Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 5 of 199
Found at i:1727192 original size:36 final size:36
Alignment explanation
Indices: 1727098--1727206 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 36
1727088 AAGCAATACT
* *
1727098 AAAAAAGTGTTAGAAGAACAAACAAAAACATATGAA
1 AAAAAAGTGTTAGAAGAACAAACAAAAAAATATAAA
** * * * *
1727134 AAGGAA-TATTTGTTA-AAC-AACAAAAAAACATAAA
1 AAAAAAGTGTTAG-AAGAACAAACAAAAAAATATAAA
*
1727168 AAAAAAGTGTTAGAAGAACAAACAAAAAATTATAAA
1 AAAAAAGTGTTAGAAGAACAAACAAAAAAATATAAA
1727204 AAA
1 AAA
1727207 GGAATATTTG
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
34 18 0.33
35 14 0.26
36 22 0.41
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.17
Consensus pattern (36 bp):
AAAAAAGTGTTAGAAGAACAAACAAAAAAATATAAA
Found at i:1727216 original size:71 final size:70
Alignment explanation
Indices: 1727098--1727231 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
1727088 AAGCAATACT
*
1727098 AAAAAAGTGTTAGAAGAACAAACAAAAACATATGAAAAGGAATATTTGTTAAACAACAAAAAAAC
1 AAAAAAGTGTTAGAAGAACAAACAAAAACATATAAAAAGGAATATTTGTTAAACAACAAAAAAAC
1727163 ATAAA
66 ATAAA
*
1727168 AAAAAAGTGTTAGAAGAACAAACAAAAA-ATTATAAAAAAGGAATATTTGTTAAACAACGAAAAA
1 AAAAAAGTGTTAGAAGAACAAACAAAAACA-TAT-AAAAAGGAATATTTGTTAAACAACAAAAAA
1727232 CAAACAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
69 1 0.02
70 31 0.52
71 28 0.47
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (70 bp):
AAAAAAGTGTTAGAAGAACAAACAAAAACATATAAAAAGGAATATTTGTTAAACAACAAAAAAAC
ATAAA
Found at i:1727224 original size:36 final size:35
Alignment explanation
Indices: 1727114--1727224 Score: 95
Period size: 35 Copynumber: 3.1 Consensus size: 35
1727104 GTGTTAGAAG
*
1727114 AACAAACAAAAACATAT-GAAAAGGAATATTTGTTA
1 AACAAACAAAAA-ATATAAAAAAGGAATATTTGTTA
* * * * *
1727149 AAC-AACAAAAAAACATAAAAAA-AAAGTGTTAG-AA
1 AACAAAC-AAAAAATATAAAAAAGGAA-TATTTGTTA
1727183 GAACAAACAAAAAATTATAAAAAAGGAATATTTGTTA
1 -AACAAACAAAAAA-TATAAAAAAGGAATATTTGTTA
1727220 AACAA
1 AACAA
1727225 CGAAAAACAA
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
34 9 0.16
35 25 0.44
36 20 0.35
37 3 0.05
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.19
Consensus pattern (35 bp):
AACAAACAAAAAATATAAAAAAGGAATATTTGTTA
Found at i:1727231 original size:36 final size:35
Alignment explanation
Indices: 1727121--1727231 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
1727111 AAGAACAAAC
*
1727121 AAAAACATATGAAAAGGAATATTTGTTAAACAACAA
1 AAAAACATA-AAAAAGGAATATTTGTTAAACAACAA
* * * *
1727157 AAAAACATAAAAAA-AAAGTGTTAG-AAGAACAAACAA
1 AAAAACATAAAAAAGGAA-TATTTGTTA-AAC-AACAA
** *
1727193 AAAATTATAAAAAAGGAATATTTGTTAAACAACGA
1 AAAAACATAAAAAAGGAATATTTGTTAAACAACAA
1727228 AAAA
1 AAAA
1727232 CAAACAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
34 3 0.05
35 19 0.33
36 33 0.57
37 3 0.05
ACGTcount: A:0.63, C:0.07, G:0.11, T:0.19
Consensus pattern (35 bp):
AAAAACATAAAAAAGGAATATTTGTTAAACAACAA
Found at i:1745077 original size:18 final size:18
Alignment explanation
Indices: 1745054--1745088 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1745044 ATACATTTGT
* *
1745054 AGTGAAGAATATGAGAAG
1 AGTGAAAAATAAGAGAAG
1745072 AGTGAAAAATAAGAGAA
1 AGTGAAAAATAAGAGAA
1745089 TGAAAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (18 bp):
AGTGAAAAATAAGAGAAG
Found at i:1745297 original size:18 final size:20
Alignment explanation
Indices: 1745266--1745305 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1745256 TAAGTAACTA
*
1745266 AAATGTACCTTAAA-TTAAT
1 AAATGTACCCTAAATTTAAT
1745285 AAAT-TACCCTAAATTTAAT
1 AAATGTACCCTAAATTTAAT
1745304 AA
1 AA
1745306 TAGTTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (20 bp):
AAATGTACCCTAAATTTAAT
Found at i:1758866 original size:24 final size:25
Alignment explanation
Indices: 1758833--1758889 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
1758823 AAAAATAACT
* *
1758833 AAAATGTTAT-TTTTTTTATTTATC
1 AAAATATTATATTTTTTTATTTACC
1758857 AAAATATTATAATTTTTTTATTTACC
1 AAAATATTAT-ATTTTTTTATTTACC
1758883 AAAATAT
1 AAAATAT
1758890 ATCAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.31
26 20 0.69
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (25 bp):
AAAATATTATATTTTTTTATTTACC
Found at i:1758969 original size:21 final size:21
Alignment explanation
Indices: 1758943--1758984 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1758933 CGGCACCAAA
*
1758943 GGTGCCAAAGTGATTGGCGGC
1 GGTGCCAAAGAGATTGGCGGC
1758964 GGTGCCAAAGAGATTGGCGGC
1 GGTGCCAAAGAGATTGGCGGC
1758985 ACAAGACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.43, T:0.17
Consensus pattern (21 bp):
GGTGCCAAAGAGATTGGCGGC
Found at i:1759434 original size:19 final size:19
Alignment explanation
Indices: 1759410--1759472 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
1759400 TCTAATTAAG
1759410 TAATAATTCTATTTTACTT
1 TAATAATTCTATTTTACTT
** ***
1759429 TAATAAGTT-TATTAAAAAG
1 TAATAA-TTCTATTTTACTT
*
1759448 TAATAACTCTATTTTACTT
1 TAATAATTCTATTTTACTT
1759467 TAATAA
1 TAATAA
1759473 ACTATTGCTT
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
18 1 0.03
19 28 0.90
20 2 0.06
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (19 bp):
TAATAATTCTATTTTACTT
Found at i:1760936 original size:27 final size:27
Alignment explanation
Indices: 1760905--1760968 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
1760895 TTTTTTTGGT
**
1760905 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
*
1760932 ATATTTTGATAAATAAAAAAAAGGATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
*
1760959 ACATTTTGGT
1 ATATTTTGGT
1760969 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAAGGATA
Found at i:1763615 original size:22 final size:23
Alignment explanation
