865 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5588823 TAATACATTA
*
5588833 TATATTTATTTTATAT
1 TATATTTACTTTATAT
5588849 TATATTTACTTTATAT
1 TATATTTACTTTATAT
5588865 T
1 T
5588866 TTAGTTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATTTACTTTATAT
Found at i:5590629 original size:76 final size:76
Alignment explanation
Indices: 5590544--5590698 Score: 310
Period size: 76 Copynumber: 2.0 Consensus size: 76
5590534 AGTTTGGGAT
5590544 TAAGGATAGAATAGAACTAGTGGAAGAATAGAGAATAATGAGAATTATGTAAATTTTTATTAGAG
1 TAAGGATAGAATAGAACTAGTGGAAGAATAGAGAATAATGAGAATTATGTAAATTTTTATTAGAG
5590609 TTTAGGGAAAA
66 TTTAGGGAAAA
5590620 TAAGGATAGAATAGAACTAGTGGAAGAATAGAGAATAATGAGAATTATGTAAATTTTTATTAGAG
1 TAAGGATAGAATAGAACTAGTGGAAGAATAGAGAATAATGAGAATTATGTAAATTTTTATTAGAG
5590685 TTTAGGGAAAA
66 TTTAGGGAAAA
5590696 TAA
1 TAA
5590699 AGTCAGGATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.46, C:0.01, G:0.23, T:0.29
Consensus pattern (76 bp):
TAAGGATAGAATAGAACTAGTGGAAGAATAGAGAATAATGAGAATTATGTAAATTTTTATTAGAG
TTTAGGGAAAA
Found at i:5591427 original size:170 final size:170
Alignment explanation
Indices: 5591145--5591470 Score: 537
Period size: 170 Copynumber: 1.9 Consensus size: 170
5591135 ATGCTATCTT
* * *
5591145 TGCTCAATGAAGGGCTAGTGTAATGCTTTGACTTCATTCATGTCCTTTAAAAATGCTTAGACTAT
1 TGCTCAATGAAGGGCTAGTGTAATGCTTTGACATCATTCATGTCCTTAAAAAATGCTGAGACTAT
* * * * * *
5591210 TATGTTAGTTGAGAATGCCAAAAAGGAAACGACTTTAGCCGTTGTGCTTTGTGCTTGTTGAATTT
66 TATGTTAGTTAAGAAAGCCAAAAAGAAAACGACTTTAGCCCTTGTGCTTTGTGATTGTTAAATTT
5591275 GTATTGCCCTATCTATGGCCTTTTAATCGACTTTAAAAAA
131 GTATTGCCCTATCTATGGCCTTTTAATCGACTTTAAAAAA
5591315 TGCTCAATGAAGGGCTCA-TGTAATGCTTTGACATCATTCATGTCCTTAAAAAATGCTGAGACTA
1 TGCTCAATGAAGGGCT-AGTGTAATGCTTTGACATCATTCATGTCCTTAAAAAATGCTGAGACTA
* *
5591379 TTATTTTAGTTAAGAAAGCCAAAAAGAAAACGACTTTTGCCCTTGTGCTTTGTGATTGTTAAATT
65 TTATGTTAGTTAAGAAAGCCAAAAAGAAAACGACTTTAGCCCTTGTGCTTTGTGATTGTTAAATT
5591444 TGTATTGCCCTATCTATGGCCTTTTAA
130 TGTATTGCCCTATCTATGGCCTTTTAA
5591471 ACCTTTTTCG
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
170 143 0.99
171 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (170 bp):
TGCTCAATGAAGGGCTAGTGTAATGCTTTGACATCATTCATGTCCTTAAAAAATGCTGAGACTAT
TATGTTAGTTAAGAAAGCCAAAAAGAAAACGACTTTAGCCCTTGTGCTTTGTGATTGTTAAATTT
GTATTGCCCTATCTATGGCCTTTTAATCGACTTTAAAAAA
Found at i:5591695 original size:24 final size:24
Alignment explanation
Indices: 5591661--5591710 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
5591651 GCGACTTGCA
*
5591661 TTATTTCCACCATTTTGCAACTGT
1 TTATTTACACCATTTTGCAACTGT
5591685 TTATTTACACCATTTTGCAACTGT
1 TTATTTACACCATTTTGCAACTGT
5591709 TT
1 TT
5591711 TTGTGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.48
Consensus pattern (24 bp):
TTATTTACACCATTTTGCAACTGT
Found at i:5597909 original size:160 final size:162
Alignment explanation
Indices: 5597643--5597966 Score: 634
Period size: 160 Copynumber: 2.0 Consensus size: 162
5597633 ATTTAAAAAC
5597643 AATTATGACTTTATTAGGGAAAAATTGGATTATTGAATTATTTTGAATCATAATGAATTGGAGTA
1 AATTATGACTTTATTAGGGAAAAATTGGATTATTGAATTATTTTGAATCATAATGAATTGGAGTA
5597708 GCCATCGACCTTTGGATTAGGGAGGTCGAATACCCAAAAACGTCTTTTAAAACAATTAAAAATCA
66 GCCATCGACCTTTGGATTAGGGAGGTCGAATACCCAAAAACGTCTTTTAAAACAATTAAAAATCA
5597773 TTTAACAGACAAAAGTTGGTCTGTATTTACCA
131 TTTAACAGACAAAAGTTGGTCTGTATTTACCA
5597805 AATTATGACTTTATTAGGGAAAAA-TGGA-TATTGAATTATTTTGAATCATAATGAATTGGAGTA
1 AATTATGACTTTATTAGGGAAAAATTGGATTATTGAATTATTTTGAATCATAATGAATTGGAGTA
5597868 GCCATCGACCTTTGGATTAGGGAGGTCGAATACCCAAAAACGTCTTTTAAAACAATTAAAAATCA
66 GCCATCGACCTTTGGATTAGGGAGGTCGAATACCCAAAAACGTCTTTTAAAACAATTAAAAATCA
5597933 TTTAACAGACAAAAGTTGGTCTGTATTTACCA
131 TTTAACAGACAAAAGTTGGTCTGTATTTACCA
5597965 AA
1 AA
5597967 CATTTATTTT
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
160 134 0.83
161 4 0.02
162 24 0.15
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (162 bp):
AATTATGACTTTATTAGGGAAAAATTGGATTATTGAATTATTTTGAATCATAATGAATTGGAGTA
GCCATCGACCTTTGGATTAGGGAGGTCGAATACCCAAAAACGTCTTTTAAAACAATTAAAAATCA
TTTAACAGACAAAAGTTGGTCTGTATTTACCA
Found at i:5598409 original size:16 final size:16
Alignment explanation
Indices: 5598370--5598426 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
5598360 GTTTACTTTA
* *
5598370 GAATGATT-AAGTGCT
1 GAATGATTCAAATGTT
*
5598385 GACTGATTCAAATGTT
1 GAATGATTCAAATGTT
5598401 GAATGATTCAAATGTT
1 GAATGATTCAAATGTT
5598417 GAATGATTCA
1 GAATGATTCA
5598427 GAGGCTCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 7 0.19
16 30 0.81
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATGATTCAAATGTT
Found at i:5598912 original size:32 final size:33
Alignment explanation
Indices: 5598876--5598942 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
5598866 TTTTTAAATA
* *
5598876 TCACTATCCTTTTAATAGAAAAA-AATAAATGC
1 TCACTATCATTTTAATAGAAAAATAAGAAATGC
5598908 TCACTATCATTTTAATAGAAAAATAAGAAATGC
1 TCACTATCATTTTAATAGAAAAATAAGAAATGC
5598941 TC
1 TC
5598943 GATTTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (33 bp):
TCACTATCATTTTAATAGAAAAATAAGAAATGC
Found at i:5602543 original size:73 final size:72
Alignment explanation
Indices: 5602424--5602607 Score: 253
Period size: 73 Copynumber: 2.5 Consensus size: 72
5602414 CCTATCCAAG
* *
5602424 CACGATTTCAACTTCACAATGAAAGATCTCGTACCCAAAAGTTTTGACTTAACTT-CATGACGAA
1 CACGATTTCAACTTCACAATGAAGGATATCGTACCCAAAAGTTTTGACTTAACTTACAT-A-GAA
5602488 GGAGTCACC
64 GGAGTCACC
* * *
5602497 CACGATTTCAACTTCACAATGAAGGATATCTTACCCAAATGTTTTGACTTGACTTCACATAGAAG
1 CACGATTTCAACTTCACAATGAAGGATATCGTACCCAAAAGTTTTGACTTAACTT-ACATAGAAG
5602562 GAGTCACC
65 GAGTCACC
* * * *
5602570 CACGATTTCAACTTCACGACGAAGGATACCGTGCCCAA
1 CACGATTTCAACTTCACAATGAAGGATATCGTACCCAA
5602608 TAAGATCAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
73 95 0.96
74 1 0.01
75 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (72 bp):
CACGATTTCAACTTCACAATGAAGGATATCGTACCCAAAAGTTTTGACTTAACTTACATAGAAGG
AGTCACC
Found at i:5603373 original size:28 final size:28
Alignment explanation
Indices: 5603324--5603378 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
5603314 AACTTATAAT
* ** *
5603324 ATATGGTTTTTAAAACGGTTTTGAAAAC
1 ATATAGTTTTTAAAACAATTTTAAAAAC
*
5603352 ATATAGTTTTTAAAATAATTTTAAAAA
1 ATATAGTTTTTAAAACAATTTTAAAAA
5603379 GGTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATAGTTTTTAAAACAATTTTAAAAAC
Found at i:5603395 original size:36 final size:35
Alignment explanation
Indices: 5603352--5603644 Score: 234
Period size: 36 Copynumber: 8.1 Consensus size: 35
5603342 TTTTGAAAAC
*
5603352 ATATAG-TTTTTAAAATAATTTTAAAAAGGTATATAT
1 ATATAGTTTTTTAAAATAATTTTGAAAA--TATATAT
* * *
5603388 ATATAGTTTTTTGAAATAGTTTATGAAAACGTGTA-AT
1 ATATAGTTTTTTAAAATAATTT-TGAAAA--TATATAT
* * *
5603425 ATATAGTTTTTTAAAACAGTTTTGAAAACATATAGT
1 ATATAGTTTTTTAAAATAATTTTGAAAATATATA-T
*
5603461 ATATAGTTTTTTAAAATATTTTTGAAAACGTATA-AT
1 ATATAGTTTTTTAAAATAATTTTGAAAA--TATATAT
** ** *** *
5603497 ATATAAATTTAAAAAACGGTTTTGAAAACATATAGT
1 ATATAGTTTTTTAAAATAATTTTGAAAATATATA-T
5603533 ATATAG-TTTTTAAAATAATTTTGAAAATATATAGT
1 ATATAGTTTTTTAAAATAATTTTGAAAATATATA-T
* *
5603568 ATATAGTTTTTTAAAATATTTTTGAAAACATATAT
1 ATATAGTTTTTTAAAATAATTTTGAAAATATATAT
* * *
5603603 AATATAATTTTTTGAAAATGTATTTTTGAAAACATAGTAT
1 -ATATAGTTTTTT-AAAA--TAATTTTGAAAATATA-TAT
5603643 AT
1 AT
5603645 GGTTTTGAAA
Statistics
Matches: 213, Mismatches: 30, Indels: 25
0.79 0.11 0.09
Matches are distributed among these distances:
34 5 0.02
35 32 0.15
36 103 0.48
37 40 0.19
38 12 0.06
39 18 0.08
40 3 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (35 bp):
ATATAGTTTTTTAAAATAATTTTGAAAATATATAT
Found at i:5603499 original size:72 final size:71
Alignment explanation
Indices: 5603382--5603635 Score: 303
Period size: 72 Copynumber: 3.5 Consensus size: 71
5603372 TTAAAAAGGT
* * *
5603382 ATATATATATAGTTTTTTGAAATAGTTTATGAAAACGTGTAATATATAGTTTTTTAAAACAGTTT
1 ATATATATATAGTTTTTTAAAATA-TTTTTGAAAACGTATAATATATAGTTTTTTAAAACAGTTT
5603447 TGAAAAC
65 TGAAAAC
** ** *
5603454 ATATAGTATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAAATTTAAAAAACGGTTT
1 ATATA-TATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAACAGTTT
5603519 TGAAAAC
65 TGAAAAC
* ** * * *
5603526 ATATAGTATATAG-TTTTTAAAATAATTTTGAAAATATATAGTATATAGTTTTTTAAAATATTTT
1 ATATA-TATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAACAGTTT
5603590 TGAAAAC
65 TGAAAAC
*
5603597 ATATATAATATAATTTTTTGAAAATGTATTTTTGAAAAC
1 ATATAT-ATATAGTTTTTT-AAAA--TATTTTTGAAAAC
5603636 ATAGTATATG
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 57 0.37
72 63 0.41
73 22 0.14
75 11 0.07
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (71 bp):
ATATATATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAACAGTTTT
GAAAAC
Found at i:5603559 original size:107 final size:109
Alignment explanation
Indices: 5603352--5603609 Score: 317
Period size: 107 Copynumber: 2.4 Consensus size: 109
5603342 TTTTGAAAAC
* * * ** *** *
5603352 ATATAG-TTTTTAAAATAATTTTAAAAAGGTATATATATATAGTTTTTTGAAATAGTTTATGAAA
1 ATATAGTTTTTTAAAATATTTTTGAAAACGTATA-ATATATAAATTTAAAAAACAGTTTATGAAA
* * *
5603416 ACGTGTAATATATAGTTTTTTAAAACAGTTTTGAAAACATATAGT
65 ACATATAATATATAGTTTTTTAAAACAATTTTGAAAACATATAGT
*
5603461 ATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAAATTTAAAAAACGGTTT-TGAAAA
1 ATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAAATTTAAAAAACAGTTTATGAAAA
* * *
5603525 CATATAGTATATAG-TTTTTAAAATAATTTTGAAAATATATAGT
66 CATATAATATATAGTTTTTTAAAACAATTTTGAAAACATATAGT
*
5603568 ATATAGTTTTTTAAAATATTTTTGAAAACATAT-ATAATATAA
1 ATATAGTTTTTTAAAATATTTTTGAAAACGTATAAT-ATATAA
5603610 TTTTTTGAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
106 2 0.02
107 64 0.49
108 17 0.13
109 23 0.18
110 24 0.18
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.43
Consensus pattern (109 bp):
ATATAGTTTTTTAAAATATTTTTGAAAACGTATAATATATAAATTTAAAAAACAGTTTATGAAAA
CATATAATATATAGTTTTTTAAAACAATTTTGAAAACATATAGT
Found at i:5603640 original size:73 final size:71
Alignment explanation
Indices: 5603352--5603650 Score: 268
