Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003406.1 Hibiscus syriacus cultivar Beakdansim tig00007177_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: 66868
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:992 original size:56 final size:57
Alignment explanation
Indices: 906--1025 Score: 233
Period size: 56 Copynumber: 2.1 Consensus size: 57
896 CACAGTTCCA
906 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTC-
1 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
962 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
1 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
1019 TTTGTTT
1 TTTGTTT
1026 AATCTCTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 56 0.89
57 7 0.11
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (57 bp):
TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
Found at i:1728 original size:29 final size:29
Alignment explanation
Indices: 1696--1825 Score: 100
Period size: 29 Copynumber: 4.8 Consensus size: 29
1686 TGAACCTTTC
1696 TCCTTTAATGTAATTTATAAAAAGTTTTA
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
* *
1725 TCC-TTAATTTTAATTTATATAAAGTTTTA
1 TCCTTTAA-TGTAATTTATAAAAAGTTTTA
* * *
1754 TCC-TT--T-T-A---CTAAAATGTTTTG
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
*
1775 TCCTTTAGTGTAATTTAT-AAAAGTTTTA
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
* * *
1803 TCCTTAAATTTGATTTATAAAAA
1 TCCTTTAATGTAATTTATAAAAA
1826 TTTGTGTTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
21 12 0.15
22 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
28 26 0.33
29 32 0.41
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (29 bp):
TCCTTTAATGTAATTTATAAAAAGTTTTA
Found at i:1789 original size:50 final size:48
Alignment explanation
Indices: 1709--1807 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 48
1699 TTTAATGTAA
* *
1709 TTTATAAAAAGTTTTATCCTTAATTTTAATTTATATAAAGTTTTATCCT
1 TTTATAAAAAGTTTTATCCTTAAGTGTAATTTATA-AAAGTTTTATCCT
* * *
1758 TTTACTAAAATGTTTTGTCCTTTAGTGTAATTTATAAAAGTTTTATCCT
1 TTTA-TAAAAAGTTTTATCCTTAAGTGTAATTTATAAAAGTTTTATCCT
1807 T
1 T
1808 AAATTTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 18 0.41
50 26 0.59
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (48 bp):
TTTATAAAAAGTTTTATCCTTAAGTGTAATTTATAAAAGTTTTATCCT
Found at i:1900 original size:19 final size:20
Alignment explanation
Indices: 1863--1904 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
1853 AAGTTTAGTC
1863 ATTTATTATAATTTTAAAAA
1 ATTTATTATAATTTTAAAAA
1883 ATTTATT-T-ATTATTAAAAA
1 ATTTATTATAATT-TTAAAAA
1902 ATT
1 ATT
1905 ATAACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 11 0.52
20 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTATTATAATTTTAAAAA
Found at i:8574 original size:107 final size:107
Alignment explanation
Indices: 8445--8761 Score: 580
Period size: 107 Copynumber: 3.0 Consensus size: 107
8435 AAGTTCCATT
* * *
8445 GATTTTATACCAGTGCTTGCTCAATACAAAAAACGTGCTAGTACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
8510 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
8552 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
8617 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
* * *
8659 GATTTTATACCAGTGTTTTCTCAATACGAAAAACGTGTTGGCACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
8724 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAA
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAA
8762 AAATCTTCCA
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 204 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (107 bp):
GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
Found at i:9890 original size:14 final size:13
Alignment explanation
Indices: 9845--9883 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
9835 AGAATATTAG
9845 ATAAAGATAAAAAA
1 ATAAA-ATAAAAAA
9859 ATAAGAATAAAAAA
1 ATAA-AATAAAAAA
9873 ATAAAATAAAA
1 ATAAAATAAAA
9884 TAGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.29
14 16 0.67
15 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:10892 original size:44 final size:45
Alignment explanation
Indices: 10774--10910 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 45
10764 ATAAGGAAAA
*
10774 TAAATCCTAATT-AAAATACTTAAAACTATTTAAACTAAAATACC
1 TAAATCCTAATTAAAAATACTTAAAACTATTTAAAATAAAATACC
* ** * * *
10818 TAAAACAGAGA-TAAGATAA-A-ATATAA-TATTTAAAATAATAT-CC
1 TAAATCCTA-ATTAA-A-AATACTTAAAACTATTTAAAATAAAATACC
* *
10861 TAAATCCTAATTAAAAATACTTAAAACTATTTAAACTAAAAAAACC
1 TAAATCCTAATTAAAAATACTTAAAACTATTTAAAAT-AAAATACC
10907 TAAA
1 TAAA
10911 ACAAAGATAA
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 15 0.22
44 29 0.43
45 9 0.13
46 8 0.12
47 2 0.03
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (45 bp):
TAAATCCTAATTAAAAATACTTAAAACTATTTAAAATAAAATACC
Found at i:10943 original size:84 final size:84
Alignment explanation
Indices: 10774--10948 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
10764 ATAAGGAAAA
*
10774 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAGAGATAAGATAAAA
1 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAAAACCTAAAAC--A-ATAAGATAAAA
10839 TATAATATTTAAAATAATATCC
63 TATAATATTTAAAATAATATCC
10861 TAAATCCTAATTAAAAATACTTAAAACTATTTAAACTAAAAAAACCTAAAAC-A-AAGATAAAAT
1 TAAATCCTAATT-AAAATACTTAAAACTATTTAAACT-AAAAAACCTAAAACAATAAGATAAAAT
10924 ATAATATTTAAAATAATATCC
64 ATAATATTTAAAATAATATCC
10945 TAAA
1 TAAA
10949 ACATGAGTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