Indices: 1763590--1763632 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1763580 AATAAGTAGG
* *
1763590 CTTTCAA-AGGTGAAGTTTATCC
1 CTTTCAAGAGATGAACTTTATCC
1763612 CTTTCAAGAGATGAACTTTAT
1 CTTTCAAGAGATGAACTTTAT
1763633 GGCTAGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (23 bp):
CTTTCAAGAGATGAACTTTATCC
Found at i:1770053 original size:21 final size:22
Alignment explanation
Indices: 1770029--1770073 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
1770019 AAATTTAGTG
1770029 TTAAGATAAAATAT-TGTTTAA
1 TTAAGATAAAATATGTGTTTAA
* * *
1770050 TTAATATAAATTTTGTGTTTAA
1 TTAAGATAAAATATGTGTTTAA
1770072 TT
1 TT
1770074 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TTAAGATAAAATATGTGTTTAA
Found at i:1773613 original size:12 final size:13
Alignment explanation
Indices: 1773586--1773612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1773576 TTTACCGAGT
1773586 AAGATTTTTATAA
1 AAGATTTTTATAA
1773599 AAGATTTTTATAA
1 AAGATTTTTATAA
1773612 A
1 A
1773613 GGAGTTGTTC
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
AAGATTTTTATAA
Found at i:1781877 original size:39 final size:37
Alignment explanation
Indices: 1781810--1781902 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1781800 ACCAAAATGG
* *
1781810 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1781849 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1781886 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1781903 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1783162 original size:40 final size:40
Alignment explanation
Indices: 1783100--1783194 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
1783090 CTTTTCTTTC
* *
1783100 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
1783141 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
1783181 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
1783195 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:1784028 original size:33 final size:33
Alignment explanation
Indices: 1783986--1784105 Score: 143
Period size: 33 Copynumber: 3.6 Consensus size: 33
1783976 GATACATGTG
1783986 TAAGACCATAACTGGGCTATGGCATTCTGATGA
1 TAAGACCATAACTGGGCTATGGCATTCTGATGA
* * * **
1784019 TAAGACCATAATTGGGTTATGGCACTACAAATG-
1 TAAGACCATAACTGGGCTATGGCA-TTCTGATGA
** *
1784052 TAAGACCATAGTTGGGCTATGACATTCTGATGA
1 TAAGACCATAACTGGGCTATGGCATTCTGATGA
*
1784085 TAAGACCATAACTGGGTTATG
1 TAAGACCATAACTGGGCTATG
1784106 ACACTACAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
32 5 0.07
33 61 0.86
34 5 0.07
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGGCATTCTGATGA
Found at i:1784068 original size:66 final size:66
Alignment explanation
Indices: 1783984--1784122 Score: 233
Period size: 66 Copynumber: 2.1 Consensus size: 66
1783974 TAGATACATG
* * *
1783984 TGTAAGACCATAACTGGGCTATGGCATTCTGATGATAAGACCATAATTGGGTTATGGCACTACAA
1 TGTAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTACAA
1784049 A
66 A
**
1784050 TGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTACAA
1 TGTAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTACAA
1784115 A
66 A
1784116 TGTAAGA
1 TGTAAGA
1784123 TCATGGCAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (66 bp):
TGTAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTACAA
A
Found at i:1784122 original size:33 final size:32
Alignment explanation
Indices: 1783984--1784122 Score: 125
Period size: 33 Copynumber: 4.2 Consensus size: 32
1783974 TAGATACATG
* * **
1783984 TGTAAGACCATAACTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
* * *
1784016 TGATAAGACCATAATTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
** * **
1784050 TGTAAGACCATAGTTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
*
1784082 TGATAAGACCATAACTGGGTTATGACACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
1784116 TGTAAGA
1 TGTAAGA
1784123 TCATGGCAGG
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
32 7 0.08
33 69 0.80
34 10 0.12
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:1785979 original size:178 final size:178
Alignment explanation
Indices: 1785680--1786036 Score: 714
Period size: 178 Copynumber: 2.0 Consensus size: 178
1785670 TTTCATTTAC
1785680 TTATACCTACCTATTTAACTCATTTCATTGATTTATCGAATTCTACTACTAATTACATAAACATA
1 TTATACCTACCTATTTAACTCATTTCATTGATTTATCGAATTCTACTACTAATTACATAAACATA
1785745 CATACAATATATATATTATTTACAACCACATTTCAAATTATATCATTGCCAATTCAACCTTATAC
66 CATACAATATATATATTATTTACAACCACATTTCAAATTATATCATTGCCAATTCAACCTTATAC
1785810 ATGTCATATAAACCAAAATTTACATTGTAAAAACTGGATTAAACTGGA
131 ATGTCATATAAACCAAAATTTACATTGTAAAAACTGGATTAAACTGGA
1785858 TTATACCTACCTATTTAACTCATTTCATTGATTTATCGAATTCTACTACTAATTACATAAACATA
1 TTATACCTACCTATTTAACTCATTTCATTGATTTATCGAATTCTACTACTAATTACATAAACATA
1785923 CATACAATATATATATTATTTACAACCACATTTCAAATTATATCATTGCCAATTCAACCTTATAC
66 CATACAATATATATATTATTTACAACCACATTTCAAATTATATCATTGCCAATTCAACCTTATAC
1785988 ATGTCATATAAACCAAAATTTACATTGTAAAAACTGGATTAAACTGGA
131 ATGTCATATAAACCAAAATTTACATTGTAAAAACTGGATTAAACTGGA
1786036 T
1 T
1786037 AGTGTAGCTT
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (178 bp):
TTATACCTACCTATTTAACTCATTTCATTGATTTATCGAATTCTACTACTAATTACATAAACATA
CATACAATATATATATTATTTACAACCACATTTCAAATTATATCATTGCCAATTCAACCTTATAC
ATGTCATATAAACCAAAATTTACATTGTAAAAACTGGATTAAACTGGA
Found at i:1793847 original size:42 final size:41
Alignment explanation
Indices: 1793772--1793852 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
1793762 TAATAATATA
* *
1793772 TAATATAAACATTAAAAAATTAAGATAACTATATATTAAAT
1 TAATATAAACATTAAAAAATTAAAATAAATATATATTAAAT
* *
1793813 TAATATAAA-ATTATTAAATATTAAAATAAATATATTTTAA
1 TAATATAAACATTA--AAAAATTAAAATAAATATATATTAA
1793853 TAAATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 4 0.12