Period size: 72 Copynumber: 4.1 Consensus size: 71
5603342 TTTTGAAAAC
* * * * * *
5603352 ATATAG-TTTTTAAAATAATTTTAAAAAGGTATATA-TATATAGTTTTTTGAAATAGTTTATGAA
1 ATATAGTTTTTTAAAATAGTTTTGAAAA--CATATAGTATATAATTTTTTAAAATA-TTTTTGAA
*
5603415 AACGTGTAAT
63 AACG-ATAAT
* *
5603425 ATATAGTTTTTTAAAACAGTTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAAC
1 ATATAGTTTTTTAAAATAGTTTTGAAAACATATAGTATATAATTTTTTAAAATATTTTTGAAAAC
5603490 GTATAAT
66 G-ATAAT
** ** ** * *
5603497 ATATAAATTTAAAAAACGGTTTTGAAAACATATAGTATAT-AGTTTTTAAAATAATTTTGAAAA-
1 ATATAGTTTTTTAAAATAGTTTTGAAAACATATAGTATATAATTTTTTAAAATATTTTTGAAAAC
*
5603560 TATATAGT
66 GATA-A-T
*
5603568 ATATAGTTTTTTAAAATATTTTTGAAAACATATA-TAATATAATTTTTTGAAAATGTATTTTTGA
1 ATATAGTTTTTTAAAATAGTTTTGAAAACATATAGT-ATATAATTTTTT-AAAA--TATTTTTGA
*
5603632 AAAC-ATAGT
62 AAACGATAAT
*
5603641 ATATGGTTTT
1 ATATAGTTTT
5603651 GAAAATATAA
Statistics
Matches: 189, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
69 3 0.02
70 2 0.01
71 52 0.28
72 62 0.33
73 38 0.20
74 18 0.10
75 14 0.07
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (71 bp):
ATATAGTTTTTTAAAATAGTTTTGAAAACATATAGTATATAATTTTTTAAAATATTTTTGAAAAC
GATAAT
Found at i:5603652 original size:21 final size:21
Alignment explanation
Indices: 5603626--5603665 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5603616 GAAAATGTAT
*
5603626 TTTTGAAAACATAGTATATGG
1 TTTTGAAAACATAATATATGG
*
5603647 TTTTGAAAATATAATATAT
1 TTTTGAAAACATAATATAT
5603666 TATATGGGTT
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:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTTGAAAACATAATATATGG
Found at i:5605342 original size:134 final size:134
Alignment explanation
Indices: 5605198--5605445 Score: 303
Period size: 134 Copynumber: 1.9 Consensus size: 134
5605188 AAATTTAATA
* * *
5605198 AATTACTTTTAAAT-CAT-TTTAAATT-ATATTT-TATTATTTATTTTTCAATATTAAGAAATG-
1 AATTACTTTTAAATAAATGTTT-AATTAATATTTAT-TTATTT-TTTTT-AATATAAAGAAAAGA
5605258 GCA-GTCTTAAAACAACTA-AATGTCCATTTTCTGATATTTATAAATAAATAAATAATTTAATTT
62 G-ATGTCTTAAAACAACTAGAA-G-CCATTTTCTGATATTTATAAATAAATAAATAATTTAATTT
5605321 TTATATATATT
124 TTATATATATT
* * *
5605332 AATTATTTTTAGATAAATGTTTTATTAATATTTATTTATTTTTTTTAATATAAAGAAAAGAGATG
1 AATTACTTTTAAATAAATGTTTAATTAATATTTATTTATTTTTTTTAATATAAAGAAAAGAGATG
* * *
5605397 TCTTAAAACACCTAGAAGCCATTTTCTTATATTTCTAAATAAATAAATA
66 TCTTAAAACAACTAGAAGCCATTTTCTGATATTTATAAATAAATAAATA
5605446 TCTTATTTAT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
134 54 0.55
135 26 0.27
136 17 0.17
137 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (134 bp):
AATTACTTTTAAATAAATGTTTAATTAATATTTATTTATTTTTTTTAATATAAAGAAAAGAGATG
TCTTAAAACAACTAGAAGCCATTTTCTGATATTTATAAATAAATAAATAATTTAATTTTTATATA
TATT
Found at i:5609827 original size:90 final size:88
Alignment explanation
Indices: 5609713--5609886 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 88
5609703 TCCCGAATAT
* *
5609713 TTAATTTCAATTAATTAAATATAGATTTAAG-TAATTTGAAATAATAAAATCCCTAATATGATTA
1 TTAAATTCAATTAATTAAATATAGATTT-AGTTAATTTGAAATAATAAAA-CCCTAATATAATTA
* *
5609777 GGGTAATTTGGATATAAAAGGATTA
64 AGGTAACTTGGATATAAAAGGATTA
*
5609802 TTAAATTCTAATTAATTAAATATAGATTTAGTTCATTTGAAATAATAAAACCCTAATATAATTAA
1 TTAAATTC-AATTAATTAAATATAGATTTAGTTAATTTGAAATAATAAAACCCTAATATAATTAA
*
5609867 GGTAACTTGGCTATAAAAGG
65 GGTAACTTGGATATAAAAGG
5609887 GTGTGTTAGG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
89 40 0.52
90 37 0.48
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAGTTAATTTGAAATAATAAAACCCTAATATAATTAAG
GTAACTTGGATATAAAAGGATTA
Found at i:5616636 original size:90 final size:90
Alignment explanation
Indices: 5616483--5616649 Score: 316
Period size: 90 Copynumber: 1.9 Consensus size: 90
5616473 ATTTAATTTT
*
5616483 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
5616548 GGATATAAAAGGATTATTAAATTCC
66 GGATATAAAAGGATTATTAAATTCC
5616573 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
*
5616638 GGCTATAAAAGG
66 GGATATAAAAGG
5616650 GTGTGTTAGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
GGATATAAAAGGATTATTAAATTCC
Found at i:5617742 original size:18 final size:20
Alignment explanation
Indices: 5617717--5617773 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
5617707 CAACAATTGG
5617717 TAACAATTGGTATCTTTT-T
1 TAACAATTGGTATCTTTTGT
**
5617736 T-ACAATTGAAATCCTTTTGT
1 TAACAATTGGTAT-CTTTTGT
*
5617756 TAATAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
5617774 CATTAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 9 0.30
19 6 0.20
20 7 0.23
21 8 0.27
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (20 bp):
TAACAATTGGTATCTTTTGT
Found at i:5618497 original size:34 final size:33
Alignment explanation
Indices: 5618458--5618528 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
5618448 TTTTGTAAAG
*
5618458 GGGAAAGATTCTAGCTTAGCCCGTGTAAAATCTA
1 GGGAAAGATTCTAGCTTAGCCCGTG-AAAAACTA
* * * *
5618492 GGGAAAGGTTGTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGATTCTAGCTTAGCCCGTGAAAAACTA
5618525 GGGA
1 GGGA
5618529 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGAAAGATTCTAGCTTAGCCCGTGAAAAACTA
Found at i:5620897 original size:2 final size:2
Alignment explanation
Indices: 5620887--5620923 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5620877 ATCAGAAACA
*
5620887 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5620924 ATACAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5635045 original size:8 final size:8
Alignment explanation
Indices: 5635032--5635086 Score: 61
Period size: 7 Copynumber: 7.8 Consensus size: 8
5635022 AAAATGAGTG
5635032 AAATGAAA
1 AAATGAAA
5635040 AAATG-AA
1 AAATGAAA
5635047 AAAT-AAA
1 AAATGAAA
5635054 AAAT-AAA
1 AAATGAAA
5635061 AAATG---
1 AAATGAAA
5635066 -AATGAAA
1 AAATGAAA
5635073 AAATGAAA
1 AAATGAAA
5635081 AAATGA
1 AAATGA
5635087 GGGTTCAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 4 0.10
7 19 0.46
8 18 0.44
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.15
Consensus pattern (8 bp):
AAATGAAA
Found at i:5635075 original size:21 final size:22
Alignment explanation
Indices: 5635032--5635086 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
5635022 AAAATGAGTG
5635032 AAATGAAAAAATGAAAAATAAA
1 AAATGAAAAAATGAAAAATAAA
5635054 AAAT-AAAAAATG---AATGAAA
1 AAATGAAAAAATGAAAAAT-AAA
5635073 AAATGAAAAAATGA
1 AAATGAAAAAATGA
5635087 GGGTTCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 8 0.27
21 8 0.27
22 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.15
Consensus pattern (22 bp):
AAATGAAAAAATGAAAAATAAA
Found at i:5636062 original size:55 final size:55
Alignment explanation
Indices: 5635978--5636356 Score: 577
Period size: 55 Copynumber: 6.9 Consensus size: 55
5635968 AGATTTCCCA
*
5635978 ACGATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
5636033 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
5636088 ACGATTGTTGAAGATTGTTCGAGTC-CTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGAC
5636143 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
5636198 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
5636253 ACGATTGTTGAAGATTGTTCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCAAAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCAGAC
* * ** * * * *
5636308 CCGTTTGAAGAAGA-TATTCGAGT-TCTATTCTCCCTGAAGAAAGAGGGAG
1 ACGATTGTTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAG
5636357 TGAGAACCCG
Statistics
Matches: 306, Mismatches: 13, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
53 1 0.00
54 30 0.10
55 274 0.90
56 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:5636404 original size:53 final size:53
Alignment explanation
Indices: 5636282--5636575 Score: 146
Period size: 53 Copynumber: 5.6 Consensus size: 53
5636272 CGAGTTTTAT
* * * *
5636282 ACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATATTCGAGTTCTAT
1 ACTCCCTAGAAAAAGAGGGAGCAAACCCGTTT-AAGAAGACATTCGAGTTCCAC
* * *
5636336 TCTCCCT-GAAGAAAGAGGGAGTGAGAACCCGTTT-A-AAGACGTTCGAGTTCCAC
1 ACTCCCTAGAA-AAAGAGGGAG-CA-AACCCGTTTAAGAAGACATTCGAGTTCCAC
*** ** ** *
5636389 ACTCCCTAGAAAAAGAGGGAATGAACCCGCTTGCAGAAGATTGTTCGAGTTCCAT
1 ACTCCCTAGAAAAAGAGGGAGCAAACCCG-TTTAAGAAGA-CATTCGAGTTCCAC
** * *
5636444 ACTCCCT-GAAGAAAG-GGG-G--AACCCGTTTGAAGAAGATGTTCGAGTT-TAT
1 ACTCCCTAGAA-AAAGAGGGAGCAAACCCGTTT-AAGAAGACATTCGAGTTCCAC
* * * * * *
5636493 ACTCCCT-GAAGAA-AGGGAGCGAACCAG-TTAGCAGAAGATTATTCGAGTTCTAT
1 ACTCCCTAGAAAAAGAGGGAGCAAACCCGTTTA--AGAAGA-CATTCGAGTTCCAC
* *
5636546 ACTCCCT-GAAACAATAGGGAGCGAACCCGT
1 ACTCCCTAGAAA-AAGAGGGAGCAAACCCGT
5636576 CCCCAGAAGA
Statistics
Matches: 196, Mismatches: 23, Indels: 40
0.76 0.09 0.15
Matches are distributed among these distances:
48 5 0.03
49 14 0.07
50 14 0.07
51 29 0.15
52 11 0.06
53 45 0.23
54 32 0.16
55 37 0.19
56 9 0.05
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (53 bp):
ACTCCCTAGAAAAAGAGGGAGCAAACCCGTTTAAGAAGACATTCGAGTTCCAC
Found at i:5636448 original size:55 final size:52
Alignment explanation
Indices: 5635987--5636629 Score: 319
Period size: 55 Copynumber: 11.9 Consensus size: 52
5635977 AACGATTATT
* * * **
5635987 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAA-AAAGAGGGAGCGA-ACCCG-TTGAA
* * * **
5636042 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAA-AAAGAGGGAGCGA-ACCCG-TTGAA
* * * * **
5636097 GAAGATTGTTCGAGTCCTATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAA-AAAGAGGGAGCGA-ACCCG-TTGAA
* * * **
5636152 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAA-AAAGAGGGAGCGA-ACCCG-TTGAA
* * * **
5636207 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAA-AAAGAGGGAGCGA-ACCCG-TTGAA
* * *
5636262 GAAGATTGTTCGAGTTTTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCT-GAAAAAGAGGGAGCGAACCCG-TTGAA
* * * *
5636317 GAAGATATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGTGAGAACCCGTT-TA
1 GAAGATGTTCGAGTTCTATACTCCCTGAA-AAAGAGGGA--GCGAACCCGTTGAA
* * * ** *
5636371 -AAGACGTTCGAGTTCCACACTCCCTAGAAAAAGAGGGAATGAACCCGCTTGCA
1 GAAGATGTTCGAGTTCTATACTCCCT-GAAAAAGAGGGAGCGAACCCG-TTGAA
* *