84 35 0.41
85 1 0.01
87 12 0.14
88 24 0.28
89 13 0.15
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (84 bp):
TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAAAACCTAAAACAATAAGATAAAATAT
AATATTTAAAATAATATCC
Found at i:13376 original size:12 final size:13
Alignment explanation
Indices: 13361--13419 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
13351 TTAAAAACAA
13361 AAAAATTG-AAAT
1 AAAAATTGAAAAT
13373 AAAAATTGAAAAT
1 AAAAATTGAAAAT
*
13386 AAAAA-TAAAAATT
1 AAAAATTGAAAA-T
*
13399 AAACAAATGGAAAAT
1 -AA-AAATTGAAAAT
13414 AAAAAT
1 AAAAAT
13420 AATAATGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 4 0.10
15 4 0.10
16 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (13 bp):
AAAAATTGAAAAT
Found at i:13376 original size:13 final size:14
Alignment explanation
Indices: 13360--13418 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 14
13350 ATTAAAAACA
13360 AAAAAATTG-AAAT
1 AAAAAATTGAAAAT
13373 -AAAAATTGAAAAT
1 AAAAAATTGAAAAT
*
13386 -AAAAA-TAAAAATT
1 AAAAAATTGAAAA-T
*
13399 AAACAAATGGAAAAT
1 AAA-AAATTGAAAAT
13414 AAAAA
1 AAAAA
13419 TAATAATGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 13 0.34
13 10 0.26
14 4 0.11
15 7 0.18
16 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAAAATTGAAAAT
Found at i:13650 original size:13 final size:12
Alignment explanation
Indices: 13600--13661 Score: 78
Period size: 12 Copynumber: 5.4 Consensus size: 12
13590 GTAGATTTTG
13600 GCTTTCTCATAT
1 GCTTTCTCATAT
*
13612 G-TTT-T-TTA-
1 GCTTTCTCATAT
13620 GCTTTCTCATAT
1 GCTTTCTCATAT
13632 GCTTTCTCATAT
1 GCTTTCTCATAT
13644 AGCTTTCTCATAT
1 -GCTTTCTCATAT
13657 GCTTT
1 GCTTT
13662 TTTAGCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 5 0.12
10 2 0.05
11 5 0.12
12 18 0.42
13 12 0.28
ACGTcount: A:0.16, C:0.21, G:0.10, T:0.53
Consensus pattern (12 bp):
GCTTTCTCATAT
Found at i:13652 original size:25 final size:21
Alignment explanation
Indices: 13595--13670 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 21
13585 TTCTTGTAGA
*
13595 TTTTGGCTTTCTCATATG-TT
1 TTTTAGCTTTCTCATATGCTT
13615 TTTTAGCTTTCTCATATGCTT
1 TTTTAGCTTTCTCATATGCTT
13636 TCTCATATAGCTTTCTCATATGCTT
1 T-T--T-TAGCTTTCTCATATGCTT
13661 TTTTAGCTTT
1 TTTTAGCTTT
13671 GAAAGCTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
20 17 0.34
21 10 0.20
22 2 0.04
24 2 0.04
25 19 0.38
ACGTcount: A:0.14, C:0.18, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTAGCTTTCTCATATGCTT
Found at i:14934 original size:21 final size:21
Alignment explanation
Indices: 14908--14954 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14898 GCTTTGGAAT
* * *
14908 TTTTCCTGGGATGTAACTAGC
1 TTTTCCTGGGACGTAACCAAC
14929 TTTTCCTGGGACGTAACCAAC
1 TTTTCCTGGGACGTAACCAAC
14950 TTTTC
1 TTTTC
14955 TTGTGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TTTTCCTGGGACGTAACCAAC
Found at i:16384 original size:14 final size:15
Alignment explanation
Indices: 16364--16412 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
16354 TATAGAATTT
16364 TAGATAAAGATAAAA
1 TAGATAAAGATAAAA
16379 -AGAT-AAGAATAAAA
1 TAGATAAAG-ATAAAA
16393 TA-ATAAA-ATAAAA
1 TAGATAAAGATAAAA
16406 TAGATAA
1 TAGATAA
16413 TTAAATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.37
14 16 0.53
15 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
TAGATAAAGATAAAA
Found at i:17376 original size:70 final size:75
Alignment explanation
Indices: 17241--17381 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 75
17231 ATAAAGAAAA
*
17241 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAGATAAAA
1 TAAATCCTAATTAAAATACTTAAAACTATCTAAACT--AATACCTAAAAC--AGA-AAGATAAAA
17306 TATAATATAATATTC
61 TATAATATAATATTC
*
17321 TAAATCTTAATT-AAATACTTAAAACTATCTAAACT-A-ACCTAAAAC-G-AAGATAAAATATAA
1 TAAATCCTAATTAAAATACTTAAAACTATCTAAACTAATACCTAAAACAGAAAGATAAAATATAA
17381 T
66 T
17382 GTTTAAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
70 15 0.25
72 1 0.02
75 9 0.15
76 1 0.02
79 22 0.37
80 11 0.19
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTTAAAACTATCTAAACTAATACCTAAAACAGAAAGATAAAATATAA
TATAATATTC
Found at i:21346 original size:175 final size:175
Alignment explanation
Indices: 21032--21378 Score: 428
Period size: 175 Copynumber: 2.0 Consensus size: 175
21022 GCAATAATAG
* * ** *
21032 GGGGTTATCTCTCGGCCTATTATAGTATAGCTCAAGGCAAGAAAGGTTATCTATCAACAAAAACT
1 GGGGTTATCTCTCAGCCTATTACACCATAGCTCAAGGCAAGAAAGGTTATCTATCAACAAAAAAT
* * * ** *
21097 TTCGAGTTCAATTCCATTCAGCTTAATGACATATCAGTCGCATGGTAACAACGAGGAACTACTTT
66 CTCAAGTTCAATTCCATTCAGCTCAATGACATATCAACCGCATGGTAACAACGAGAAACTACTTT
* *
21162 ATGGTTGAAGTTTAAAC-CAAATCTTTAAGTCAATAAGAAGATAT
131 ATAGTTGAAGTTTAAACTCAAATCTTTAAGTCAAGAAGAAGATAT
* * * *
21206 GGGGTTATCTC-CAAGCCTATTACACCATAGCTCAAGGCGAGAAGGGTTATTTGTCAACAAAAAA
1 GGGGTTATCTCTC-AGCCTATTACACCATAGCTCAAGGCAAGAAAGGTTATCTATCAAC-AAAAA
* * * * *
21270 ATCTCAAGTTCGATTTCATTCAGCTCGATGACATATCAACCGCATGGTAGCAGCGAGAAACTACT
64 ATCTCAAGTTCAATTCCATTCAGCTCAATGACATATCAACCGCATGGTAACAACGAGAAACTACT
* * **
21335 TTCTAGTTGAAGTTTAAACTGAGTTCTTTAAGTCAAGAAGAAGA
129 TTATAGTTGAAGTTTAAACTCAAATCTTTAAGTCAAGAAGAAGA
21379 CCTAGGTTGG
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
173 1 0.01
174 48 0.33
175 75 0.52
176 20 0.14
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (175 bp):
GGGGTTATCTCTCAGCCTATTACACCATAGCTCAAGGCAAGAAAGGTTATCTATCAACAAAAAAT
CTCAAGTTCAATTCCATTCAGCTCAATGACATATCAACCGCATGGTAACAACGAGAAACTACTTT