41 9 0.26
42 21 0.62
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (41 bp):
TAATATAAACATTAAAAAATTAAAATAAATATATATTAAAT
Found at i:1793848 original size:21 final size:19
Alignment explanation
Indices: 1793788--1793848 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 19
1793778 AAACATTAAA
*
1793788 AAATTAAGATAACTATATATT
1 AAATTAAAATAA--ATATATT
*
1793809 AAATTAATATAAA-ATTATT
1 AAATTAAAATAAATA-TATT
1793828 AAATATTAAAATAAATATATT
1 -AA-ATTAAAATAAATATATT
1793849 TTAATAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 2 0.06
21 25 0.74
22 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTAAAATAAATATATT
Found at i:1797825 original size:11 final size:11
Alignment explanation
Indices: 1797798--1797843 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
1797788 ATTAATCATT
*
1797798 TCTCAATTATTC
1 TCTCAATT-TCC
1797810 TCTCAATTTCC
1 TCTCAATTTCC
*
1797821 TCTCAATTTGC
1 TCTCAATTTCC
1797832 TCTCAATTTCC
1 TCTCAATTTCC
1797843 T
1 T
1797844 TCCAAATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:1797837 original size:22 final size:21
Alignment explanation
Indices: 1797798--1797859 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
1797788 ATTAATCATT
1797798 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
1797821 TCTCAATTTGCTCTCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
1797843 T-TCCAAATTTCTCTCAA
1 TCT-C-AATTTCTCTCAA
1797860 ATCCATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.08
22 22 0.61
23 11 0.31
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:1797917 original size:16 final size:16
Alignment explanation
Indices: 1797896--1797931 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1797886 AAATCCCTAT
*
1797896 TTTTAATTTTTTTTAA
1 TTTTAATTTTTTTAAA
1797912 TTTTAATTTTTTTAAA
1 TTTTAATTTTTTTAAA
1797928 TTTT
1 TTTT
1797932 TTTTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTTTTAAA
Found at i:1799719 original size:18 final size:18
Alignment explanation
Indices: 1799696--1799738 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1799686 TGCCAGGTGC
*
1799696 GTATCC-AAGCCCTTTTAT
1 GTATCCTAA-CCCTTATAT
1799714 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
1799732 GTTTCCT
1 GTATCCT
1799739 TTTCTGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:1801732 original size:37 final size:37
Alignment explanation
Indices: 1801671--1801816 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
1801661 TACGTATGAT
* *
1801671 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
1801706 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1801743 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
1801780 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1801817 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:1801881 original size:7 final size:7
Alignment explanation
Indices: 1801869--1801902 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1801859 TAGCCGAAGC
1801869 TATCACT
1 TATCACT
1801876 TATCACT
1 TATCACT
*
1801883 TTTCACT
1 TATCACT
1801890 TATCACT
1 TATCACT
1801897 TGATCA
1 T-ATCA
1801903 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:1801903 original size:52 final size:52
Alignment explanation
Indices: 1801823--1802094 Score: 376
Period size: 52 Copynumber: 5.3 Consensus size: 52
1801813 TAGCTAAAGC
* * *
1801823 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
1801876 TATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
1801928 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
1801980 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
1802026 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1802078 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
1802095 ATCAGAAGTA
Statistics
Matches: 194, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
46 42 0.22
52 134 0.69
53 18 0.09
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:1801953 original size:150 final size:150
Alignment explanation
Indices: 1801791--1802086 Score: 520
Period size: 150 Copynumber: 2.0 Consensus size: 150
1801781 ACTTATCACT
*
1801791 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* *
1801856 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCACTTATCACTTGATCAGATAAGTGTAGCCAAAGC
*
1801921 TATCACTTATCACTTTCCAC
131 TACCACTTATCACTTTCCAC
*
1801941 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* * *
1802006 GTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCACTTATCACTTGATCAGATAAGTGTAGCCAAAGC
1802071 TACCACTTATCACTTT
131 TACCACTTATCACTTT
1802087 ATCACTTGAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (150 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTCCACTTATCACTTGATCAGATAAGTGTAGCCAAAGC
TACCACTTATCACTTTCCAC
Found at i:1801994 original size:98 final size:98
Alignment explanation
Indices: 1801780--1802100 Score: 447
Period size: 98 Copynumber: 3.3 Consensus size: 98
1801770 TAAGTGTAGC
* **
1801780 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
* * *
1801839 GTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1801872 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1801937 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
1801976 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
* *
1802041 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1802074 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
1802101 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
92 10 0.05
95 1 0.00
98 150 0.73
100 1 0.00
101 1 0.00
104 42 0.20
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:1804306 original size:37 final size:38
Alignment explanation
Indices: 1804255--1804329 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
1804245 TATAATAAAT