5636424 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAA-AGGG-G-GAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAAAAAGAGGGAGCGAACCCG-TTGAA
* * *
5636475 GAAGATGTTCGAGTT-TATACTCCCTGAAGAA-AGGGAGCGAACCAGTTAGCA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAAAAGAGGGAGCGAACCCGTT-GAA
* * ***
5636526 GAAGATTATTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTCCCCA
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAAA-AAGAGGGAGCGAACCCGT-TGAA
* * ** * *
5636581 GAAGATTCTTCAAGTTCTATGTTCCCTGAAACGATAGGGAGCGAACCCG
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAAA-AAGAGGGAGCGAACCCG
5636630 ATTTTGAAGA
Statistics
Matches: 523, Mismatches: 44, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
49 19 0.04
50 13 0.02
51 36 0.07
52 11 0.02
53 49 0.09
54 44 0.08
55 337 0.64
56 14 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (52 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAAAAGAGGGAGCGAACCCGTTGAA
Found at i:5636583 original size:157 final size:160
Alignment explanation
Indices: 5636262--5636597 Score: 359
Period size: 157 Copynumber: 2.1 Consensus size: 160
5636252 CACGATTGTT
**
5636262 GAAGATTGTTCGAGTTTTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATATTC
1 GAAGATTGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAG-AAACCCGTTTGAAGAAGATATTC
* * * *
5636327 GAGTTCTATTCTCCCTGAAGAAAGAGGGAGTGAGAACCCGTTTAAAGACGTTCGAGTTCCACACT
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAG-GAGAACCAGTTCAAAGACATTCGAGTTCCACACT
* **
5636392 CCCTAGAAAAAGAGGGAATGAACCCGCTTGCA
129 CCCTAGAAAAAGAGGGAACGAACCCGCTCCCA
*
5636424 GAAGATTGTTCGAGTTCCATACTCCCT-GAAGAAAG-GGG-G-AACCCGTTTGAAGAAGATGTTC
1 GAAGATTGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGAAACCCGTTTGAAGAAGATATTC
* * * *
5636485 GAGTT-TATACTCCCTGAAG-AA-AGGGA-GCGAACCAGTTAGCAGAAGATTATTCGAGTTCTAT
65 GAGTTCTATACTCCCTGAAGAAAGAGGGAGGAGAACCAGTT--CA-AAGA-CATTCGAGTTCCAC
* *
5636546 ACTCCCT-GAAACAATAGGGAGCGAACCCG-TCCCCA
126 ACTCCCTAGAAA-AAGAGGGAACGAACCCGCT-CCCA
* *
5636581 GAAGATTCTTCAAGTTC
1 GAAGATTGTTCGAGTTC
5636598 TATGTTCCCT
Statistics
Matches: 149, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
153 9 0.06
155 6 0.04
156 11 0.07
157 61 0.41
158 26 0.17
160 1 0.01
161 4 0.03
162 31 0.21
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (160 bp):
GAAGATTGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAAACCCGTTTGAAGAAGATATTCG
AGTTCTATACTCCCTGAAGAAAGAGGGAGGAGAACCAGTTCAAAGACATTCGAGTTCCACACTCC
CTAGAAAAAGAGGGAACGAACCCGCTCCCA
Found at i:5637494 original size:20 final size:16
Alignment explanation
Indices: 5637448--5637484 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
5637438 GCAAGGAAAA
5637448 CAGAGAAATCCACAAC
1 CAGAGAAATCCACAAC
5637464 CAGAGAAATCCACAAC
1 CAGAGAAATCCACAAC
5637480 CAGAG
1 CAGAG
5637485 TCTAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.30, G:0.16, T:0.05
Consensus pattern (16 bp):
CAGAGAAATCCACAAC
Found at i:5640395 original size:12 final size:12
Alignment explanation
Indices: 5640380--5640404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5640370 TTAAAAACAT
5640380 ATAATTTTAAAA
1 ATAATTTTAAAA
5640392 ATAATTTTAAAA
1 ATAATTTTAAAA
5640404 A
1 A
5640405 CATATAAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTTTAAAA
Found at i:5640514 original size:35 final size:35
Alignment explanation
Indices: 5640475--5640615 Score: 149
Period size: 35 Copynumber: 4.0 Consensus size: 35
5640465 TTAAAACGGC
*
5640475 TTTGAAAACATACAGTATATAATTTTTAAAATATT
1 TTTGAAAACATATAGTATATAATTTTTAAAATATT
* * * ** ***
5640510 TTTGAAAACGTATAATATAT-AGTTAAAAAACGGT
1 TTTGAAAACATATAGTATATAATTTTTAAAATATT
* * *
5640544 TTTGAAAAAATATAGTATATAGTTTTTAAAATAAT
1 TTTGAAAACATATAGTATATAATTTTTAAAATATT
*
5640579 TTTGAAAACATATAGTATATAGTTTTTTAAAATATT
1 TTTGAAAACATATAGTATATA-ATTTTTAAAATATT
5640615 T
1 T
5640616 AGTTTAATTT
Statistics
Matches: 82, Mismatches: 22, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
34 25 0.30
35 44 0.54
36 13 0.16
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (35 bp):
TTTGAAAACATATAGTATATAATTTTTAAAATATT
Found at i:5640528 original size:71 final size:71
Alignment explanation
Indices: 5640430--5640610 Score: 240
Period size: 69 Copynumber: 2.6 Consensus size: 71
5640420 TTTTTTTTAA
* * *
5640430 AAAATAGTTTCTGAAAAAGTATAATATATAGTTTTTTAAAACGGCTTTGAAAACATACAGTATAT
1 AAAATA-TTTTTGAAAACGTATAATATATAGTTTTTTAAAACGGCTTTGAAAAAATACAGTATAT
5640495 AATTTTT
65 AATTTTT
** * *
5640502 AAAATATTTTTGAAAACGTATAATATATAG--TTAAAAAACGGTTTTGAAAAAATATAGTATATA
1 AAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAACGGCTTTGAAAAAATACAGTATATA
*
5640565 GTTTTT
66 ATTTTT
* * *
5640571 AAAATAATTTTGAAAACATATAGTATATAGTTTTTTAAAA
1 AAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAA
5640611 TATTTAGTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
69 60 0.64
71 28 0.30
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (71 bp):
AAAATATTTTTGAAAACGTATAATATATAGTTTTTTAAAACGGCTTTGAAAAAATACAGTATATA
ATTTTT
Found at i:5640764 original size:28 final size:29
Alignment explanation
Indices: 5640729--5640785 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
5640719 TTTTTTTCAA
*
5640729 AATTTAATATTTT-TTTATTT-ATTTTTT
1 AATTTAATATTTTCTTAATTTAATTTTTT
5640756 AATTGTAATATTTTCTTAATTTAATTTTTT
1 AATT-TAATATTTTCTTAATTTAATTTTTT
5640786 TTCTTTGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 9 0.35
29 6 0.23
30 7 0.27
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (29 bp):
AATTTAATATTTTCTTAATTTAATTTTTT
Found at i:5640776 original size:17 final size:15
Alignment explanation
Indices: 5640729--5640786 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 15
5640719 TTTTTTTCAA
5640729 AATTTAATATTTTTT
1 AATTTAATATTTTTT
*
5640744 TA-TT--TATTTTTT
1 AATTTAATATTTTTT
5640756 AATTGTAATATTTTCTT
1 AATT-TAATATTTT-TT
5640773 AATTTAAT-TTTTTT
1 AATTTAATATTTTTT
5640787 TCTTTGCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
12 9 0.25
13 1 0.03
14 5 0.14
15 5 0.14
16 10 0.28
17 6 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
AATTTAATATTTTTT
Found at i:5643206 original size:30 final size:30
Alignment explanation
Indices: 5643172--5643229 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
5643162 ATTGTTCCAA
5643172 AGTTTGGTTTTGAAATGAAGAAACTAATAT
1 AGTTTGGTTTTGAAATGAAGAAACTAATAT
*
5643202 AGTTTGGTTTTGGAATGAAGAAACTAAT
1 AGTTTGGTTTTGAAATGAAGAAACTAAT
5643230 GTAGCTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (30 bp):
AGTTTGGTTTTGAAATGAAGAAACTAATAT
Found at i:5644512 original size:73 final size:73
Alignment explanation
Indices: 5644423--5644569 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
5644413 CATATGTAAT
5644423 TGGAATAGGATCAATAGGAGCATTTTCTCGGATCACACTTTGATATTGATACACCACAATATTGA
1 TGGAATAGGATCAATAGGAGCATTTTCTCGGATCACACTTTGATATTGATACACCACAATATTGA
5644488 TTTCAACA
66 TTTCAACA
5644496 TGGAATAGGATCAATAGGAGCATTTTCTCGGATCACACTTTGATATTGATACACCACAATATTGA
1 TGGAATAGGATCAATAGGAGCATTTTCTCGGATCACACTTTGATATTGATACACCACAATATTGA
5644561 TTTCAACA
66 TTTCAACA
5644569 T
1 T
5644570 CTTCCTCAAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (73 bp):
TGGAATAGGATCAATAGGAGCATTTTCTCGGATCACACTTTGATATTGATACACCACAATATTGA
TTTCAACA
Found at i:5647417 original size:18 final size:18
Alignment explanation
Indices: 5647394--5647436 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
5647384 AGTATGTCGA
5647394 AATGCACCTATGACTCTC
1 AATGCACCTATGACTCTC
5647412 AATGCACCTATGACTCTC
1 AATGCACCTATGACTCTC
5647430 AATGCAC
1 AATGCAC
5647437 ATATAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.26
Consensus pattern (18 bp):
AATGCACCTATGACTCTC
Found at i:5649266 original size:22 final size:22
Alignment explanation
Indices: 5649238--5649281 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5649228 ACTATATGGT
5649238 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
5649260 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
5649282 CCATAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (22 bp):
ATGAACAATACCGTGAACAGTA
Found at i:5649944 original size:31 final size:31
Alignment explanation
Indices: 5649896--5650019 Score: 153
Period size: 31 Copynumber: 4.0 Consensus size: 31
5649886 CCTGAAGGAC
* * *
5649896 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
5649927 CAGTCTATATGTCCCGAAGAACACT-GGTAAA
1 CAGTCCATATGTCCCGAAGAACA-TAGGTAAA
* *
5649958 CAGACCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
5649989 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
5650020 ACCCTCGACC
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
30 1 0.01
31 77 0.96
32 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:5653538 original size:110 final size:110
Alignment explanation
Indices: 5653345--5653567 Score: 446
Period size: 110 Copynumber: 2.0 Consensus size: 110
5653335 AATACAACTA
5653345 ATTCATATCTGGTTTAAAGTTGAAAACTAGAATCTCTACCTTTCTTTGATTGTGCTTAACTCTAT
1 ATTCATATCTGGTTTAAAGTTGAAAACTAGAATCTCTACCTTTCTTTGATTGTGCTTAACTCTAT
5653410 GAAGCACTAATTCTCTTAATCATCTGAGATTTTTGTTCTCCAGTC
66 GAAGCACTAATTCTCTTAATCATCTGAGATTTTTGTTCTCCAGTC
5653455 ATTCATATCTGGTTTAAAGTTGAAAACTAGAATCTCTACCTTTCTTTGATTGTGCTTAACTCTAT
1 ATTCATATCTGGTTTAAAGTTGAAAACTAGAATCTCTACCTTTCTTTGATTGTGCTTAACTCTAT
5653520 GAAGCACTAATTCTCTTAATCATCTGAGATTTTTGTTCTCCAGTC
66 GAAGCACTAATTCTCTTAATCATCTGAGATTTTTGTTCTCCAGTC
5653565 ATT
1 ATT
5653568 TTATTCTGAG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (110 bp):
ATTCATATCTGGTTTAAAGTTGAAAACTAGAATCTCTACCTTTCTTTGATTGTGCTTAACTCTAT
GAAGCACTAATTCTCTTAATCATCTGAGATTTTTGTTCTCCAGTC
Found at i:5654851 original size:24 final size:24
Alignment explanation
Indices: 5654821--5654901 Score: 144
Period size: 24 Copynumber: 3.4 Consensus size: 24
5654811 GTATCGATGC
5654821 ACTGCTACAGTGCATCGATGTAGT
1 ACTGCTACAGTGCATCGATGTAGT
*
5654845 ACTGCTAAAGTGCATCGATGTAGT
1 ACTGCTACAGTGCATCGATGTAGT
*
5654869 ACTGCTACAGTGCATCGATGCAGT
1 ACTGCTACAGTGCATCGATGTAGT
5654893 ACTGCTACA
1 ACTGCTACA
5654902 ATAACTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