ATAGTTGAAGTTTAAACTCAAATCTTTAAGTCAAGAAGAAGATAT
Found at i:28066 original size:18 final size:18
Alignment explanation
Indices: 28031--28066 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
28021 AAAATGGGTA
* *
28031 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
28049 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
28067 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:29608 original size:149 final size:149
Alignment explanation
Indices: 29434--29748 Score: 605
Period size: 149 Copynumber: 2.1 Consensus size: 149
29424 GAGTCGAGGG
29434 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
29499 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
29564 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
29583 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
29648 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
29713 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
29732 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
29749 TGCAATTATA
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 163 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:29749 original size:23 final size:23
Alignment explanation
Indices: 29716--29760 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
29706 ATTATTATAT
*
29716 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
29739 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
29761 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:31767 original size:34 final size:34
Alignment explanation
Indices: 31715--31876 Score: 105
Period size: 34 Copynumber: 4.6 Consensus size: 34
31705 GTCTGAAGTC
*
31715 ATTTTGAAAATTACATAATATATGGTTTTTTAAAT
1 ATTTTGAAAA-TACATAATATATGGTTTTTAAAAT
* * *
31750 ATTTTGAAAATATATAATATATAGATTTTGAAAACAT
1 ATTTTGAAAATACATAATATAT-GGTTTT-TAAA-AT
* * * * *
31787 TTTTTGAAAATACATATTATATTG-TTTTGAATT
1 ATTTTGAAAATACATAATATATGGTTTTTAAAAT
* * * * * *
31820 TTTTTTAAATATATATAATATATAGCTTTTAAAAAC
1 ATTTTGAAA-ATACATAATATAT-GGTTTTTAAAAT
31856 ATTCTTGAAAA-ACAT-ATATAT
1 ATT-TTGAAAATACATAATATAT
31877 TATATAATTT
Statistics
Matches: 96, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
33 9 0.09
34 30 0.31
35 21 0.22
36 10 0.10
37 26 0.27
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (34 bp):
ATTTTGAAAATACATAATATATGGTTTTTAAAAT
Found at i:31789 original size:35 final size:34
Alignment explanation
Indices: 31715--32044 Score: 205
Period size: 35 Copynumber: 9.1 Consensus size: 34
31705 GTCTGAAGTC
* * **
31715 ATTTTGAAAATTACATAATATATGGTTTTTTAAAT
1 ATTTTGAAAA-TATATAATATATAGTTTTGAAAAT
31750 ATTTTGAAAATATATAATATATAGATTTTGAAAACAT
1 ATTTTGAAAATATATAATATATAG-TTTTG-AAA-AT
* * * * *
31787 TTTTTGAAAATACATATTATATTGTTTTG-AATT
1 ATTTTGAAAATATATAATATATAGTTTTGAAAAT
* * * *
31820 TTTTTTAAATATATATAATATATAGCTTTTAAAAAC
1 ATTTTGAAA-ATATATAATATATAG-TTTTGAAAAT
* *
31856 ATTCTTGAAAAACATATATATTATATAATTTTGAAAATT
1 ATT-TTG--AAA-ATATATAATATATAGTTTTGAAAA-T
* ** * *
31895 AGTTTCTAAATATATATTATATAATTTTGAAAATT
1 ATTTTGAAAATATATAATATATAGTTTTGAAAA-T
*
31930 AGTTTTTAAAATATATATATTATATAGTTTTGAAAATT
1 A-TTTTGAAAATATATA-A-TATATAGTTTTGAAAA-T
* *
31968 AGTTTTTAAAA-ATATATTATATAGTTTTGAAAATT
1 A-TTTTGAAAATATATAATATATAGTTTTGAAAA-T
* ** * *
32003 ATTTTTTTAAAATATATGTTATGTGGTTTTGAAAATT
1 A--TTTTGAAAATATATAATATATAGTTTTGAAAA-T
32040 ATTTT
1 ATTTT
32045 TTTTAAAACA
Statistics
Matches: 244, Mismatches: 36, Indels: 30
0.79 0.12 0.10
Matches are distributed among these distances:
33 9 0.04
34 26 0.11
35 68 0.28
36 34 0.14
37 51 0.21
38 38 0.16
39 18 0.07
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (34 bp):
ATTTTGAAAATATATAATATATAGTTTTGAAAAT
Found at i:32045 original size:35 final size:36
Alignment explanation
Indices: 31751--32084 Score: 283
Period size: 35 Copynumber: 9.2 Consensus size: 36
31741 TTTTTAAATA
* * * *
31751 TTTTGAAAATATATAATATATAGATTTTGAAAA-CAT
1 TTTTTAAAATATATATTATATAG-TTTTGAAAATTAG
* * *
31787 TTTTTGAAAATACATATTATATTGTTTTG--AATT-T
1 TTTTT-AAAATATATATTATATAGTTTTGAAAATTAG
* **
31821 TTTTTAAATATATATAATATATAGCTTTT-AAAAACA-
1 TTTTTAAA-ATATATATTATATAG-TTTTGAAAATTAG
* *
31857 TTCTTGAAAAACATATATATTATATAATTTTGAAAATTAG
1 TT-TT--TAAA-ATATATATTATATAGTTTTGAAAATTAG
* *
31897 TTTCT-AAATATATATTATATAATTTTGAAAATTAG
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
31932 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTT-AAA-ATATATATTATATAGTTTTGAAAATTAG
*
31970 TTTTTAAAA-ATATATTATATAGTTTTGAAAATTATT
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTA-G
* * * *
32006 TTTTTAAAATATATGTTATGTGGTTTTGAAAATTATTT
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTA--G
* * *
32044 TTTTTAAAACATATATTGTATAGTTTT-AAAAAT-G
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
32078 TTTTTAA
1 TTTTTAA
32085 TTAATTTATT
Statistics
Matches: 249, Mismatches: 31, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
33 3 0.01
34 27 0.11
35 61 0.24
36 25 0.10
37 49 0.20
38 60 0.24
39 22 0.09
40 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (36 bp):
TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
Found at i:32046 original size:110 final size:109
Alignment explanation
Indices: 31746--32084 Score: 331
Period size: 110 Copynumber: 3.1 Consensus size: 109
31736 ATGGTTTTTT
* * * * *
31746 AAATA-TTTTGAAAATATATAATATATAGATTTTGAAAA-CATTTTTTGAAAATACATATTATAT
1 AAATAGTTTTTAAAATATATATTATATAG-TTTTGAAAATTATTTTTTTAAAATATATATTATAT
* *
31809 TGTTTTG--AATT-TTTTTTAAATATATATAATATATAGCTTTTAA