1804255 AAATATTTTTTATTC-TTTAATTTTAAAAT-ATTTTTA
1 AAATATTTTTTATTCTTTTAATTTTAAAATAATTTTTA
*
1804291 AAATACTTTTTTATTCTTTTTATTTTTAAAATAATTTTT
1 AAATA-TTTTTTATTC-TTTTAATTTTAAAATAATTTTT
1804330 TCGATGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 5 0.15
37 10 0.29
39 13 0.38
40 6 0.18
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (38 bp):
AAATATTTTTTATTCTTTTAATTTTAAAATAATTTTTA
Found at i:1804576 original size:14 final size:15
Alignment explanation
Indices: 1804550--1804580 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1804540 TTTAATTTTT
1804550 AACCTTAAAACCCTA
1 AACCTTAAAACCCTA
1804565 AACCTT-AAACCCTA
1 AACCTTAAAACCCTA
1804579 AA
1 AA
1804581 AGCAATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCTTAAAACCCTA
Found at i:1809526 original size:18 final size:18
Alignment explanation
Indices: 1809503--1809538 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1809493 CAAAGTTTGA
1809503 ATAATCAGTTAACGGTTG
1 ATAATCAGTTAACGGTTG
1809521 ATAATCAGTTAACGGTTG
1 ATAATCAGTTAACGGTTG
1809539 TAACAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
ATAATCAGTTAACGGTTG
Found at i:1844732 original size:22 final size:24
Alignment explanation
Indices: 1844684--1844732 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
1844674 GAGCTTCTTA
* *
1844684 TATATTTTTCTTGAATTTTTCATT
1 TATATTTTTCTTGAATTTTTAAAT
1844708 TATATTTTT-TTGAA-TTTTAAAT
1 TATATTTTTCTTGAATTTTTAAAT
1844730 TAT
1 TAT
1844733 TTGTTAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 9 0.39
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATATTTTTCTTGAATTTTTAAAT
Found at i:1847275 original size:4 final size:4
Alignment explanation
Indices: 1847266--1847290 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1847256 AGAATAGGAA
1847266 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1847291 CAAATTAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1865231 original size:36 final size:36
Alignment explanation
Indices: 1865162--1865234 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
1865152 AGATAGTTGC
** * * *
1865162 AACTTAACAAGCAAATGTTTTTAAGATAGTAACAAA
1 AACTTAACAAGCAAATGACTCTAAAATAATAACAAA
*
1865198 AACTTAGCAAGCAAATGACTCTAAAATAATAACAAA
1 AACTTAACAAGCAAATGACTCTAAAATAATAACAAA
1865234 A
1 A
1865235 TTAATAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.23
Consensus pattern (36 bp):
AACTTAACAAGCAAATGACTCTAAAATAATAACAAA
Found at i:1869298 original size:39 final size:37
Alignment explanation
Indices: 1869231--1869323 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1869221 ACCAGAATGG
* *
1869231 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1869270 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1869307 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1869324 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1869687 original size:3 final size:3
Alignment explanation
Indices: 1869679--1869717 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1869669 ATTCCCACTC
* *
1869679 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1869718 TTATTAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1869726 original size:12 final size:12
Alignment explanation
Indices: 1869679--1869717 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
1869669 ATTCCCACTC
*
1869679 ATAATAATAATA
1 ATAATACTAATA
1869691 ATAATACTAATA
1 ATAATACTAATA
1869703 ATAATACTAATA
1 ATAATACTAATA
1869715 ATA
1 ATA
1869718 TTATTAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:1870449 original size:16 final size:16
Alignment explanation
Indices: 1870430--1870464 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1870420 TTCTTTGTTC
1870430 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
1870446 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
1870462 TTT
1 TTT
1870465 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:1870490 original size:17 final size:17
Alignment explanation
Indices: 1870468--1870545 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
1870458 TTCTTTTATA
1870468 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
1870485 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
1870500 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
1870514 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
1870533 TAT-ATAA-ATAATA
1 TATAATAATATAATA
1870546 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:1870491 original size:14 final size:17
Alignment explanation
Indices: 1870470--1870510 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
1870460 CTTTTATATA
1870470 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
1870485 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
1870501 TAATAATATA
1 TAATAATATA
1870511 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:1870528 original size:11 final size:11
Alignment explanation
Indices: 1870490--1870528 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1870480 ATATTTATAA
1870490 TATAATTAATT
1 TATAATTAATT
*
1870501 TAATAATATACTT
1 T-ATAAT-TAATT
1870514 TATAATTAATT
1 TATAATTAATT
1870525 TATA
1 TATA
1870529 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:1870547 original size:24 final size:24
Alignment explanation
Indices: 1870464--1870544 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
1870454 TTGTTTCTTT
*
1870464 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
1870487 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
1870509 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
1870535 TATAAATAAT
1 TATATATAAT
1870545 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:1875492 original size:21 final size:21
Alignment explanation