ACTGCTACAGTGCATCGATGTAGT
Found at i:5655490 original size:31 final size:31
Alignment explanation
Indices: 5655452--5655576 Score: 105
Period size: 31 Copynumber: 4.0 Consensus size: 31
5655442 TCCGGAGGAC
* *
5655452 CAGTCCATAGATTCCGAAAAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAAAACATAGGTAAA
*
5655483 CAGTCCAT--ATGTCCTAAAGAACATAGGTAAA
1 CAGTCCATAGAT-TCCGAAA-AACATAGGTAAA
* * * *
5655514 CAATCCATATG-TCCCGAAGAACATAGGTAAG
1 CAGTCCATA-GATTCCGAAAAACATAGGTAAA
* *
5655545 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAAAACATAGGTAAA
5655576 C
1 C
5655577 CCTCGACCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.03
30 6 0.08
31 66 0.84
32 4 0.05
33 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAAAACATAGGTAAA
Found at i:5659527 original size:30 final size:28
Alignment explanation
Indices: 5659490--5659555 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
5659480 GTAGTATAAT
5659490 AATATATATAGTATATAGTTTTTAGAAA
1 AATATATATAGTATATAGTTTTTAGAAA
5659518 AATATATATAGTATATAGTTTTTAG-AA
1 AATATATATAGTATATAGTTTTTAGAAA
5659545 AATA-ATATAGT
1 AATATATATAGT
5659556 TTAAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 25 0.66
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
AATATATATAGTATATAGTTTTTAGAAA
Found at i:5659604 original size:40 final size:38
Alignment explanation
Indices: 5659516--5659625 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 38
5659506 AGTTTTTAGA
5659516 AAAATATATATAGTATATAGTTTTTAGAAAATAATATAGTTT
1 AAAATATATATA--ATATAGTTTTT--AAAATAATATAGTTT
*
5659558 AAAATATATATAATATAGTTTTTAAAATAAGTATA-TAT
1 AAAATATATATAATATAGTTTTTAAAATAA-TATAGTTT
* *
5659596 -ATATAATATGTAATATAGTATTTTAAAATA
1 AAAAT-ATATATAATATAGT-TTTTAAAATA
5659626 TCAATATAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 3 0.05
38 22 0.35
39 14 0.23
40 11 0.18
42 12 0.19
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (38 bp):
AAAATATATATAATATAGTTTTTAAAATAATATAGTTT
Found at i:5661614 original size:21 final size:21
Alignment explanation
Indices: 5661585--5661637 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5661575 ATTCTGACTA
5661585 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
5661606 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
5661627 TCGCAATGCGA
1 TCGCATTGCGA
5661638 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:5661669 original size:20 final size:20
Alignment explanation
Indices: 5661646--5661720 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
5661636 GAATACGTAA
*
5661646 ATCGCAATACGAATATGACT
1 ATCGCAATACGAATCTGACT
*
5661666 ATCGCAATGA-GATTCTGACT
1 ATCGCAAT-ACGAATCTGACT
5661686 ATCGC-A-ACGAGATTCTGACT
1 ATCGCAATACGA-A-TCTGACT
5661706 ATCGCAATACTGAAT
1 ATCGCAATAC-GAAT
5661721 TTCAAATTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 1 0.02
20 33 0.73
21 3 0.07
22 3 0.07
23 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (20 bp):
ATCGCAATACGAATCTGACT
Found at i:5662604 original size:24 final size:24
Alignment explanation
Indices: 5662547--5662605 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
5662537 TAGTCAGTAT
* *
5662547 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGAGCGTGGTCAATAC
* * *
5662571 CCGGACTTTGAGCGTGGTCAATAC
1 TCGAAATTTGAGCGTGGTCAATAC
*
5662595 TCGAATTTTGA
1 TCGAAATTTGA
5662606 TGATTTTTCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (24 bp):
TCGAAATTTGAGCGTGGTCAATAC
Found at i:5665038 original size:20 final size:19
Alignment explanation
Indices: 5665013--5665099 Score: 120
Period size: 20 Copynumber: 4.4 Consensus size: 19
5665003 CAACGCAGAA
5665013 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAA-ATGACT
*
5665033 ATCGCAACACGGAAATGACT
1 ATCGCAACGC-GAAATGACT
*
5665053 ATCGCAACGTGAAATTGACT
1 ATCGCAACGCGAAA-TGACT
5665073 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
5665093 ATCGCAA
1 ATCGCAA
5665100 TGAGAGAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.07
20 50 0.83
21 6 0.10
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:5665130 original size:33 final size:34
Alignment explanation
Indices: 5665073--5665168 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
5665063 GAAATTGACT
* ** *
5665073 ATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
5665107 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
5665140 ATCACAATGCGAAAATGAAAATTGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
5665169 CGAATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:5665244 original size:33 final size:34
Alignment explanation
Indices: 5665183--5665274 Score: 150
Period size: 33 Copynumber: 2.7 Consensus size: 34
5665173 TTTAGTTTCG
5665183 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
5665217 CGTTGCGATTTTCATTTT-GCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** *
5665250 CGTTGCGATAGTCATTTCCGCATTG
1 CGTTGCGATTTTCATTTTCGCATTG
5665275 TGATAGTCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.56
34 24 0.44
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:5665403 original size:14 final size:14
Alignment explanation
Indices: 5665384--5665420 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5665374 CATCAATTAA
5665384 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
5665398 ACAAATCATCTTTT
1 ACAAATCAACATTT
5665412 ACAAATCAA
1 ACAAATCAA
5665421 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:5667092 original size:20 final size:20
Alignment explanation
Indices: 5667069--5667173 Score: 120
Period size: 20 Copynumber: 5.2 Consensus size: 20
5667059 CTTAAAATCA
5667069 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
*
5667089 CAACGTGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
* *
5667109 CAATGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCG
* * **
5667129 CAATGTGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
* **
5667149 CAATGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
5667169 CAACG
1 CAACG
5667174 AGAGAATTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:5667117 original size:40 final size:40
Alignment explanation
Indices: 5667073--5667173 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
5667063 AAATCACAAC
5667073 GCGAAAATGACTATCGCAACGTGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAACGTGAAAATGACTATCGCAAT
* * **
5667113 GCGAAAATGACTATCACAATGTGAATTTGACTATCGCAAT
1 GCGAAAATGACTATCGCAACGTGAAAATGACTATCGCAAT
**
5667153 GCGAATTTGACTATCGCAACG
1 GCGAAAATGACTATCGCAACG
5667174 AGAGAATTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (40 bp):
GCGAAAATGACTATCGCAACGTGAAAATGACTATCGCAAT
Found at i:5667304 original size:20 final size:20
Alignment explanation
Indices: 5667218--5667394 Score: 139
Period size: 20 Copynumber: 9.5 Consensus size: 20
5667208 GATTCTTTCG
**
5667218 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
5667238 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
5667258 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
5667278 TTACGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
5667298 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
5667312 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
5667331 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
** *
5667345 TTTTGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
5667365 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
5667385 TTGCGATAGT
1 TTGCGATAGT
5667395 AAACTATTCT
Statistics
Matches: 128, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.09
16 12 0.09
17 6 0.05
18 5 0.04
19 7 0.05
20 86 0.67
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:5669252 original size:20 final size:20
Alignment explanation
Indices: 5669194--5669260 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
5669184 GAAACTTTAA
**
5669194 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
5669214 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
5669234 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
5669254 ATCGCAA
1 ATCGCAA
5669261 GGCAAGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:5669302 original size:33 final size:34
Alignment explanation
Indices: 5669193--5669306 Score: 88
Period size: 40 Copynumber: 3.2 Consensus size: 34
5669183 TGAAACTTTA
* * *
5669193 AATCGCAACACGAAAATGAAAATCGCAACACGAAAATG
1 AATCGCAACGCGAATATGAAAATCGC-A-A-GACAA-G
* ** *
5669231 ACTATCGCAACGCGAATTTGACTATCGCAAGGCAAG
1 A--ATCGCAACGCGAATATGAAAATCGCAAGACAAG
5669267 AATCGCAACGCGAA-ATGAAAATCGCAATGAC-AG
1 AATCGCAACGCGAATATGAAAATCGCAA-GACAAG
5669300 AATCGCA
1 AATCGCA
5669307 TTGCGATAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
33 19 0.31
34 15 0.24
36 2 0.03
37 3 0.05
38 2 0.03
39 1 0.02
40 20 0.32
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (34 bp):
AATCGCAACGCGAATATGAAAATCGCAAGACAAG
Found at i:5669693 original size:22 final size:22
Alignment explanation
Indices: 5669631--5669696 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
5669621 TGACCATGAA
* *
5669631 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
5669653 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
5669675 TGATTTTGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
5669697 GGATGTCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:5669918 original size:20 final size:20
Alignment explanation
Indices: 5669893--5669985 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
5669883 TGATAGTCAG
*
5669893 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5669913 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5669933 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
5669953 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
5669973 ATTCGCATTGCGA
1 ATTCGCATTGCGA
5669986 ATTAGGAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:5670006 original size:21 final size:21
Alignment explanation
Indices: 5669982--5670048 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
5669972 TATTCGCATT
*
5669982 GCGAATTAGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
5670003 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