65 AGTTTTGAAAATTATTTTTTAAATATATATATTATATAG-TTTTAA
* * * * *
31852 AAACA-TTCTTGAAAAACATATATATTATATAATTTTGAAAATTA-GTTTCT-AAATATATATTA
1 AAATAGTT-TT--TAAA-ATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTA
* *
31914 TATAATTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAA
62 TATAGTTTTGAAAATTA-TTTTTTAAATATATATATTATATAGTTTT-AA
* * * *
31964 AATTAGTTTTTAAAA-ATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATGTTATGTG
1 AAATAGTTTTTAAAATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTATATA
* *
32028 GTTTTGAAAATTATTTTTTTTAAA-ACATATATTGTATAGTTTTAA
66 GTTTTGAAAATTA--TTTTTTAAATATATATATTATATAGTTTTAA
32073 AAAT-GTTTTTAA
1 AAATAGTTTTTAA
32085 TTAATTTATT
Statistics
Matches: 191, Mismatches: 28, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
106 6 0.03
107 2 0.01
108 51 0.27
109 25 0.13
110 63 0.33
111 12 0.06
112 30 0.16
113 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (109 bp):
AAATAGTTTTTAAAATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTATATA
GTTTTGAAAATTATTTTTTAAATATATATATTATATAGTTTTAA
Found at i:32047 original size:73 final size:73
Alignment explanation
Indices: 31751--32084 Score: 283
Period size: 73 Copynumber: 4.6 Consensus size: 73
31741 TTTTTAAATA
* * * * * * *
31751 TTTTGAAAATATATAATATATAGATTTTGAAAA-CATTTTTTGAAA-ATACATATTATATTGTTT
1 TTTTTAAAA-ATATATTATATAG-TTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTT
*
31814 TG--AATT-T
64 TGAAAATTAG
* ** * * *
31821 TTTTTAAATATATATAATATATAGCTTTT-AAAAACA-TTCTTGAAAAACATATATATTATATAA
1 TTTTTAAA-A-ATATATTATATAG-TTTTGAAAATTAGTT-TT-TAAAATATATATATTATATAG
31884 TTTTGAAAATTAG
61 TTTTGAAAATTAG
* * *
31897 TTTCTAAATATATATTATATAATTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
1 TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
31962 AAAATTAG
66 AAAATTAG
* * * * *
31970 TTTTTAAAAATATATTATATAGTTTTGAAAATTATTTTTTTAAA-ATATATGTTATGTGGTTTTG
1 TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
*
32034 AAAATTATTT
66 AAAATTA--G
* *
32044 TTTTTAAAACATATATTGTATAGTTTT-AAAAAT-GTTTTTAA
1 TTTTTAAAA-ATATATTATATAGTTTTGAAAATTAGTTTTTAA
32085 TTAATTTATT
Statistics
Matches: 221, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
70 13 0.06
71 23 0.10
72 27 0.12
73 97 0.44
74 32 0.14
75 22 0.10
76 7 0.03
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (73 bp):
TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
AAAATTAG
Found at i:32082 original size:37 final size:35
Alignment explanation
Indices: 31751--32082 Score: 175
Period size: 38 Copynumber: 9.1 Consensus size: 35
31741 TTTTTAAATA
* * * **
31751 TTTTGAAAATATATAATATATAGATTTTGAAAACATT
1 TTTTTAAAA-ATATATTATATAG-TTTTAAAAATTTT
* * * *
31788 TTTTGAAAATACATATTATATTGTTTT--GAA-TTT
1 TTTTTAAAA-ATATATTATATAGTTTTAAAAATTTT
* * *
31821 TTTTTAAATATATATAATATATAGCTTTTAAAAACATTC
1 TTTTTAAA-A-ATATATTATATAG-TTTTAAAAA-TTTT
*** * * **
31860 TTGAAAAACATATATATTATATAATTTTGAAAATTAG
1 TTTTTAAA-A-ATATATTATATAGTTTTAAAAATTTT
* * * * *
31897 TTTCTAAATATATATTATATAATTTTGAAAATTAGT
1 TTTTTAAAAATATATTATATAGTTTTAAAAATT-TT
* * **
31933 TTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTTAAA-A-ATATATTATATAGTTTTAAAAATTTT
*
31970 TTTTTAAAAATATATTATATAGTTTTGAAAATTATT
1 TTTTTAAAAATATATTATATAGTTTTAAAAATT-TT
* * * *
32006 TTTTTAAAATATATGTTATGTGGTTTTGAAAATTATTT
1 TTTTTAAAA-ATATATTATATAGTTTT-AAAAAT-TTT
* *
32044 TTTTTAAAACATATATTGTATAGTTTTAAAAATGTT
1 TTTTTAAAA-ATATATTATATAGTTTTAAAAATTTT
32080 TTT
1 TTT
32083 AATTAATTTA
Statistics
Matches: 234, Mismatches: 48, Indels: 27
0.76 0.16 0.09
Matches are distributed among these distances:
33 9 0.04
34 14 0.06
35 52 0.22
36 25 0.11
37 54 0.23
38 59 0.25
39 21 0.09
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (35 bp):
TTTTTAAAAATATATTATATAGTTTTAAAAATTTT
Found at i:32112 original size:4 final size:4
Alignment explanation
Indices: 32088--32139 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
32078 TTTTTAATTA
* * *
32088 ATTT ATTA ATTT ATCT ATTT ATTT ATTT -TTT -TTC ATTT A-TT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
32133 ATTT ATT
1 ATTT ATT
32140 ATTATTGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 8 0.20
4 32 0.80
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:32318 original size:16 final size:15
Alignment explanation
Indices: 32297--32327 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
32287 GGCCGGCCGG
32297 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
32313 CATCCCGGGATGACC
1 CATCCCGGGATGACC
32328 GGTCACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:33424 original size:3 final size:3
Alignment explanation
Indices: 33416--33441 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33406 CTTTTAATAT
33416 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
33442 CTTTCATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33517 original size:4 final size:4
Alignment explanation
Indices: 33508--33533 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33498 CATTTTTCCC
33508 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
33534 TCTCCTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:35304 original size:18 final size:19
Alignment explanation
Indices: 35283--35327 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
35273 ATTTAGACAT
35283 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTATTATTTTC
35301 TTTGCATTTTATTATTTTC
1 TTTGCATTTTATTATTTTC
*
35320 TCTGCATT
1 TTTGCATT