Indices: 1875450--1875492 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1875440 TTCACTATAC
*
1875450 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
1875471 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
1875492 A
1 A
1875493 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:1876589 original size:39 final size:37
Alignment explanation
Indices: 1876522--1876614 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1876512 ACCAGAATGG
* *
1876522 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1876561 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1876598 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1876615 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1876976 original size:3 final size:3
Alignment explanation
Indices: 1876968--1877003 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1876958 ATTCCCACTC
* *
1876968 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1877004 CTATATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1876985 original size:12 final size:12
Alignment explanation
Indices: 1876968--1877003 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1876958 ATTCCCACTC
*
1876968 ATAATAATAATA
1 ATAATACTAATA
1876980 ATAATACTAATA
1 ATAATACTAATA
1876992 ATAATACTAATA
1 ATAATACTAATA
1877004 CTATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:1877004 original size:6 final size:6
Alignment explanation
Indices: 1876969--1877016 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
1876959 TTCCCACTCA
* * * *
1876969 TAATAA TAATAA TAATAC TAATAA TAATAC TAATAC T-ATAT TAATAC
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC
1877016 T
1 T
1877017 TACCTCACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (6 bp):
TAATAC
Found at i:1877734 original size:16 final size:16
Alignment explanation
Indices: 1877715--1877749 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1877705 TTCTTTGTTC
1877715 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
1877731 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
1877747 TTT
1 TTT
1877750 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:1877775 original size:17 final size:17
Alignment explanation
Indices: 1877753--1877830 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
1877743 TTCTTTTATA
1877753 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
1877770 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
1877785 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
1877799 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
1877818 TAT-ATAA-ATAATA
1 TATAATAATATAATA
1877831 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:1877776 original size:14 final size:17
Alignment explanation
Indices: 1877755--1877795 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
1877745 CTTTTATATA
1877755 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
1877770 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
1877786 TAATAATATA
1 TAATAATATA
1877796 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:1877813 original size:11 final size:11
Alignment explanation
Indices: 1877775--1877813 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1877765 ATATTTATAA
1877775 TATAATTAATT
1 TATAATTAATT
*
1877786 TAATAATATACTT
1 T-ATAAT-TAATT
1877799 TATAATTAATT
1 TATAATTAATT
1877810 TATA
1 TATA
1877814 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:1877832 original size:24 final size:24
Alignment explanation
Indices: 1877749--1877829 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
1877739 TTGTTTCTTT
*
1877749 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
1877772 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
1877794 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
1877820 TATAAATAAT
1 TATATATAAT
1877830 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:1890687 original size:23 final size:23
Alignment explanation
Indices: 1890656--1890701 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1890646 AGTCAAAAAG
*
1890656 ATTGATTCATAGATGCTATTAAC
1 ATTGATTCATAGATGCTAATAAC
* *
1890679 ATTGTTTCATAGATTCTAATAAC
1 ATTGATTCATAGATGCTAATAAC
1890702 TTAGCTTAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (23 bp):
ATTGATTCATAGATGCTAATAAC
Found at i:1895250 original size:21 final size:21
Alignment explanation
Indices: 1895224--1895264 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1895214 ATCTGCTCAA
* *
1895224 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1895245 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1895265 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1901521 original size:20 final size:20
Alignment explanation
Indices: 1901476--1901523 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
1901466 TACGTGTTTA
*
1901476 ATTATCATTTATAAATTAATT
1 ATTA-CATTTATAAATTAAGT
*
1901497 CTTACATTTGATAAA-TAAGT
1 ATTACATTT-ATAAATTAAGT
1901517 ATTACAT
1 ATTACAT
1901524 ATTTAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTACATTTATAAATTAAGT
Found at i:1901559 original size:28 final size:29
Alignment explanation
Indices: 1901505--1901558 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
1901495 TTCTTACATT
1901505 TGATAAATAAGTATTACATATTTAAAAGG
1 TGATAAATAAGTATTACATATTTAAAAGG
* *
1901534 TGATAATTAA-TATTA-ATTTTTAAAA
1 TGATAAATAAGTATTACATATTTAAAA
1901559 ATTAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 5 0.22
29 9 0.39
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (29 bp):
TGATAAATAAGTATTACATATTTAAAAGG
Found at i:1901577 original size:15 final size:15
Alignment explanation
Indices: 1901542--1901580 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1901532 GGTGATAATT
*
1901542 AATATTAAT-TTTTA
1 AATATTAATATATTA