5670024 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
5670045 GCGA
1 GCGA
5670049 TAGTCAGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:5673747 original size:24 final size:25
Alignment explanation
Indices: 5673711--5673779 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 25
5673701 ATCGATACTA
*
5673711 TCCAGAGAGTATCGATACTACTATG
1 TCCAGTGAGTATCGATACTACTATG
*
5673736 TGCAGT-AGTATCGATAC--C---G
1 TCCAGTGAGTATCGATACTACTATG
5673755 TCCAGTGAGTATCGATACTACTATG
1 TCCAGTGAGTATCGATACTACTATG
5673780 CAAAATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
22 2 0.06
24 11 0.31
25 5 0.14
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (25 bp):
TCCAGTGAGTATCGATACTACTATG
Found at i:5673792 original size:44 final size:44
Alignment explanation
Indices: 5673700--5673798 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
5673690 AAACCAACGA
* *** *
5673700 TATCGATACTATCCAGAGAGTATCGATACTACTATGTGCAGTAG
1 TATCGATACCATCCAGAGAGTATCGATACTACTATGCAAAATAG
* * *
5673744 TATCGATACCGTCCAGTGAGTATCGATACTACTATGCAAAATAT
1 TATCGATACCATCCAGAGAGTATCGATACTACTATGCAAAATAG
5673788 TATCGATACCA
1 TATCGATACCA
5673799 GTTTGCATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
TATCGATACCATCCAGAGAGTATCGATACTACTATGCAAAATAG
Found at i:5678766 original size:20 final size:20
Alignment explanation
Indices: 5678743--5678785 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5678733 TCTAAGAGCC
*
5678743 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
5678763 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
5678783 CAT
1 CAT
5678786 GTGGTGGATT
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:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:5686374 original size:13 final size:13
Alignment explanation
Indices: 5686353--5686387 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
5686343 CCCACTTACT
5686353 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
5686366 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
5686379 TTTCACTTT
1 TTTCACTTT
5686388 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:5688858 original size:20 final size:20
Alignment explanation
Indices: 5688833--5688875 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5688823 TCTAAGAGCC
*
5688833 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
5688853 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
5688873 CAT
1 CAT
5688876 GTGGTGGATT
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:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:5703077 original size:54 final size:54
Alignment explanation
Indices: 5702511--5703062 Score: 780
Period size: 54 Copynumber: 10.2 Consensus size: 54
5702501 AATAGGCACT
* * * *
5702511 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTTGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * **
5702565 ACTAAGTGTTCATTTCACGAAATTCATCTTATGTGGATGAATAATTGTTTCGAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* *
5702619 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCAAT
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* ** *
5702673 ACTAAGTGTGTATTTCATAAAATTCATCCTATGTGGATGAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * *
5702727 ACTAAGTGTGCATTTCACGGAATTCATCTTATGTGGATGAATAACTGTTTCGAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* *
5702781 ACTAAGTGTGCATTTCACGAAATTCATCTTATGTGGATGAATAACAGTTTCGAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* *
5702835 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACTGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * *
5702889 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAGCCGTTTCGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * * * * *
5702943 ACTAAGTGTGCATTTCACGGAATTTATCCTATGTGTATGAATAACTGTTTTGGC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
* * * * *
5702997 ACCAAGTGTACATTTCACGAAATTCATCCTATATAGATGAATAACCGTTTCAAC
1 ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
*
5703051 ACTGAGTGTGCA
1 ACTAAGTGTGCA
5703063 AAACACGTAA
Statistics
Matches: 444, Mismatches: 54, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 444 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (54 bp):
ACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGAC
Found at i:5703472 original size:22 final size:22
Alignment explanation
Indices: 5703447--5703489 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5703437 TTTTTGTTCA
*
5703447 TCTATTTAAGTTAATTTATGTT
1 TCTATTTAAGTTAATGTATGTT
5703469 TCTATTTAAGTTAATGTATGT
1 TCTATTTAAGTTAATGTATGT
5703490 AAGAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (22 bp):
TCTATTTAAGTTAATGTATGTT
Found at i:5709368 original size:15 final size:15
Alignment explanation
Indices: 5709348--5709379 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5709338 TCCCACTTTG
5709348 TTTCTTTCCCTTATC
1 TTTCTTTCCCTTATC
5709363 TTTCTTTCCCTTATC
1 TTTCTTTCCCTTATC
5709378 TT
1 TT
5709380 GAAAGCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCTTTCCCTTATC
Found at i:5712011 original size:18 final size:18
Alignment explanation
Indices: 5711985--5712047 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
5711975 CGTATAATTA
*
5711985 TCCCAAAGGATGTCTGTG
1 TCCCGAAGGATGTCTGTG
* * *
5712003 TCCCGAAGGA--CCTATCA
1 TCCCGAAGGATGTCTGT-G
5712020 TCCCGAAGGATGTCTGTG
1 TCCCGAAGGATGTCTGTG
5712038 TCCCGAAGGA
1 TCCCGAAGGA
5712048 CCTATCATCC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
18 19 0.54
19 3 0.09
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (18 bp):
TCCCGAAGGATGTCTGTG
Found at i:5712025 original size:17 final size:17
Alignment explanation
Indices: 5712003--5712061 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
5711993 GATGTCTGTG
5712003 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
* * *
5712020 TCCCGAAGGATGTCTGT-G
1 TCCCGAAGGA--CCTATCA
5712038 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
5712055 TCCCGAA
1 TCCCGAA
5712062 AAATGTCTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 17 0.52
18 10 0.30
19 3 0.09
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:5712030 original size:35 final size:35
Alignment explanation
Indices: 5711984--5712102 Score: 184
Period size: 35 Copynumber: 3.4 Consensus size: 35
5711974 TCGTATAATT
*
5711984 ATCCCAAAGGATGTCTGTGTCCCGAAGGACCTATC
1 ATCCCGAAGGATGTCTGTGTCCCGAAGGACCTATC
5712019 ATCCCGAAGGATGTCTGTGTCCCGAAGGACCTATC
1 ATCCCGAAGGATGTCTGTGTCCCGAAGGACCTATC
** * *
5712054 ATCCCGAAAAATGTCTATGTCCCGAAGAACCTATC
1 ATCCCGAAGGATGTCTGTGTCCCGAAGGACCTATC
*
5712089 ATCCCGAATGATGT
1 ATCCCGAAGGATGT
5712103 AACCCTCGAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (35 bp):
ATCCCGAAGGATGTCTGTGTCCCGAAGGACCTATC
Found at i:5712095 original size:17 final size:17
Alignment explanation
Indices: 5712038--5712096 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
5712028 GATGTCTGTG
*
5712038 TCCCGAAGGACCTATCA
1 TCCCGAAGAACCTATCA
* * *
5712055 TCCCGAAAAATGTCTAT-G
1 TCCCGAAGAA--CCTATCA
5712073 TCCCGAAGAACCTATCA
1 TCCCGAAGAACCTATCA
5712090 TCCCGAA
1 TCCCGAA
5712097 TGATGTAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 9 0.28
19 4 0.12
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.20
Consensus pattern (17 bp):
TCCCGAAGAACCTATCA
Found at i:5712527 original size:17 final size:17
Alignment explanation
Indices: 5712500--5712541 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
5712490 CACATATTGC
5712500 ATATACATGTAATCATATA
1 ATAT-CATGTAA-CATATA
5712519 A-ATCATGTAACATATA
1 ATATCATGTAACATATA
5712535 ATATCAT
1 ATATCAT
5712542 ATGACACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 2 0.09
19 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (17 bp):
ATATCATGTAACATATA
Found at i:5715374 original size:530 final size:528
Alignment explanation
Indices: 5714153--5715742 Score: 2905
Period size: 530 Copynumber: 3.0 Consensus size: 528
5714143 AATAAGGGAT
*
5714153 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAATGTTTTTAGATGCTTGAATTTC
1 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAATGTTTTTAGATGCTTGAATTTA
*
5714218 AAGTTAAATAGCATGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATTC
66 AAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATTC
* *
5714283 ATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTTATGTGAATACTATTTGAATTGGAAATTCA
131 ATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTTATGTGAATATTATTTGACTTGGAAATTCA
* *
5714348 GAGATTTTAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGAATGATATTGATCAA
196 GAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCAA
5714413 ATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTTTTATGCTAC-TGTGTGTATGTTAATA
261 ATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTTTTATGCTACTTGTGTGTATGTTAATA
* * *
5714477 AAATACTAACATGTACTTTGAATTAAATATGTTTTGTAAATGATGTGTGTTTAGATCGATATAGA
326 AGATACTAACATGTACTTTGAAATAAATATGTTTTGTAAATGATGTTTGTTTAGATCGATATAGA
* *
5714542 AATCGAAGTAAAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAAT
391 AATCGAAGT-CAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAAC
*
5714607 AAAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTAATATTATTATATGTATGATAT
455 AAAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTTATATTATTATATGTATGATAT
5714672 GAGGAAGAC
520 GAGGAAGAC
5714681 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAATGTTTTTAGATGCTTGAATTTA
1 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAATGTTTTTAGATGCTTGAATTTA
5714746 AAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATTC
66 AAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATTC
5714811 ATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTT-TCGTGAATATTATTTGACTTGGAAATTC
131 ATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTTAT-GTGAATATTATTTGACTTGGAAATTC
5714875 AGAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCA
195 AGAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCA
*
5714940 AATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTGTTATGCTACTGTGTGTGTATGTTAA