35328 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTATTATTTTC
Found at i:38901 original size:85 final size:84
Alignment explanation
Indices: 38711--39226 Score: 530
Period size: 84 Copynumber: 6.2 Consensus size: 84
38701 ACCTGCCACC
* * * *
38711 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTGAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCTA
* *
38776 GAAGGGCTATC--TG--CCA
65 GAAGGGTTATCTGTGAACAA
* * * * * * * * *
38792 AAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACATCATAACTCAAGGCT
1 AAGA-CCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCT
*
38856 AGAAGGGTTATCTGTGACCAA
64 AGAAGGGTTATCTGTGAACAA
* * * * *
38877 AAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTA
**
38942 GAAGGGTTATCTGCCAACAA
65 GAAGGGTTATCTGTGAACAA
* * * ** *
38962 AAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAATACAACTTAAGTCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
* **
39027 AAGGGTTGTCTGCCAACAA
66 AAGGGTTATCTGTGAACAA
* * * *
39046 AAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
*
39110 GAAGGGTTATCTGTGACCAA
65 GAAGGGTTATCTGTGAACAA
* * * *
39130 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
* *
39195 AAGGGCTATC--TG--CTA
66 AAGGGTTATCTGTGAACAA
39210 AAGACCTTCGAGTTCGA
1 AAGACCTTCGAGTTCGA
39227 TTATATTCAA
Statistics
Matches: 361, Mismatches: 64, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
80 19 0.05
81 39 0.11
82 23 0.06
83 5 0.01
84 177 0.49
85 97 0.27
86 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
AAGGGTTATCTGTGAACAA
Found at i:39933 original size:34 final size:34
Alignment explanation
Indices: 39881--40042 Score: 105
Period size: 34 Copynumber: 4.6 Consensus size: 34
39871 GTCTGAAGTC
*
39881 ATTTTGAAAATTACATAATATATGGTTTTTTAAAT
1 ATTTTGAAAA-TACATAATATATGGTTTTTAAAAT
* * *
39916 ATTTTGAAAATATATAATATATAGATTTTGAAAACAT
1 ATTTTGAAAATACATAATATAT-GGTTTT-TAAA-AT
* * * * *
39953 TTTTTGAAAATACATATTATATTG-TTTTGAATT
1 ATTTTGAAAATACATAATATATGGTTTTTAAAAT
* * * * * *
39986 TTTTTTAAATATATATAATATATAGCTTTTAAAAAC
1 ATTTTGAAA-ATACATAATATAT-GGTTTTTAAAAT
40022 ATTCTTGAAAA-ACAT-ATATAT
1 ATT-TTGAAAATACATAATATAT
40043 TATATAATTT
Statistics
Matches: 96, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
33 9 0.09
34 30 0.31
35 21 0.22
36 10 0.10
37 26 0.27
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (34 bp):
ATTTTGAAAATACATAATATATGGTTTTTAAAAT
Found at i:39955 original size:35 final size:34
Alignment explanation
Indices: 39881--40210 Score: 205
Period size: 35 Copynumber: 9.1 Consensus size: 34
39871 GTCTGAAGTC
* * **
39881 ATTTTGAAAATTACATAATATATGGTTTTTTAAAT
1 ATTTTGAAAA-TATATAATATATAGTTTTGAAAAT
39916 ATTTTGAAAATATATAATATATAGATTTTGAAAACAT
1 ATTTTGAAAATATATAATATATAG-TTTTG-AAA-AT
* * * * *
39953 TTTTTGAAAATACATATTATATTGTTTTG-AATT
1 ATTTTGAAAATATATAATATATAGTTTTGAAAAT
* * * *
39986 TTTTTTAAATATATATAATATATAGCTTTTAAAAAC
1 ATTTTGAAA-ATATATAATATATAG-TTTTGAAAAT
* *
40022 ATTCTTGAAAAACATATATATTATATAATTTTGAAAATT
1 ATT-TTG--AAA-ATATATAATATATAGTTTTGAAAA-T
* ** * *
40061 AGTTTCTAAATATATATTATATAATTTTGAAAATT
1 ATTTTGAAAATATATAATATATAGTTTTGAAAA-T
*
40096 AGTTTTTAAAATATATATATTATATAGTTTTGAAAATT
1 A-TTTTGAAAATATATA-A-TATATAGTTTTGAAAA-T
* *
40134 AGTTTTTAAAA-ATATATTATATAGTTTTGAAAATT
1 A-TTTTGAAAATATATAATATATAGTTTTGAAAA-T
* ** * *
40169 ATTTTTTTAAAATATATGTTATGTGGTTTTGAAAATT
1 A--TTTTGAAAATATATAATATATAGTTTTGAAAA-T
40206 ATTTT
1 ATTTT
40211 TTTTAAAACA
Statistics
Matches: 244, Mismatches: 36, Indels: 30
0.79 0.12 0.10
Matches are distributed among these distances:
33 9 0.04
34 26 0.11
35 68 0.28
36 34 0.14
37 51 0.21
38 38 0.16
39 18 0.07
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (34 bp):
ATTTTGAAAATATATAATATATAGTTTTGAAAAT
Found at i:40211 original size:35 final size:36
Alignment explanation
Indices: 39917--40250 Score: 283
Period size: 35 Copynumber: 9.2 Consensus size: 36
39907 TTTTTAAATA
* * * *
39917 TTTTGAAAATATATAATATATAGATTTTGAAAA-CAT
1 TTTTTAAAATATATATTATATAG-TTTTGAAAATTAG
* * *
39953 TTTTTGAAAATACATATTATATTGTTTTG--AATT-T
1 TTTTT-AAAATATATATTATATAGTTTTGAAAATTAG
* **
39987 TTTTTAAATATATATAATATATAGCTTTT-AAAAACA-
1 TTTTTAAA-ATATATATTATATAG-TTTTGAAAATTAG
* *
40023 TTCTTGAAAAACATATATATTATATAATTTTGAAAATTAG
1 TT-TT--TAAA-ATATATATTATATAGTTTTGAAAATTAG
* *
40063 TTTCT-AAATATATATTATATAATTTTGAAAATTAG
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
40098 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTT-AAA-ATATATATTATATAGTTTTGAAAATTAG
*
40136 TTTTTAAAA-ATATATTATATAGTTTTGAAAATTATT
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTA-G
* * * *
40172 TTTTTAAAATATATGTTATGTGGTTTTGAAAATTATTT
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTA--G
* * *
40210 TTTTTAAAACATATATTGTATAGTTTT-AAAAAT-G
1 TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
40244 TTTTTAA
1 TTTTTAA
40251 TTAATTTATT
Statistics
Matches: 249, Mismatches: 31, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
33 3 0.01
34 27 0.11
35 61 0.24
36 25 0.10
37 49 0.20
38 60 0.24
39 22 0.09
40 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (36 bp):
TTTTTAAAATATATATTATATAGTTTTGAAAATTAG
Found at i:40212 original size:110 final size:109
Alignment explanation
Indices: 39912--40250 Score: 331
Period size: 110 Copynumber: 3.1 Consensus size: 109
39902 ATGGTTTTTT
* * * * *
39912 AAATA-TTTTGAAAATATATAATATATAGATTTTGAAAA-CATTTTTTGAAAATACATATTATAT
1 AAATAGTTTTTAAAATATATATTATATAG-TTTTGAAAATTATTTTTTTAAAATATATATTATAT