*
1901556 AAAATTAATATATTA
1 AATATTAATATATTA
1901571 AATATTAATA
1 AATATTAATA
1901581 GATGAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTAATATATTA
Found at i:1902700 original size:134 final size:134
Alignment explanation
Indices: 1902294--1902725 Score: 455
Period size: 133 Copynumber: 3.2 Consensus size: 134
1902284 TACTTTATGA
** *
1902294 CTTTAGTGGCGC-TTCCACAAAAACGCCGCAAAAAATTGGAATATAGCGGCGTTTTCTGAGAAAC
1 CTTTAGTGGCGCATTGTA-AAAAACGCCGC-AAAAATTGGAATATAGCGGCGTTTTCAGAGAAAC
* * * * * *
1902358 GCCAGTAAAGATAACAAATTTGAA-GAAAAAATCTGAGCAAAACAATACCGTTTTATGGTTTCAT
64 GCCGGTAAAGATATCTAATTT-AAGGAAAAAATTTGAGCAAAACGATACCGTTTTATTGTTTCAT
*
1902422 TTTATTT
128 TTTATTG
* * * *
1902429 CTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATT-GAAT-TGGCAGCGTTTTCAGAGAAACA
1 CTTTAGTGGCGCATTGTAAAAAACGCCGCAAAA-ATTGGAATATAGCGGCGTTTTCAGAGAAACG
* * * *
1902492 CCGGTAAAGATATCTAATTTGAGGAAAAAATTTG-GACAAAATGCTACCGTTTTATTGCTTCATT
65 CCGGTAAAGATATCTAATTTAAGGAAAAAATTTGAG-CAAAACGATACCGTTTTATTGTTTCATT
*
1902556 TTATTT
129 TTATTG
* * * *
1902562 CTTTAGTGGCGCATTGTAAAAAACGCCGCAAATATTGGGATATAGTGGCGTTATT-GGAGAAACG
1 CTTTAGTGGCGCATTGTAAAAAACGCCGCAAAAATTGGAATATAGCGGCGTT-TTCAGAGAAACG
* * * * * *
1902626 CCGGTTAGGATATCTAATTTAAGGAAAAATTTTGAGCAAAACGGTACCGTTTTGTTGTTTCCTTT
65 CCGGTAAAGATATCTAATTTAAGGAAAAAATTTGAGCAAAACGATACCGTTTTATTGTTTCATTT
1902691 T-TATG
130 TAT-TG
* *
1902696 CTTTAGTGGCGAAATGTTAAAAAAACGCCG
1 CTTTAGTGGCGCATTG-T-AAAAAACGCCG
1902726 GAAACGGTTC
Statistics
Matches: 249, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
132 5 0.02
133 109 0.44
134 92 0.37
135 29 0.12
136 14 0.06
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (134 bp):
CTTTAGTGGCGCATTGTAAAAAACGCCGCAAAAATTGGAATATAGCGGCGTTTTCAGAGAAACGC
CGGTAAAGATATCTAATTTAAGGAAAAAATTTGAGCAAAACGATACCGTTTTATTGTTTCATTTT
ATTG
Found at i:1903115 original size:21 final size:20
Alignment explanation
Indices: 1903076--1903128 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
1903066 TTTGTGTTCT
*
1903076 GGGCTTAGAGTTTAGGTTTA
1 GGGCTTAGAGTTGAGGTTTA
*
1903096 GGGCTTGGAGATTGAGGTTTA
1 GGGCTTAGAG-TTGAGGTTTA
* *
1903117 AGGTTTAGAGTT
1 GGGCTTAGAGTT
1903129 TACATTTCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.38
Consensus pattern (20 bp):
GGGCTTAGAGTTGAGGTTTA
Found at i:1908957 original size:524 final size:522
Alignment explanation
Indices: 1907953--1908999 Score: 1880
Period size: 524 Copynumber: 2.0 Consensus size: 522
1907943 AACATCTTAA
*
1907953 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
1 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCATATTTTTAATTTTGATTTTG
* *
1908018 CTTTCTTATTGGTTGGTGATACTGGAATTAAAAAAAATGTATTCTCTGTGCTTAGGGTTTTCTGT
66 CTTTCTTATTGGTTGGTGATACTGGAATTAAAAAAAATGTATTCTCTATGCTTAGGGTTTTCGGT
1908083 GTGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTT
131 GTGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTT
1908148 TGTAAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTCTCCAGTTTTTGGTCA
196 TGTAAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTCTCCAGTTTTTGGTCA
1908213 ATCCATTTCATTGCTTTCATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGT
261 ATCCATTTCATTGCTTTCATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGT
*
1908278 TACTGTTTATTTGTTGAACTCATTTGGTACTGCTTTTAAAGTATGGAATTTTGATGTCTAGCTTA
326 TACTGTTTATTTGTTGAAATCATTTGGTACTGCTTTTAAAGTATGGAATTTTGATGTCTAGCTTA
* * * *
1908343 GGGTTTAATTTATTAGTTTATAAAACTATTTTGTTAAATCTGGTGCAGCCGATTACATTTCCAGG
391 GGGTTTAATTTATTAATTTATAAAACTATTCTGTTAAATCTGGTCCAGCCGATTAAATTTCCAGG
* * **
1908408 TAATGAAATGGGTTTTTAAGTTGAATTTTATTAAGCTGTGTTGTTTTTTAGTATGATTTTTAAGT
456 TAATGAAACGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTTTAAGT
1908473 TC
521 TC
*
1908475 GGTTCGAATGTCTGATTCTTCGTATTTATACATTGGGTTTTGTCATATTTTTAATTTTGATTTTG
1 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCATATTTTTAATTTTGATTTTG
*
1908540 CTTTCTTATTGGTTGGTGATACTGGAATTAAAAAAAAAT-TATTCTCTATGTTTAGGGTTTTCGG
66 CTTTCTTATTGGTTGGTGATACTGGAATT-AAAAAAAATGTATTCTCTATGCTTAGGGTTTTCGG
*
1908604 TGTGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTATTGTTT
130 TGTGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTT
*
1908669 TTGTGAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTTTCTCCAGTTTTTGG
195 TTGTAAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTG--TTTTTTTTCTCCAGTTTTTGG
1908734 TCAATCCATTTCATTGCTTTCATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTT
258 TCAATCCATTTCATTGCTTTCATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTT
* *
1908799 TGTTACTGTTTATTTGTTGAAATCATTTGGTACTGTTTTTAAAGTATGGAATTTTGATGTCTAGT
323 TGTTACTGTTTATTTGTTGAAATCATTTGGTACTGCTTTTAAAGTATGGAATTTTGATGTCTAGC
* *
1908864 TTAGGGTTTAATTTATTAATTTATAAAACTGTTCTGTTAAATGTGGTCCAGCCGATTAAATTTCC
388 TTAGGGTTTAATTTATTAATTTATAAAACTATTCTGTTAAATCTGGTCCAGCCGATTAAATTTCC
1908929 AGGTAATGAAACGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTTTA
453 AGGTAATGAAACGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTTTA
1908994 AGTTC
518 AGTTC
1908999 G
1 G
1909000 ATATATATAC
Statistics
Matches: 502, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
522 219 0.44
523 9 0.02
524 274 0.55
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.48
Consensus pattern (522 bp):
GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCATATTTTTAATTTTGATTTTG
CTTTCTTATTGGTTGGTGATACTGGAATTAAAAAAAATGTATTCTCTATGCTTAGGGTTTTCGGT
GTGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTT
TGTAAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTCTCCAGTTTTTGGTCA
ATCCATTTCATTGCTTTCATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGT
TACTGTTTATTTGTTGAAATCATTTGGTACTGCTTTTAAAGTATGGAATTTTGATGTCTAGCTTA