260 AATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTTTTATGCTACT-TGTGTGTATGTTAA
5715005 TAAGATACTAACATGTACTTTGAAATAAATATGTTTTGTAAATGATGTTTGTTTAGATCGATATA
324 TAAGATACTAACATGTACTTTGAAATAAATATGTTTTGTAAATGATGTTTGTTTAGATCGATATA
5715070 GAAATCGAAGTCAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAA
389 GAAATCGAAGTCAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAA
* *
5715135 CAAAGGTTTGCAAGTTAAGTATAATAGGTGAGTGCATTCTTACTTATATTATTATATGTATGATC
454 CAAAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTTATATTATTATATGTATGATA
5715200 TGAGGAAGAC
519 TGAGGAAGAC
5715210 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAAATGTTTTTAGATGCTTGAATTT
1 TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTG-AAAATGTTTTTAGATGCTTGAATTT
*
5715275 AAAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATATTGAGATGAAATCTAATAGAATT
65 AAAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATT
*
5715340 CATTTTAGTGGTTAAATTATGAAAATTTACATTTGTTATGTGAATATTATTTGACTTGGAAATTC
130 CATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTTATGTGAATATTATTTGACTTGGAAATTC
5715405 AGAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCA
195 AGAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCA
* *
5715470 AATGAAATAGAATTATTATCGAAAGAGTTTTAAGGAATTTTTATGCTACTATGTGTGTATGTTAA
260 AATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTTTTATGCTACT-TGTGTGTATGTTAA
* * *
5715535 TAAGATACTAACATGTACCTTGAAATAAATATGTTTTGAAAATGACGTTTGTTTAGATCGATATA
324 TAAGATACTAACATGTACTTTGAAATAAATATGTTTTGTAAATGATGTTTGTTTAGATCGATATA
*
5715600 GAAATCGAAGTCAAAACAAGCTTAAAGCTAAGTAAAAAGTCCAAGAATGAAACTTGAATTGCTAA
389 GAAATCGAAGTCAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAA
*
5715665 CAAAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTTATGTTATTATATGTATGATA
454 CAAAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTTATATTATTATATGTATGATA
5715730 TGAGGAAGAC
519 TGAGGAAGAC
5715740 TTG
1 TTG
5715743 CGATGAGTCA
Statistics
Matches: 1029, Mismatches: 28, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
527 1 0.00
528 299 0.29
529 163 0.16
530 565 0.55
531 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (528 bp):
TTGATATGTAATTTGATTGGAATTGATGTAGAACACTTGAAAATGTTTTTAGATGCTTGAATTTA
AAGTTAAATAGCAAGGGGAAATTTTGAATATTATGGAAATGTTGAGATGAAATCTAATAGAATTC
ATTTTAGTGGTTAAATTGTGAAAATTTACATTTGTTATGTGAATATTATTTGACTTGGAAATTCA
GAGATTTGAAGTTACTATATGAAGGACTAATTGTGTTTTGAAGTGTTAAGATTGATATTGATCAA
ATGAAATAGAATTAGTATCGAAAGATTTTTAAGGAATTTTTATGCTACTTGTGTGTATGTTAATA
AGATACTAACATGTACTTTGAAATAAATATGTTTTGTAAATGATGTTTGTTTAGATCGATATAGA
AATCGAAGTCAAAACAAGCTTAAAGCTAAGGAAAAAGTCCAAGAATGAAACTTGAATTGCTAACA
AAGGTTTGCAAGTTAAGTATAACAGGTGAGTGCATTCTTACTTATATTATTATATGTATGATATG
AGGAAGAC
Found at i:5716780 original size:39 final size:40
Alignment explanation
Indices: 5716737--5716817 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
5716727 GTAAAATCGA
5716737 AATAAATAATGG-AAATCTGGGTTAGGGTATTGGTACTGG
1 AATAAATAATGGAAAATCTGGGTTAGGGTATTGGTACTGG
5716776 AATAAATAATGGAAAATCTGGGTTAGGGTATTGGTACTGG
1 AATAAATAATGGAAAATCTGGGTTAGGGTATTGGTACTGG
5716816 AA
1 AA
5716818 GAAAGTACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 12 0.29
40 29 0.71
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.30
Consensus pattern (40 bp):
AATAAATAATGGAAAATCTGGGTTAGGGTATTGGTACTGG
Found at i:5716882 original size:39 final size:39
Alignment explanation
Indices: 5716813--5716890 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
5716803 GTATTGGTAC
5716813 TGGAAGAAAGTACCAATACTACATGTTTTAAATTTGGGG
1 TGGAAGAAAGTACCAATACTACATGTTTTAAATTTGGGG
5716852 TGGAAGAATAGTACCAATACTACATG-TTTAAATTTGGGG
1 TGGAAGAA-AGTACCAATACTACATGTTTTAAATTTGGGG
5716891 AAATTAGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 21 0.55
40 17 0.45
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (39 bp):
TGGAAGAAAGTACCAATACTACATGTTTTAAATTTGGGG
Found at i:5739120 original size:26 final size:26
Alignment explanation
Indices: 5739084--5739134 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
5739074 TACACGTGAG
5739084 AGATGGATGACTAGGAGATTTGAAAA
1 AGATGGATGACTAGGAGATTTGAAAA
5739110 AGATGGATGACTAGGAGATTTGAAA
1 AGATGGATGACTAGGAGATTTGAAA
5739135 CAAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (26 bp):
AGATGGATGACTAGGAGATTTGAAAA
Found at i:5740850 original size:20 final size:20
Alignment explanation
Indices: 5740822--5740869 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
5740812 CCTAAACCAG
** *
5740822 CTCAAACCAGTCCGAGTTAA
1 CTCAAACCAAACCGAGTCAA
*
5740842 CTCATACCAAACCGAGTCAA
1 CTCAAACCAAACCGAGTCAA
*
5740862 CTCGAACC
1 CTCAAACC
5740870 GATCTGACCC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.17
Consensus pattern (20 bp):
CTCAAACCAAACCGAGTCAA
Found at i:5742813 original size:22 final size:22
Alignment explanation
Indices: 5742771--5742813 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5742761 AAAGTTAACG
* *
5742771 GTCAACGGTCAGATCGATCAAA
1 GTCAACGATCAGACCGATCAAA
*
5742793 GTCAACGATCAGACCGGTCAA
1 GTCAACGATCAGACCGATCAA
5742814 CAGTTAACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (22 bp):
GTCAACGATCAGACCGATCAAA
Found at i:5756368 original size:64 final size:64
Alignment explanation
Indices: 5756290--5756419 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
5756280 ACTTCTATTC
5756290 CTTTAACTCGATTATTTTCCTCTTCAAGTTCTCTTATCCTTTCATTCTTTTTCACTTTCCAAGT
1 CTTTAACTCGATTATTTTCCTCTTCAAGTTCTCTTATCCTTTCATTCTTTTTCACTTTCCAAGT
5756354 CTTTAACTCGATTATTTTCCTCTTCAAGTTCTCTTATCCTTTCATTCTTTTTCACTTTCCAAGT
1 CTTTAACTCGATTATTTTCCTCTTCAAGTTCTCTTATCCTTTCATTCTTTTTCACTTTCCAAGT
5756418 CT
1 CT
5756420 AGAACCTTGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.52
Consensus pattern (64 bp):
CTTTAACTCGATTATTTTCCTCTTCAAGTTCTCTTATCCTTTCATTCTTTTTCACTTTCCAAGT
Found at i:5759664 original size:17 final size:19
Alignment explanation
Indices: 5759628--5759664 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5759618 AATAAATATT
5759628 ATTTAATTTTTATTAAAATA
1 ATTTAATTTTTA-TAAAATA
5759648 ATTT-ATTTTTA-AAAATA
1 ATTTAATTTTTATAAAATA
5759665 TACAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATTTTTATAAAATA
Found at i:5759942 original size:101 final size:101
Alignment explanation
Indices: 5759818--5760122 Score: 416
Period size: 101 Copynumber: 3.0 Consensus size: 101
5759808 AACATGTATC
* *
5759818 TATATATTTGGTATATAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGTTCATATGCGTA
1 TATAGATTTGGTATACAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGTTCATATGCGTA
5759883 CATATAGGTTTAATGTGAGTATATTTATAAATATAA
66 CATATAGGTTTAATGTGAGTATATTTATAAATATAA
* * * * ** *
5759919 TATAGATTTGGTAAACAGTGTATAAAAAGAAAGTACAAATATTTACATATATGCACGTATGCGTA
1 TATAGATTTGGTATACAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGTTCATATGCGTA
* *
5759984 CATATTGGCTTAATGTGAGTATATTTATAAATATAA
66 CATATAGGTTTAATGTGAGTATATTTATAAATATAA
* * *
5760020 TATGGATTTGTTATACAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGTAT-ATATGCGC
1 TATAGATTTGGTATACAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGT-TCATATGCGT
* * **
5760084 GCATATAGGTTTAACGTGAG-ATTATACATAAATATAA
65 ACATATAGGTTTAATGTGAGTA-TATTTATAAATATAA
5760121 TA
1 TA
5760123 ATACATGGAA
Statistics
Matches: 175, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 174 0.99
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (101 bp):
TATAGATTTGGTATACAGTGTATAAAAAGAAAGTAAAAATATGTACATTTATGTTCATATGCGTA
CATATAGGTTTAATGTGAGTATATTTATAAATATAA
Found at i:5760651 original size:16 final size:17
Alignment explanation
Indices: 5760630--5760676 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
5760620 AAAATAACAC
5760630 AAAAAAAGGAAAAA-GT
1 AAAAAAAGGAAAAATGT
*
5760646 AAAAAAAGTAAAAATGT
1 AAAAAAAGGAAAAATGT
*
5760663 TAAAAAA-GAAAAAT
1 AAAAAAAGGAAAAAT
5760677 ATAATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (17 bp):
AAAAAAAGGAAAAATGT
Found at i:5760682 original size:5 final size:5
Alignment explanation
Indices: 5760674--5760706 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5760664 AAAAAAGAAA
*
5760674 AATAT AATAT AATAT AATAT AATAA AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT
5760707 GAAGAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:5762329 original size:5 final size:5
Alignment explanation
Indices: 5762319--5762392 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
5762309 AGATAAAAAT
*
5762319 TAATA TAATA T-A-A TAATA TAATAA TAATA TAAATA TAATAA TAAAAA
1 TAATA TAATA TAATA TAATA TAAT-A TAATA T-AATA TAAT-A T-AATA
*
5762366 TAA-A TAATA TTAATG TAATA TAATA TA
1 TAATA TAATA -TAATA TAATA TAATA TA
5762393 TAATAAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 2 0.03
4 6 0.10
5 30 0.52
6 18 0.31
7 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:5762331 original size:25 final size:23
Alignment explanation
Indices: 5762303--5762406 Score: 83
Period size: 23 Copynumber: 4.4 Consensus size: 23
5762293 ACCTAAAACA
5762303 ATAAATAGATAAAAATTAATATAAT
1 ATAAATA-ATAAAAA-TAATATAAT
5762328 AT-AATAATATAATAATAATATAA-
1 ATAAATAATA-AA-AATAATATAAT
5762351 ATATAATAATAAAAATAA-ATAAT
1 ATA-AATAATAAAAATAATATAAT
* *
5762374 ATTAATGTAAT-ATAAT-ATATAAT
1 A-TAA-ATAATAAAAATAATATAAT
*
5762397 AAAAATAATA
1 ATAAATAATA
5762407 TGTTTTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
21 4 0.06
22 7 0.11
23 22 0.33
24 22 0.33
25 11 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATAATAAAAATAATATAAT
Found at i:5762336 original size:3 final size:3
Alignment explanation
Indices: 5762319--5762406 Score: 64
Period size: 3 Copynumber: 30.7 Consensus size: 3
5762309 AGATAAAAAT
5762319 TAA T-A TAA T-A TAA TAA T-A TAA TAA TAA T-A TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * *
5762360 TAA AAA TAAA TAA TAT TAA T-G TAA T-A TAA TATA TAA TAA AAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
5762405 TA
1 TA
5762407 TGTTTTCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
2 12 0.18
3 48 0.72
4 7 0.10
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5762344 original size:16 final size:16