* *
39975 TGTTTTG--AATT-TTTTTTAAATATATATAATATATAGCTTTTAA
65 AGTTTTGAAAATTATTTTTTAAATATATATATTATATAG-TTTTAA
* * * * *
40018 AAACA-TTCTTGAAAAACATATATATTATATAATTTTGAAAATTA-GTTTCT-AAATATATATTA
1 AAATAGTT-TT--TAAA-ATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTA
* *
40080 TATAATTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAA
62 TATAGTTTTGAAAATTA-TTTTTTAAATATATATATTATATAGTTTT-AA
* * * *
40130 AATTAGTTTTTAAAA-ATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATGTTATGTG
1 AAATAGTTTTTAAAATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTATATA
* *
40194 GTTTTGAAAATTATTTTTTTTAAA-ACATATATTGTATAGTTTTAA
66 GTTTTGAAAATTA--TTTTTTAAATATATATATTATATAGTTTTAA
40239 AAAT-GTTTTTAA
1 AAATAGTTTTTAA
40251 TTAATTTATT
Statistics
Matches: 191, Mismatches: 28, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
106 6 0.03
107 2 0.01
108 51 0.27
109 25 0.13
110 63 0.33
111 12 0.06
112 30 0.16
113 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (109 bp):
AAATAGTTTTTAAAATATATATTATATAGTTTTGAAAATTATTTTTTTAAAATATATATTATATA
GTTTTGAAAATTATTTTTTAAATATATATATTATATAGTTTTAA
Found at i:40213 original size:73 final size:73
Alignment explanation
Indices: 39917--40250 Score: 283
Period size: 73 Copynumber: 4.6 Consensus size: 73
39907 TTTTTAAATA
* * * * * * *
39917 TTTTGAAAATATATAATATATAGATTTTGAAAA-CATTTTTTGAAA-ATACATATTATATTGTTT
1 TTTTTAAAA-ATATATTATATAG-TTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTT
*
39980 TG--AATT-T
64 TGAAAATTAG
* ** * * *
39987 TTTTTAAATATATATAATATATAGCTTTT-AAAAACA-TTCTTGAAAAACATATATATTATATAA
1 TTTTTAAA-A-ATATATTATATAG-TTTTGAAAATTAGTT-TT-TAAAATATATATATTATATAG
40050 TTTTGAAAATTAG
61 TTTTGAAAATTAG
* * *
40063 TTTCTAAATATATATTATATAATTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
1 TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
40128 AAAATTAG
66 AAAATTAG
* * * * *
40136 TTTTTAAAAATATATTATATAGTTTTGAAAATTATTTTTTTAAA-ATATATGTTATGTGGTTTTG
1 TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
*
40200 AAAATTATTT
66 AAAATTA--G
* *
40210 TTTTTAAAACATATATTGTATAGTTTT-AAAAAT-GTTTTTAA
1 TTTTTAAAA-ATATATTATATAGTTTTGAAAATTAGTTTTTAA
40251 TTAATTTATT
Statistics
Matches: 221, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
70 13 0.06
71 23 0.10
72 27 0.12
73 97 0.44
74 32 0.14
75 22 0.10
76 7 0.03
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (73 bp):
TTTTTAAAAATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG
AAAATTAG
Found at i:40248 original size:37 final size:35
Alignment explanation
Indices: 39917--40248 Score: 175
Period size: 38 Copynumber: 9.1 Consensus size: 35
39907 TTTTTAAATA
* * * **
39917 TTTTGAAAATATATAATATATAGATTTTGAAAACATT
1 TTTTTAAAA-ATATATTATATAG-TTTTAAAAATTTT
* * * *
39954 TTTTGAAAATACATATTATATTGTTTT--GAA-TTT
1 TTTTTAAAA-ATATATTATATAGTTTTAAAAATTTT
* * *
39987 TTTTTAAATATATATAATATATAGCTTTTAAAAACATTC
1 TTTTTAAA-A-ATATATTATATAG-TTTTAAAAA-TTTT
*** * * **
40026 TTGAAAAACATATATATTATATAATTTTGAAAATTAG
1 TTTTTAAA-A-ATATATTATATAGTTTTAAAAATTTT
* * * * *
40063 TTTCTAAATATATATTATATAATTTTGAAAATTAGT
1 TTTTTAAAAATATATTATATAGTTTTAAAAATT-TT
* * **
40099 TTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTTAAA-A-ATATATTATATAGTTTTAAAAATTTT
*
40136 TTTTTAAAAATATATTATATAGTTTTGAAAATTATT
1 TTTTTAAAAATATATTATATAGTTTTAAAAATT-TT
* * * *
40172 TTTTTAAAATATATGTTATGTGGTTTTGAAAATTATTT
1 TTTTTAAAA-ATATATTATATAGTTTT-AAAAAT-TTT
* *
40210 TTTTTAAAACATATATTGTATAGTTTTAAAAATGTT
1 TTTTTAAAA-ATATATTATATAGTTTTAAAAATTTT
40246 TTT
1 TTT
40249 AATTAATTTA
Statistics
Matches: 234, Mismatches: 48, Indels: 27
0.76 0.16 0.09
Matches are distributed among these distances:
33 9 0.04
34 14 0.06
35 52 0.22
36 25 0.11
37 54 0.23
38 59 0.25
39 21 0.09
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (35 bp):
TTTTTAAAAATATATTATATAGTTTTAAAAATTTT
Found at i:40274 original size:25 final size:24
Alignment explanation
Indices: 40246--40310 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
40236 TAAAAATGTT
40246 TTTAATTAATTTATTAATTTATCTA
1 TTTAATTAATTTATTAATTTAT-TA
* * * *
40271 TTTATTTATTTTTTTTCATTTATTA
1 TTTAATTA-ATTTATTAATTTATTA
*
40296 TTT-ATTTATTTATTA
1 TTTAATTAATTTATTA
40311 TTGTTTGTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
23 5 0.17
24 2 0.07
25 12 0.40
26 11 0.37
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTAATTAATTTATTAATTTATTA
Found at i:40278 original size:4 final size:4
Alignment explanation
Indices: 40254--40309 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
40244 TTTTTAATTA
* * *
40254 ATTT ATTA ATTT ATCT ATTT ATTT ATTT -TTT -TTC ATTT A-TT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
40299 ATTT ATTT ATT
1 ATTT ATTT ATT
40310 ATTGTTTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
3 8 0.18
4 36 0.82
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:40485 original size:16 final size:15
Alignment explanation
Indices: 40464--40494 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
40454 GGCCGGCCGG
40464 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
40480 CATCCCGGGATGACC
1 CATCCCGGGATGACC
40495 GGTCACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:41567 original size:3 final size:3
Alignment explanation
Indices: 41559--41584 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
41549 CTTTTAATAT
41559 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
41585 CTTTCATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:41659 original size:4 final size:4