GGGTTTAATTTATTAATTTATAAAACTATTCTGTTAAATCTGGTCCAGCCGATTAAATTTCCAGG
TAATGAAACGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTTTAAGT
TC
Found at i:1909725 original size:17 final size:17
Alignment explanation
Indices: 1909705--1909754 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
1909695 TTAATATCTA
1909705 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
1909722 TATAAGTTTGCT-AA--
1 TATAAGTTTTCTAAATT
1909736 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
1909752 TAT
1 TAT
1909755 TTGTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
16 2 0.07
17 13 0.48
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:1909781 original size:15 final size:15
Alignment explanation
Indices: 1909746--1909784 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1909736 ATAAGTTTTC
*
1909746 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
1909761 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
1909777 TAAATTTA
1 TAAATTTA
1909785 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:1909863 original size:61 final size:61
Alignment explanation
Indices: 1909716--1909864 Score: 190
Period size: 62 Copynumber: 2.4 Consensus size: 61
1909706 ATAAGTTTTC
* * * *
1909716 TAAATTTATAAGTTTGCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
** * *
1909777 TAAATTTACTTCGTTTTCTAAATAAGTGTTCTAAATTTGTTAGTAATAAATTTTATTAGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
* * *
1909839 TAATTTTATAAATTTTCTACATAAGT
1 TAAATTTATAAGTTTTCTAAATAAGT
1909865 TACATAATAC
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 22 0.30
62 52 0.70
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
Found at i:1909890 original size:9 final size:9
Alignment explanation
Indices: 1909856--1909946 Score: 64
Period size: 9 Copynumber: 10.2 Consensus size: 9
1909846 ATAAATTTTC
*
1909856 TACATAAGT
1 TACATAACT
1909865 TACATAA--
1 TACATAACT
**
1909872 TACACCACT
1 TACATAACT
1909881 TACATAACT
1 TACATAACT
*
1909890 TACAAAACT
1 TACATAACT
*
1909899 TATATAA--
1 TACATAACT
1909906 TACATAACT
1 TACATAACT
*
1909915 TATATTTAAGCT
1 TACA--TAA-CT
*
1909927 TGCATAACT
1 TACATAACT
1909936 TACATAACT
1 TACATAACT
1909945 TA
1 TA
1909947 TATATAATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 11 0.17
9 42 0.67
10 3 0.05
11 3 0.05
12 4 0.06
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:1909919 original size:16 final size:16
Alignment explanation
Indices: 1909856--1909916 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
1909846 ATAAATTTTC
*
1909856 TACATAAGTTACATAA
1 TACATAACTTACATAA
**
1909872 TACACCACTTACATAA
1 TACATAACTTACATAA
* *
1909888 CTTACAAAACTTATATAA
1 --TACATAACTTACATAA
1909906 TACATAACTTA
1 TACATAACTTA
1909917 TATTTAAGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 23 0.64
18 13 0.36
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:1909940 original size:30 final size:29
Alignment explanation
Indices: 1909906--1910025 Score: 85
Period size: 30 Copynumber: 4.2 Consensus size: 29
1909896 ACTTATATAA
1909906 TACATAACTTATATTTAAGCTTGCATAACT
1 TACATAACTTATATTTAAGCTT-CATAACT
* * *
1909936 TACATAACTTATATATAATAA-CATAATAAAT
1 TACATAACTTATAT-T--TAAGCTTCATAACT
* *
1909967 TACATAA--TA-CTTTATG-TT-ATAA--
1 TACATAACTTATATTTAAGCTTCATAACT
*
1909989 TACATAACTTATATATAAGCTTGCATAACT
1 TACATAACTTATATTTAAGCTT-CATAACT
1910019 TACATAA
1 TACATAA
1910026 TAACTTACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 24
0.68 0.09 0.24
Matches are distributed among these distances:
22 7 0.10
24 6 0.09
25 7 0.10
26 2 0.03
27 1 0.01
28 5 0.07
29 2 0.03
30 21 0.30
31 13 0.19
32 2 0.03
33 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (29 bp):
TACATAACTTATATTTAAGCTTCATAACT
Found at i:1909988 original size:83 final size:84
Alignment explanation
Indices: 1909901--1910067 Score: 282
Period size: 86 Copynumber: 2.0 Consensus size: 84
1909891 ACAAAACTTA
* *
1909901 TATAATACATAACTTATATTTAAGCTTGCATAACTTAC-ATAACTTATATATAATAACATAATAA
1 TATAATACATAACTTATATATAAGCTTGCATAACTTACAATAACTTACATATAATAACATAATAA
1909965 ATTACATAATACTTTATGT
66 ATTACATAATACTTTATGT
*
1909984 TATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATATAATAGCATAAT
1 TATAATACATAACTTATATATAAGCTTGCATAACTTAC--AATAACTTACATATAATAACATAAT
1910049 AAATTACATAATACTTTAT
64 AAATTACATAATACTTTAT
1910068 ATAATAACAT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
83 37 0.47
86 41 0.53
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.38
Consensus pattern (84 bp):
TATAATACATAACTTATATATAAGCTTGCATAACTTACAATAACTTACATATAATAACATAATAA
ATTACATAATACTTTATGT
Found at i:1910041 original size:14 final size:12
Alignment explanation
Indices: 1910013--1910104 Score: 69
Period size: 12 Copynumber: 8.4 Consensus size: 12
1910003 ATAAGCTTGC
1910013 ATAACTTACATA
1 ATAACTTACATA
1910025 ATAACTTACAT-
1 ATAACTTACATA
1910036 ATAA--TAGCATA
1 ATAACTTA-CATA
*
1910047 ATAAATTACATA
1 ATAACTTACATA
*
1910059 AT-ACTT-TAT-
1 ATAACTTACATA
*
1910068 ATAA-TAACATA
1 ATAACTTACATA
1910079 ATAACTT--A-A
1 ATAACTTACATA
*
1910088 ATAACTTATATA
1 ATAACTTACATA
1910100 ATAAC
1 ATAAC
1910105 ATAATAACTA
Statistics
Matches: 64, Mismatches: 5, Indels: 22
0.70 0.05 0.24
Matches are distributed among these distances:
9 13 0.20
10 9 0.14
11 16 0.25
12 24 0.38
13 2 0.03
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:1910071 original size:83 final size:80
Alignment explanation
Indices: 1909898--1910079 Score: 274
Period size: 83 Copynumber: 2.2 Consensus size: 80
1909888 CTTACAAAAC
* *
1909898 TTATATAATACATAACTTATATTTAAGCTTGCATAACTTACATAACTTATATATAATAACATAAT
1 TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAACTTACATATAATAACATAAT
1909963 AAATTACATAATACT
66 AAATTACATAATACT
*