Alignment explanation
Indices: 5762323--5762407 Score: 76
Period size: 17 Copynumber: 5.4 Consensus size: 16
5762313 AAAAATTAAT
5762323 ATAATATAATAATATA
1 ATAATATAATAATATA
5762339 ATAATA-ATATAAATATA
1 ATAATATA-AT-AATATA
5762356 ATAATA-AA-AATA-A
1 ATAATATAATAATATA
5762369 ATAATATTAATGTAATATA
1 ATAATA-TAA--TAATATA
5762388 AT-ATATAATAA-A-A
1 ATAATATAATAATATA
5762401 ATAATAT
1 ATAATAT
5762408 GTTTTCAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.17
14 9 0.15
15 6 0.10
16 9 0.15
17 16 0.27
18 7 0.12
19 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (16 bp):
ATAATATAATAATATA
Found at i:5762356 original size:30 final size:30
Alignment explanation
Indices: 5762320--5762403 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 30
5762310 GATAAAAATT
5762320 AATATAATATAATAATATAATAATAATATA
1 AATATAATATAATAATATAATAATAATATA
*
5762350 AATAT-A-ATAATAA-A-AATAAATAATATT
1 AATATAATATAATAATATAAT-AATAATATA
* *
5762377 AATGTAATATAAT-ATATAATAAAAATA
1 AATATAATATAATAATATAATAATAATA
5762404 ATATGTTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
26 3 0.07
27 13 0.28
28 9 0.20
29 13 0.28
30 8 0.17
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (30 bp):
AATATAATATAATAATATAATAATAATATA
Found at i:5762403 original size:36 final size:38
Alignment explanation
Indices: 5762325--5762404 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 38
5762315 AAATTAATAT
5762325 AATATAATAATATAATAATAATATAAATATAATAATAAA
1 AATA-AATAATATAATAATAATATAAATATAATAATAAA
*
5762364 AATAAATAATATTAAT-GTAATAT-AATAT-ATAATAAA
1 AATAAATAATA-TAATAATAATATAAATATAATAATAAA
5762400 AATAA
1 AATAA
5762405 TATGTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 13 0.33
37 5 0.13
38 13 0.33
39 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
AATAAATAATATAATAATAATATAAATATAATAATAAA
Found at i:5762487 original size:13 final size:13
Alignment explanation
Indices: 5762469--5762495 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5762459 AAAAAACTAT
5762469 ATATGTTTTCAAA
1 ATATGTTTTCAAA
5762482 ATATGTTTTCAAA
1 ATATGTTTTCAAA
5762495 A
1 A
5762496 CTATATTATA
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:5762558 original size:75 final size:68
Alignment explanation
Indices: 5762429--5762593 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 68
5762419 TTATATATTT
* * * *
5762429 TATATTATATATGTTTCCAAAAATTGTTTTAAAAAACTATATATGTTTTCAAAATATGTTTTCAA
1 TATATTATATATGTTTTCAAAAATCGTTTTAAAAAAATATATATGTTTTCAAAATATGGTTTCAA
5762494 AAC
66 AAC
*
5762497 TATATTATATATGTTTTCAAAAATCGTTTTTAAAACTATAAATATTATATGTTTTCAAAAATGTG
1 TATATTATATATGTTTTCAAAAATCG-TTTT-AAA--A-AAATA-TATATGTTTTC-AAAATATG
5762562 GTTTCAAAAC
59 GTTTCAAAAC
* *
5762572 TATATAATATATGATTTCAAAA
1 TATATTATATATGTTTTCAAAA
5762594 TCATACTATA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
68 24 0.29
69 4 0.05
70 3 0.04
72 1 0.01
73 4 0.05
74 11 0.13
75 36 0.43
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (68 bp):
TATATTATATATGTTTTCAAAAATCGTTTTAAAAAAATATATATGTTTTCAAAATATGGTTTCAA
AAC
Found at i:5762592 original size:37 final size:35
Alignment explanation
Indices: 5762429--5762816 Score: 182
Period size: 36 Copynumber: 11.1 Consensus size: 35
5762419 TTATATATTT
* *
5762429 TATATTATATATGTTTCCAAAAATTGTTTT-AAAA-
1 TATATAATATATGTTTTCAAAAA-TGTTTTCAAAAC
5762463 -A-ACT-ATATATGTTTTCAAAATATGTTTTCAAAAC
1 TATA-TAATATATGTTTTCAAAA-ATGTTTTCAAAAC
* *
5762497 TATATTATATATGTTTTCAAAAATCGTTTTTAAAAC
1 TATATAATATATGTTTTCAAAAAT-GTTTTCAAAAC
*
5762533 TATAAATATTATATGTTTTCAAAAATGTGGTTTCAAAAC
1 TAT--ATAATATATGTTTTCAAAAATGT--TTTCAAAAC
* *
5762572 TATATAATATATGATTTC-AAAA-----TC-ATAC
1 TATATAATATATGTTTTCAAAAATGTTTTCAAAAC
**** ** ** *
5762600 TATAT-AT-T-T-TCAAAAATCGAT-TTTAAAAAGC
1 TATATAATATATGTTTTCAA-AAATGTTTTCAAAAC
* * * * *
5762631 TATATATTATAGGATTTCAAAATTTTTTTTCTAAAAAC
1 TATATAATATATGTTTTCAAAA-ATGTTTTC--AAAAC
** *
5762669 TATATATTATATATGTTTTCAAAACCGTTTTAAAAAAC
1 TATATA--ATATATGTTTTCAAAAATGTTTT-CAAAAC
* * * * *
5762707 TATATATTATACGTTTTCAAAACTATTTTAAAAAC
1 TATATAATATATGTTTTCAAAAATGTTTTCAAAAC
* * *
5762742 TATATATTATACGTTTTCAAAATTAT-TTTTAAAAAAC
1 TATATAATATATGTTTTCAAAA--ATGTTTT-CAAAAC
**
5762779 TATATAATATATGTTTTCAAAACCGTTTTCAAAAC
1 TATATAATATATGTTTTCAAAAATGTTTTCAAAAC
5762814 TAT
1 TAT
5762817 TTTTAAAACT
Statistics
Matches: 271, Mismatches: 49, Indels: 67
0.70 0.13 0.17
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 2 0.01
28 8 0.03
29 2 0.01
31 7 0.03
32 23 0.08
33 8 0.03
35 43 0.16
36 64 0.24
37 42 0.15
38 40 0.15
39 15 0.06
40 13 0.05
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (35 bp):
TATATAATATATGTTTTCAAAAATGTTTTCAAAAC
Found at i:5762614 original size:58 final size:59
Alignment explanation
Indices: 5762542--5762653 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 59
5762532 CTATAAATAT
* * *
5762542 TATATGTTTTCAAAAAT-G-TGGTTTCAAAA-CTATATAATATATGATTTCAAAATCATAC
1 TATATATTTTCAAAAATCGAT--TTTAAAAAGCTATATAATATAGGATTTCAAAATCATAC
*
5762600 TATATATTTTCAAAAATCGATTTTAAAAAGCTATATATTATAGGATTTCAAAAT
1 TATATATTTTCAAAAATCGATTTTAAAAAGCTATATAATATAGGATTTCAAAAT
5762654 TTTTTTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 23 0.49
59 23 0.49
60 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (59 bp):
TATATATTTTCAAAAATCGATTTTAAAAAGCTATATAATATAGGATTTCAAAATCATAC
Found at i:5762624 original size:96 final size:98
Alignment explanation
Indices: 5762482--5762693 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 98
5762472 TGTTTTCAAA
* *
5762482 ATATGTTTTCAAAACTATATTATATATGTTTTCAAAAATCG-TTTTTAAAA-CTATAAATATTAT
1 ATATGTTTTCAAAACTATACTATATA-GTTTTCAAAAATCGATTTTAAAAAGCTAT--ATATTAT
* *
5762545 ATGTTTTCAAAAATGTGGTTTC-AAAACTATATA-AT
63 AGGATTTC-AAAATGTGGTTTCAAAAACTATATATAT
*
5762580 ATATGATTTCAAAA-TCATACTATATA-TTTTCAAAAATCGATTTTAAAAAGCTATATATTATAG
1 ATATGTTTTCAAAACT-ATACTATATAGTTTTCAAAAATCGATTTTAAAAAGCTATATATTATAG
* **
5762643 GATTTCAAAATTTTTTTTCTAAAAACTATATATTAT
65 GATTTCAAAATGTGGTTTC-AAAAACTATATA-TAT
5762679 ATATGTTTTCAAAAC
1 ATATGTTTTCAAAAC
5762694 CGTTTTAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
95 10 0.10
96 26 0.27
97 20 0.21
98 26 0.27
99 15 0.15
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (98 bp):
ATATGTTTTCAAAACTATACTATATAGTTTTCAAAAATCGATTTTAAAAAGCTATATATTATAGG
ATTTCAAAATGTGGTTTCAAAAACTATATATAT
Found at i:5762747 original size:35 final size:35
Alignment explanation
Indices: 5762619--5762816 Score: 198
Period size: 35 Copynumber: 5.4 Consensus size: 35
5762609 TCAAAAATCG
* * *
5762619 ATTTTAAAAAGCTATATATTATAGGATTTCAAAATTTT
1 ATTTTAAAAA-CTATATATTATACGTTTTCAAAA--CT
* * *
5762657 TTTTCTAAAAACTATATATTATATATGTTTTCAAAACC
1 ATTT-TAAAAACTATATA-T-TATACGTTTTCAAAACT
*
5762695 GTTTTAAAAAACTATATATTATACGTTTTCAAAACT
1 ATTTT-AAAAACTATATATTATACGTTTTCAAAACT
*
5762731 ATTTTAAAAACTATATATTATACGTTTTCAAAATT
1 ATTTTAAAAACTATATATTATACGTTTTCAAAACT
* * *
5762766 ATTTTTAAAAAACTATATAATATATGTTTTCAAAACC
1 A-TTTT-AAAAACTATATATTATACGTTTTCAAAACT
* *
5762803 GTTTTCAAAACTAT
1 ATTTTAAAAACTAT
5762817 TTTTAAAACT
Statistics
Matches: 138, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
35 38 0.28
36 27 0.20
37 28 0.20
38 25 0.18
39 7 0.05
40 13 0.09
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (35 bp):
ATTTTAAAAACTATATATTATACGTTTTCAAAACT
Found at i:5762843 original size:47 final size:48
Alignment explanation
Indices: 5762753--5762847 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
5762743 ATATATTATA
* *
5762753 CGTTTTCAAAATTATTTTTAAAAAACTATATAATATATGTTTTCAAAAC
1 CGTTTTCAAAACTATTTTT-AAAAACTATATAATATATATTTTCAAAAC
*
5762802 CGTTTTCAAAACTATTTTT-AAAACTATATATTATATATTTTCAAAA
1 CGTTTTCAAAACTATTTTTAAAAACTATATAATATATATTTTCAAAA
5762848 ACTACATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 25 0.58
49 18 0.42
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (48 bp):
CGTTTTCAAAACTATTTTTAAAAACTATATAATATATATTTTCAAAAC
Found at i:5763403 original size:17 final size:17
Alignment explanation
Indices: 5763381--5763413 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5763371 AATGAGAGAT
5763381 TAGAAGCATTGGATGGG
1 TAGAAGCATTGGATGGG
5763398 TAGAAGCATTGGATGG
1 TAGAAGCATTGGATGG
5763414 ATTTAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.39, T:0.24
Consensus pattern (17 bp):
TAGAAGCATTGGATGGG
Found at i:5763725 original size:20 final size:19
Alignment explanation
Indices: 5763681--5763730 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
5763671 CAACCGTGCA
5763681 GTATCGATACTGAAAAGAG
1 GTATCGATACTGAAAAGAG
*
5763700 GTTATCGATACTATGAGAA-AG
1 G-TATCGATAC--TGAAAAGAG
5763721 GTATCGATAC
1 GTATCGATAC
5763731 CATTGATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 18 0.67
21 3 0.11
22 5 0.19
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (19 bp):
GTATCGATACTGAAAAGAG
Found at i:5763821 original size:20 final size:21
Alignment explanation
Indices: 5763772--5763826 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
5763762 ATACCGTAAT
*
5763772 AGAGTATCGGTACCATAGTAC
1 AGAGTATCGATACCATAGTAC
*
5763793 AGTAGTATCGATACCATGGTA-
1 AG-AGTATCGATACCATAGTAC
5763814 AGAGTATCGATAC
1 AGAGTATCGATAC
5763827 TATTGAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 11 0.35
21 4 0.13
22 16 0.52
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (21 bp):
AGAGTATCGATACCATAGTAC
Found at i:5764308 original size:56 final size:57
Alignment explanation
Indices: 5764142--5764308 Score: 273
Period size: 57 Copynumber: 2.9 Consensus size: 57
5764132 TACCGAATGA
5764142 CACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
*
5764199 CACTTTGTGTGCAAAAAGTTAAGAAATTCATAAGAAGTTTATGAATTTTCGTATGGG
1 CACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
* * * * *
5764256 CACTTTGTGTGCAAAAA-CTAATAAATTCATAATAAGTATATGAAATTCCGTAT
1 CACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
5764309 TGGTAGCGGG
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
56 30 0.29
57 73 0.71
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.35
Consensus pattern (57 bp):
CACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