Alignment explanation
Indices: 41650--41675 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
41640 CATTTTTCCC
41650 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
41676 TCTCCTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:48959 original size:41 final size:41
Alignment explanation
Indices: 48848--49187 Score: 143
Period size: 41 Copynumber: 8.3 Consensus size: 41
48838 AATCATACTT
* * *
48848 TAGTGGCGTTTTTTAAACAAACGCCTCAATAGAGTGGTAGTT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * ** * *
48890 TAGCGGTGTTTATAGC-TCAAACGTCGCAATAGAGTTGTTTA
1 TAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGTTGTTTA
* *
48931 TAGTGACGTTTTTTCAACAAACGCCGCAATAGAGTAGTAATT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * * *
48973 TAGCGGCGTTCTTTT--ACAAACGCCGCGATAGTGTT-ATTA
1 TAGTGGCGTT-TTTTCAACAAACGCCGCAATAGAGTTGTTTA
* ** * **
49012 TAGTGGCG-TTGTTCAACAAACGATGCTATAGAGAAGTAATT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * *
49053 TAGCGGCG-TTTATCAAACAAACGCCGTAATAGTA-TTGTTTA
1 TAGTGGCGTTTTTTC-AACAAACGCCGCAATAG-AGTTGTTTA
* * * **
49094 TAGTGGCATTTGTGT-AAAAAACGCCGCAATAGAGTAATAATT-
1 TAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGT--TGTTTA
* * *
49136 TAGCGGCG-TTTGT-AGACAAACGCCGCAATA-TGTTGTTTA
1 TAGTGGCGTTTTTTCA-ACAAACGCCGCAATAGAGTTGTTTA
**
49175 TCCTGGCGTTTTT
1 TAGTGGCGTTTTT
49188 ATAAAAACTC
Statistics
Matches: 217, Mismatches: 58, Indels: 48
0.67 0.18 0.15
Matches are distributed among these distances:
37 3 0.01
38 6 0.03
39 26 0.12
40 16 0.07
41 93 0.43
42 60 0.28
43 13 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGTTTA
Found at i:49142 original size:83 final size:82
Alignment explanation
Indices: 48848--49187 Score: 300
Period size: 83 Copynumber: 4.2 Consensus size: 82
48838 AATCATACTT
* ** * * **
48848 TAGTGGCGTTTTTT-AAACAAACGCCTCAATAGAGTGGTAGTTTAGCGGTGTTTATAGCTCAAAC
1 TAGTGGCGTTTTTTCAAA-AAACGCCGCAATAGAGTAATAATTTAGCGGCGTTTATA-AACAAAC
*
48912 GTCGCAATAG-AGTTGTTTA
64 GCCGCAATAGTA-TTGTTTA
* * * **
48931 TAGTGACGTTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTCT-TTTACAAACG
1 TAGTGGCGTTTTTTCAAAAAACGCCGCAATAGAGTAATAATTTAGCGGCGTT-TATAAACAAACG
* * *
48995 CCGCGATAGTGTT-ATTA
65 CCGCAATAGTATTGTTTA
* * ** *
49012 TAGTGGCG-TTGTTCAACAAACGATGCTATAGAG-AAGTAATTTAGCGGCGTTTATCAAACAAAC
1 TAGTGGCGTTTTTTCAAAAAACGCCGCAATAGAGTAA-TAATTTAGCGGCGTTTAT-AAACAAAC
*
49075 GCCGTAATAGTATTGTTTA
64 GCCGCAATAGTATTGTTTA
* * * *
49094 TAGTGGCATTTGTGT-AAAAAACGCCGCAATAGAGTAATAATTTAGCGGCGTTTGTAGACAAACG
1 TAGTGGCGTTT-TTTCAAAAAACGCCGCAATAGAGTAATAATTTAGCGGCGTTTATAAACAAACG
*
49158 CCGCAATA-TGTTGTTTA
65 CCGCAATAGTATTGTTTA
**
49175 TCCTGGCGTTTTT
1 TAGTGGCGTTTTT
49188 ATAAAAACTC
Statistics
Matches: 207, Mismatches: 40, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
79 2 0.01
80 38 0.18
81 43 0.21
82 40 0.19
83 78 0.38
84 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (82 bp):
TAGTGGCGTTTTTTCAAAAAACGCCGCAATAGAGTAATAATTTAGCGGCGTTTATAAACAAACGC
CGCAATAGTATTGTTTA
Found at i:49629 original size:22 final size:22
Alignment explanation
Indices: 49603--49653 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
49593 AAGTTTTTTT
*
49603 TTGCTTTCGAATAGAAAAATAA
1 TTGCTTTCAAATAGAAAAATAA
*
49625 TTGCTTTCAAATAGGAAAATAA
1 TTGCTTTCAAATAGAAAAATAA
*
49647 TAGCTTT
1 TTGCTTT
49654 TAAAAACGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (22 bp):
TTGCTTTCAAATAGAAAAATAA
Found at i:50972 original size:40 final size:41
Alignment explanation
Indices: 50875--50980 Score: 151
Period size: 40 Copynumber: 2.6 Consensus size: 41
50865 TACAAACGCC
*
50875 AACGCCGCAATAGAGTTGAATAATAGAAGCTTTTTTCTACA
1 AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
* * *
50916 AACGTCACAATAGAGTTGAATAATAGAGGC-GTTTTCTACA
1 AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
* *
50956 AACGCCGCAATCGAGTTGAACAATA
1 AACGCCGCAATAGAGTTGAATAATA
50981 ATGGTGTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 30 0.53
41 27 0.47
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (41 bp):
AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
Found at i:53089 original size:43 final size:42
Alignment explanation
Indices: 53007--53095 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
52997 AAAAAAGCCA
* *
53007 CTAAATCTCAAAACTTATTACGACGTTTATGATAAAAACGCCG
1 CTAAATCTCAAAACCTATTACGACG-TTATGATAAAAACGACG
* * *
53050 CTAAATCTCAACACCTATTGCGAC-TTATGTTTAACAAACGACG
1 CTAAATCTCAAAACCTATTACGACGTTATG-ATAA-AAACGACG
53093 CTA
1 CTA
53096 TATATCGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 5 0.13
42 3 0.08
43 31 0.79
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (42 bp):
CTAAATCTCAAAACCTATTACGACGTTATGATAAAAACGACG
Found at i:55839 original size:19 final size:17
Alignment explanation
Indices: 55799--55849 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
55789 TTTATTGTTC
*
55799 TGTATTGCTAAAATATA
1 TGTATTTCTAAAATATA
55816 TGTATTTCTAAAATATACA
1 TGTATTTCTAAAATAT--A
*
55835 TGTATTTCGAAAATA
1 TGTATTTCTAAAATA
55850 AAATGAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.50
19 15 0.50
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (17 bp):
TGTATTTCTAAAATATA
Found at i:56748 original size:23 final size:23
Alignment explanation
Indices: 56722--56793 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
56712 CAACTGCTAG
*
56722 AAATGTTGAAAACATCCTGGCGA
1 AAATGTTGAAAACATCCTGCCGA
56745 AAATGTTGAAAACATCCTGCCGA