Found at i:5780589 original size:21 final size:23
Alignment explanation
Indices: 5780560--5780628 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
5780550 CATAAAAAAG
*
5780560 AAATAAATAAAATAAAAAGTA-A-
1 AAAT-AATAAAATAAAAAATATAT
5780582 AAATAATAGAAGATAAAAAATATAT
1 AAATAATA-AA-ATAAAAAATATAT
* *
5780607 AATATAATATAATAAAATATAT
1 AA-ATAATAAAATAAAAAATAT
5780629 TGAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 4 0.10
22 6 0.15
23 9 0.23
24 11 0.28
25 3 0.08
26 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
AAATAATAAAATAAAAAATATAT
Found at i:5780616 original size:10 final size:10
Alignment explanation
Indices: 5780560--5780627 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
5780550 CATAAAAAAG
5780560 AAATA-AATA
1 AAATATAATA
*
5780569 AAATAAAAAGTA
1 AAAT-ATAA-TA
5780581 AAA-ATAATA
1 AAATATAATA
* * *
5780590 GAAGATAAAA
1 AAATATAATA
5780600 AATATATAATA
1 AA-ATATAATA
*
5780611 TAATATAATA
1 AAATATAATA
5780621 AAATATA
1 AAATATA
5780628 TTGAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
9 8 0.17
10 24 0.52
11 9 0.20
12 5 0.11
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAATATAATA
Found at i:5780810 original size:16 final size:17
Alignment explanation
Indices: 5780765--5780817 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
5780755 AAAAACATAT
*
5780765 TAAAGTTAAAAGAAATAAA
1 TAAA-TTAAAA-AGATAAA
*
5780784 AAAATTAAAAAGATAAA
1 TAAATTAAAAAGATAAA
*
5780801 TAAA-TAAAAATATAAA
1 TAAATTAAAAAGATAAA
5780817 T
1 T
5780818 GATCAAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.40
17 9 0.30
18 6 0.20
19 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.23
Consensus pattern (17 bp):
TAAATTAAAAAGATAAA
Found at i:5782229 original size:8 final size:8
Alignment explanation
Indices: 5782218--5782281 Score: 112
Period size: 8 Copynumber: 8.1 Consensus size: 8
5782208 AGATAAAAAT
5782218 TAATATAA
1 TAATATAA
5782226 TAATATAA
1 TAATATAA
5782234 TAATATAA
1 TAATATAA
5782242 TAATATAA
1 TAATATAA
5782250 TAATATAA
1 TAATATAA
5782258 TAATATAA
1 TAATATAA
*
5782266 TAATAAAA
1 TAATATAA
5782274 TAA-ATAA
1 TAATATAA
5782281 T
1 T
5782282 TAAAAAAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
7 4 0.07
8 50 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAATATAA
Found at i:5782289 original size:16 final size:16
Alignment explanation
Indices: 5782224--5782330 Score: 83
Period size: 16 Copynumber: 6.5 Consensus size: 16
5782214 AAATTAATAT
* *
5782224 AATAATATAATAATAT
1 AATAATATAATAAAAA
* *
5782240 AATAATATAATAATAT
1 AATAATATAATAAAAA
*
5782256 AATAATATAATAATAA
1 AATAATATAATAAAAA
5782272 AATAA-ATAATTAAAAAA
1 AATAATATAA-T-AAAAA
* *
5782289 AATAATTTAATGTAATAA
1 AATAATATAA--TAAAAA
*
5782307 AAT-ATATTATAAAAA
1 AATAATATAATAAAAA
5782322 TAATAATAT
1 -AATAATAT
5782331 TTTTTCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
15 9 0.12
16 40 0.52
17 17 0.22
18 10 0.13
19 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (16 bp):
AATAATATAATAAAAA
Found at i:5782407 original size:13 final size:13
Alignment explanation
Indices: 5782389--5782415 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5782379 AAAACTATAT
5782389 ATATGTTTTCAAA
1 ATATGTTTTCAAA
5782402 ATATGTTTTCAAA
1 ATATGTTTTCAAA
5782415 A
1 A
5782416 CTATATTATA
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:5782411 original size:75 final size:75
Alignment explanation
Indices: 5782326--5782514 Score: 228
Period size: 75 Copynumber: 2.5 Consensus size: 75
5782316 TAAAAATAAT
*
5782326 AATATTTTTTCAAAAGTTATATATTATATATGTTTCCAAAAATCG-TTTTAAAA-AAAACTATA-
1 AATATGTTTTCAAAA--TATATATTATATATGTTT-CAAAAATCGTTTTTAAAACAAAA-TATAT
5782388 TATATGTTTTC-AA
62 TATATGTTTTCAAA
* * *
5782401 AATATGTTTTCAAAA-CTATATTATATATGTTTTCAAAAATCGTTTTTAAAACTATATATATTAT
1 AATATGTTTTCAAAATATATATTATATATG-TTTCAAAAATCGTTTTTAAAACAAAATATATTAT
5782465 ATGTTTTCAAA
65 ATGTTTTCAAA
* *
5782476 AATGTGTTTTCAAAACTATATAATATATAT-TTTCAAAAA
1 AATATGTTTTCAAAA-TATATATTATATATGTTTCAAAAA
5782515 CGCATTTTCG
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
72 22 0.22
73 15 0.15
74 13 0.13
75 39 0.39
77 11 0.11
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (75 bp):
AATATGTTTTCAAAATATATATTATATATGTTTCAAAAATCGTTTTTAAAACAAAATATATTATA
TGTTTTCAAA
Found at i:5782478 original size:110 final size:107
Alignment explanation
Indices: 5782343--5782844 Score: 348
Period size: 110 Copynumber: 4.6 Consensus size: 107
5782333 TTTCAAAAGT
* * * *
5782343 TATATAT-TATATATGTTTCCAAAAATCGTTTTAAAAAAAACTATATATATGTTTTCAAAATATG
1 TATATATAT-TATATGTTTTCAAAAAT-GTTTTAAAAAATA-TATATATATATTTTCAAAA-ACG
* *
5782407 TTTTCAAAACTATAT-TATATATGTTTTCAAAAATCGTTTTTAAAAC
62 TTTTAAAAACTATATAT-TATATGTTTTCAAAAATCGTTTTTAAAAA
* *
5782453 TATATATATTATATGTTTTCAAAAATGTGTTTTCAAAACTATATAATATATATTTTCAAAAACGC
1 TATATATATTATATGTTTTCAAAAA--TGTTTTAAAAAATATAT-ATATATATTTTCAAAAACG-
** ** * *
5782518 ATTTTCGAAACCGTACTA-TATA--ATTTC-AAAATCTGATTTTAAAAA
62 -TTTTAAAAACTATA-TATTATATGTTTTCAAAAATC-GTTTTTAAAAA
** * * **
5782563 GCTATATATTATATGCTTTCAAAAATGTTTTCTAAAAACTATATATTATATATGTTTTCAAATCC
1 TATATATATTATATGTTTTCAAAAATG-TTT-TAAAAA--ATATA-TATATATATTTTCAAAAAC
* * *
5782628 GTTTAAAAAACTATATATTAAATGTTTT-TAAAA-C-TATTTTAAAAA
61 GTTTTAAAAACTATATATTATATGTTTTCAAAAATCGT-TTTTAAAAA
* *
5782673 T-TATATATTATACGTTTTCAAAATTATTTTTTAAAAAACTATATACTATATATTTTC-AAAACT
1 TATATATATTATATGTTTTCAAAA--ATGTTTTAAAAAA-TATATA-TATATATTTTCAAAAAC-
** *
5782736 GTTTTAAAAACTATATATTATACATTTTCAAAACT-G-TTTTAAAAA
61 GTTTTAAAAACTATATATTATATGTTTTCAAAAATCGTTTTTAAAAA
* * * * **
5782781 -CTATATATTATACGTTTTTTAAAAATAAGCTTTCAAAATCTATATATTATATATTTTCAAAAAC
1 TATATATATTATATG-TTTTCAAAAAT--G-TTTTAAAAAATATATA-TATATATTTTCAAAAAC
5782845 TACATTATAT
Statistics
Matches: 312, Mismatches: 47, Indels: 66
0.73 0.11 0.16
Matches are distributed among these distances:
107 8 0.03
108 62 0.20
109 65 0.21
110 103 0.33
111 29 0.09
112 43 0.14
113 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (107 bp):
TATATATATTATATGTTTTCAAAAATGTTTTAAAAAATATATATATATATTTTCAAAAACGTTTT
AAAAACTATATATTATATGTTTTCAAAAATCGTTTTTAAAAA
Found at i:5782509 original size:37 final size:37
Alignment explanation
Indices: 5782343--5782843 Score: 367
Period size: 35 Copynumber: 13.6 Consensus size: 37
5782333 TTTCAAAAGT
* *
5782343 TATATATTATATATGTTTCCAAAAATC-GTTTTAAAAAA
1 TATATA-T-TATATGTTTTCAAAAATCTGTTTTAAAAAC
* * *
5782381 AACTATA-TATATGTTTTC-AAAATATGTTTTCAAAAC
1 TA-TATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
*
5782417 TATAT-TATATATGTTTTCAAAAATC-GTTTTTAAAAC
1 TATATAT-TATATGTTTTCAAAAATCTGTTTTAAAAAC
* *
5782453 TATATATATTATATGTTTTCAAAAATGTGTTTTCAAAAC
1 --TATATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
* * **
5782492 TATATAATATATATTTTCAAAAA-C-GCATTTTCGAAAC
1 TATATATTATATGTTTTCAAAAATCTG--TTTTAAAAAC
** *
5782529 CGTACTA-TATA--ATTTC-AAAATCTGATTTTAAAAAGC
1 TATA-TATTATATGTTTTCAAAAATCTG-TTTTAAAAA-C
* *
5782565 TATATATTATATGCTTTCAAAAATGT-TTTCTAAAAAC
1 TATATATTATATGTTTTCAAAAATCTGTTT-TAAAAAC
* *
5782602 TATATATTATATATGTTTTC--AAATCCGTTTAAAAAAC
1 TATATA-T-TATATGTTTTCAAAAATCTGTTTTAAAAAC
* * * *
5782639 TATATATTAAATGTTTT-TAAAA-CTATTTTAAAAAT
1 TATATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
* * * *
5782674 TATATATTATACGTTTTCAAAATTATTTTTTAAAAAAC
1 TATATATTATATGTTTTCAAAAATCTGTTTT-AAAAAC
* *
5782712 TATATACTATATATTTTC-AAAA-CTGTTTTAAAAAC
1 TATATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
**
5782747 TATATATTATACATTTTC-AAAA-CTGTTTTAAAAAC
1 TATATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
* * ** * *
5782782 TATATATTATACGTTTTTTAAAAATAAGCTTTCAAAATC
1 TATATATTATATG-TTTTCAAAAATCTG-TTTTAAAAAC
*
5782821 TATATATTATATATTTTCAAAAA
1 TATATATTATATGTTTTCAAAAA
5782844 CTACATTATA
Statistics
Matches: 375, Mismatches: 56, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
34 4 0.01
35 108 0.29
36 65 0.17
37 79 0.21
38 69 0.18
39 50 0.13
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (37 bp):
TATATATTATATGTTTTCAAAAATCTGTTTTAAAAAC
Found at i:5783296 original size:16 final size:18
Alignment explanation
Indices: 5783266--5783300 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
5783256 AGGTAATATA
5783266 AGATCTTTTTATTCTTTT
1 AGATCTTTTTATTCTTTT
5783284 AGAT-TTTTT-TTCTTTT
1 AGATCTTTTTATTCTTTT
5783300 A
1 A
5783301 ATTAGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.69
Consensus pattern (18 bp):
AGATCTTTTTATTCTTTT
Found at i:5783763 original size:18 final size:18
Alignment explanation
Indices: 5783737--5783775 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5783727 AATCTCTTAA
* *
5783737 TTTTCTTTTCTTATTTCT
1 TTTTCTTTTCTAATTTAT
*
5783755 TTTTTTTTTCTAATTTAT
1 TTTTCTTTTCTAATTTAT
5783773 TTT
1 TTT
5783776 GTTATGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTCTAATTTAT
Found at i:5783771 original size:44 final size:45
Alignment explanation
Indices: 5783663--5783771 Score: 105
Period size: 49 Copynumber: 2.3 Consensus size: 45
5783653 TAAGAAAGAA
*
5783663 TTTTTTTTTAATTTAATTTTCTTAAATTCCATTCTCTTATTTATTT
1 TTTTTTTTTAATTTAATTCTCTTAAATTCCATTCTCTTATTTA-TT
* * * *
5783709 TGTTAATTTTTTATATTTAA-TCTCTTAATTTTC-TTTTCTTATTTCTT
1 T-TT--TTTTTTA-ATTTAATTCTCTTAAATTCCATTCTCTTATTTATT
5783756 TTTTTTTTCTAATTTA
1 TTTTTTTT-TAATTTA
5783772 TTTTGTTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
44 10 0.19
45 2 0.04
46 3 0.06
47 5 0.09
48 10 0.19
49 17 0.32
50 6 0.11
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.69
Consensus pattern (45 bp):
TTTTTTTTTAATTTAATTCTCTTAAATTCCATTCTCTTATTTATT
Found at i:5788137 original size:30 final size:30
Alignment explanation
Indices: 5788101--5788159 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
5788091 ATACTCTGGC
5788101 AGGTTCAGTCAT-ACTCA-TAATTCCTTATAT
1 AGGTTCAG-CATCACT-AGTAATTCCTTATAT
5788131 AGGTTCAGCATCGACTAGTAATTCCTTAT
1 AGGTTCAGCATC-ACTAGTAATTCCTTAT
5788160 GAACCTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 3 0.12
30 9 0.35
31 14 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (30 bp):
AGGTTCAGCATCACTAGTAATTCCTTATAT
Done.