1 AAATGTTGAAAACATCCTGCCGA
*
56768 AAATGTTGAAAACATCATGCCCGA
1 AAATGTTGAAAACATCCTG-CCGA
56792 AA
1 AA
56794 GTCTTATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 40 0.87
24 6 0.13
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (23 bp):
AAATGTTGAAAACATCCTGCCGA
Found at i:56847 original size:36 final size:37
Alignment explanation
Indices: 56802--56871 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
56792 AAGTCTTATG
* * * *
56802 GATGGCCCGAATGACTTA-TCATCTTGCTCGAAAACA
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAACA
*
56838 GATGACCCGAAGGATTTACGCATCATGCTCGAAA
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAA
56872 GACTTACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 15 0.54
37 13 0.46
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (37 bp):
GATGACCCGAAGGACTTACGCATCATGCTCGAAAACA
Found at i:57023 original size:36 final size:36
Alignment explanation
Indices: 56937--57041 Score: 122
Period size: 36 Copynumber: 2.8 Consensus size: 36
56927 CAGTTTCTTA
*
56937 AAATCTTTTGTTTCGAGCGGAACTATCTCAAGTGAGAT
1 AAATCTTATGTTTCGAG-GGAACTATCTCAAG-GAGAT
* * *
56975 AAATTTTATGTTTCGAGTGAATCTATCTCAA-GCGAT
1 AAATCTTATGTTTCGAGGGAA-CTATCTCAAGGAGAT
*
57011 AAATCTTCTGTTTCGAGGGAAACTATCTCAA
1 AAATCTTATGTTTCGAGGG-AACTATCTCAA
57042 ATGTGGGTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
36 29 0.50
37 5 0.09
38 24 0.41
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (36 bp):
AAATCTTATGTTTCGAGGGAACTATCTCAAGGAGAT
Found at i:57109 original size:15 final size:15
Alignment explanation
Indices: 57089--57131 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
57079 TAAACTCGTT
57089 TCAAGGGAAAATGTC
1 TCAAGGGAAAATGTC
*
57104 TCAAGGAGACAAAATGTT
1 TCAAGG-G--AAAATGTC
57122 TCAAGGGAAA
1 TCAAGGGAAA
57132 CAATCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 1 0.04
18 13 0.54
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (15 bp):
TCAAGGGAAAATGTC
Found at i:58004 original size:28 final size:29
Alignment explanation
Indices: 57932--58036 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 29
57922 ACCGTTGACC
*
57932 GGTGTTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
57961 GGTGCTATTCTTGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *** *
57990 -GTGCTATTCTGGTAATTAATTCGAAATG
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
58018 GGTGCTATTTTGGTAAATA
1 GGTGCTATTCTGGTAAATA
58037 TTTTAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 22 0.34
29 43 0.66
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:58049 original size:29 final size:29
Alignment explanation
Indices: 57990--58056 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
57980 ATTCGGTTTT
* * * *
57990 GTGCTATTCTGGTAATTAATTCGAAATGG
1 GTGCTATTTTGGTAAATAATTCAAAAAGG
* *
58019 GTGCTATTTTGGTAAATATTTTAAAAAGG
1 GTGCTATTTTGGTAAATAATTCAAAAAGG
58048 GTGCTATTT
1 GTGCTATTT
58057 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (29 bp):
GTGCTATTTTGGTAAATAATTCAAAAAGG
Found at i:65126 original size:13 final size:12
Alignment explanation
Indices: 65095--65129 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
65085 GACCGGTCAC
65095 GACCCGACCCTT
1 GACCCGACCCTT
*
65107 GAACCGACCCGTT
1 GACCCGACCC-TT
65120 GACCCGACCC
1 GACCCGACCC
65130 AATCGTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.11
Consensus pattern (12 bp):
GACCCGACCCTT
Found at i:65243 original size:58 final size:58
Alignment explanation
Indices: 65148--65281 Score: 198
Period size: 58 Copynumber: 2.3 Consensus size: 58
65138 ACCGTTGACC
* * *
65148 GTGCTATTCTGGTAAATAATTTAGTTTTGGTGCTATTCTGGTAAATAATTCG-ATTTT
1 GTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGAAATGT
* *
65205 GGTGCTATTCTGGTAAATAATTCAGTTTTGGTGTTATTCTGGTAATTAATTCGAAATGT
1 -GTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGAAATGT
*
65264 GTGCTATTTTGGTAAATA
1 GTGCTATTCTGGTAAATA
65282 TTTTAAAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
58 66 0.96
59 3 0.04
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (58 bp):
GTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGAAATGT
Found at i:65256 original size:29 final size:29
Alignment explanation
Indices: 65148--65256 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
65138 ACCGTTGACC
*
65148 GTGCTATTCTGGTAAATAATTTAGTTTTG
1 GTGCTATTCTGGTAAATAATTCAGTTTTG
65177 GTGCTATTCTGGTAAATAATTC-GATTTTG
1 GTGCTATTCTGGTAAATAATTCAG-TTTTG
65206 GTGCTATTCTGGTAAATAATTCAGTTTTG
1 GTGCTATTCTGGTAAATAATTCAGTTTTG
* *
65235 GTGTTATTCTGGTAATTAATTC
1 GTGCTATTCTGGTAAATAATTC
65257 GAAATGTGTG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
28 1 0.01
29 73 0.97
30 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (29 bp):
GTGCTATTCTGGTAAATAATTCAGTTTTG
Found at i:65271 original size:29 final size:30
Alignment explanation
Indices: 65148--65281 Score: 168
Period size: 29 Copynumber: 4.6 Consensus size: 30
65138 ACCGTTGACC
* *
65148 GTGCTATTCTGGTAAATAATT-TAGTTTTG
1 GTGCTATTCTGGTAAATAATTCGAATTTTG
65177 GTGCTATTCTGGTAAATAATTCG-ATTTTG
1 GTGCTATTCTGGTAAATAATTCGAATTTTG
*
65206 GTGCTATTCTGGTAAATAATTC-AGTTTTG
1 GTGCTATTCTGGTAAATAATTCGAATTTTG
* * * *
65235 GTGTTATTCTGGTAATTAATTCGAAATGT-
1 GTGCTATTCTGGTAAATAATTCGAATTTTG
*
65264 GTGCTATTTTGGTAAATA
1 GTGCTATTCTGGTAAATA
65282 TTTTAAAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 88 0.97
30 3 0.03
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (30 bp):
GTGCTATTCTGGTAAATAATTCGAATTTTG
Done.