1909978 TTATGTTATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATATAATAG
1 TTA---TATAATACATAACTTATATATAAGCTTGCATAACTTAC---ATAACTTACATATAATAA
1910043 CATAATAAATTACATAATACT
60 CATAATAAATTACATAATACT
1910064 TTATATAATAACATAA
1 TTATATAAT-ACATAA
1910080 TAACTTAAAT
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
80 3 0.03
83 43 0.47
84 6 0.07
86 40 0.43
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (80 bp):
TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAACTTACATATAATAACATAAT
AAATTACATAATACT
Found at i:1910079 original size:32 final size:32
Alignment explanation
Indices: 1910013--1910119 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 32
1910003 ATAAGCTTGC
* *
1910013 ATAACTTACATAATAACTTACATATAATAGCATA
1 ATAACTTACATAAT-ACTT-TATATAATAACATA
*
1910047 ATAAATTACATAATACTTTATATAATAACATA
1 ATAACTTACATAATACTTTATATAATAACATA
*
1910079 ATAACTTAAAT-A-AC-TTATATAATAACATA
1 ATAACTTACATAATACTTTATATAATAACATA
*
1910108 ATAACTAACATA
1 ATAACTTACATA
1910120 CAATATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
29 24 0.37
30 2 0.03
31 1 0.02
32 21 0.32
33 4 0.06
34 13 0.20
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (32 bp):
ATAACTTACATAATACTTTATATAATAACATA
Found at i:1910096 original size:29 final size:29
Alignment explanation
Indices: 1910024--1910170 Score: 113
Period size: 32 Copynumber: 4.8 Consensus size: 29
1910014 TAACTTACAT
* *
1910024 AATAACTTACATATAATAGCATAATAAATTA
1 AATAACTT--ATATAATAACATAATAACTTA
*
1910055 CATAATACTTTATATAATAACATAATAACTTA
1 AAT-A-AC-TTATATAATAACATAATAACTTA
1910087 AATAACTTATATAATAACATAATAAC-TA
1 AATAACTTATATAATAACATAATAACTTA
* *
1910115 ACAT-AC-AATAT-ATAAACATATATAGAAACTTG
1 A-ATAACTTATATAAT-AACATA-AT---AACTTA
*
1910147 CATAACTTATATAATAACATAATA
1 AATAACTTATATAATAACATAATA
1910171 CATAACCTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
26 2 0.02
27 10 0.11
28 7 0.07
29 23 0.24
30 2 0.02
31 8 0.08
32 27 0.28
33 12 0.13
34 4 0.04
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (29 bp):
AATAACTTATATAATAACATAATAACTTA
Found at i:1910107 original size:83 final size:85
Alignment explanation
Indices: 1909902--1910124 Score: 253
Period size: 83 Copynumber: 2.7 Consensus size: 85
1909892 CAAAACTTAT
* * * *
1909902 ATAATACATAACTTATATTTAAGCTTGC---ATAACTTACATAACTTATATATAATAACATAATA
1 ATAATACATAACTTATATATAAGCTTACATAATAACATA-ATAACTTACATATAATAACATAATA
* *
1909964 AATTACATAATACTTTATGTT
65 AATTACATAATACTTTATATA
* * *
1909985 ATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATATAATAGCATAATA
1 ATAATACATAACTTATATATAAGCTTACATAA-TAACATAATAACTTACATATAATAACATAATA
1910050 AATTACATAATACTTTATATA
65 AATTACATAATACTTTATATA
* * *
1910071 ATAACATA-ATAACTTA-A-ATAA-CTTATATAATAACATAATAACTAACATACAATA
1 AT-A-ATACATAACTTATATATAAGCTTACATAATAACATAATAACTTACATATAATA
1910125 TATAAACATA
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
83 48 0.39
84 7 0.06
85 4 0.03
86 46 0.38
87 14 0.11
88 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (85 bp):
ATAATACATAACTTATATATAAGCTTACATAATAACATAATAACTTACATATAATAACATAATAA
ATTACATAATACTTTATATA
Found at i:1910245 original size:63 final size:63
Alignment explanation
Indices: 1910169--1910479 Score: 505
Period size: 63 Copynumber: 4.9 Consensus size: 63
1910159 AATAACATAA
** * * * *
1910169 TACATAACCTAAATAACTTACACAACTTACATAAATTAAATAACTTACATAACTTACATAACT
1 TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
*
1910232 TACATTAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
1 TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
*
1910295 TACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
* *
1910358 TACATAAATTAAATAACTTACATAACTTGCATAACTTACATAAATTAAATAACTTACATAACT
1 TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
* * *
1910421 TACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
1 TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACAT
1910480 TATACATAAC
Statistics
Matches: 233, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 233 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.33
Consensus pattern (63 bp):
TACATAAATTAAATAACTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACT
Found at i:1910479 original size:9 final size:9
Alignment explanation
Indices: 1910141--1910613 Score: 453
Period size: 9 Copynumber: 54.2 Consensus size: 9
1910131 CATATATAGA
*
1910141 AACTTGCAT
1 AACTTACAT
*
1910150 AACTTATAT
1 AACTTACAT
*
1910159 AA-TAACAT
1 AACTTACAT
1910167 AA--TACAT
1 AACTTACAT
* *
1910174 AACCTAAAT
1 AACTTACAT
*
1910183 AACTTACAC
1 AACTTACAT
1910192 AACTTACAT
1 AACTTACAT
* *
1910201 AAATTAAAT
1 AACTTACAT
1910210 AACTTACAT
1 AACTTACAT
1910219 AACTTACAT
1 AACTTACAT
1910228 AACTTACATT
1 AACTTACA-T
*
1910238 AA-TTAAAT
1 AACTTACAT
1910246 AACTTACAT
1 AACTTACAT
1910255 AACTTACAT
1 AACTTACAT
*
1910264 AAATTACAT
1 AACTTACAT
* *
1910273 AAATTAAAT
1 AACTTACAT
1910282 AACTTACAT
1 AACTTACAT
1910291 AACTTACAT
1 AACTTACAT
* *
1910300 AAATTAAAT
1 AACTTACAT
1910309 AACTTACAT
1 AACTTACAT
1910318 AACTTACAT
1 AACTTACAT
1910327 AACTTACAT
1 AACTTACAT
* *
1910336 AAATTAAAT
1 AACTTACAT
1910345 AACTTACAT
1 AACTTACAT
1910354 AACTTACAT
1 AACTTACAT
* *
1910363 AAATTAAAT
1 AACTTACAT
1910372 AACTTACAT
1 AACTTACAT
*
1910381 AACTTGCAT
1 AACTTACAT
1910390 AACTTACAT
1 AACTTACAT
* *
1910399 AAATTAAAT
1 AACTTACAT
1910408 AACTTACAT
1 AACTTACAT
1910417 AACTTACAT
1 AACTTACAT
* *
1910426 AAATTAAAT
1 AACTTACAT
1910435 AACTTACAT
1 AACTTACAT
1910444 AACTTACAT
1 AACTTACAT
* *
1910453 AAATTAAAT
1 AACTTACAT
1910462 AACTTACAT
1 AACTTACAT
1910471 AACTTACAT
1 AACTTACAT
*
1910480 TA--TACAT
1 AACTTACAT
*
1910487 AACCTT-CTT
1 AA-CTTACAT
*
1910496 AACTTTCAT
1 AACTTACAT
* *
1910505 TA--TACAC
1 AACTTACAT
*
1910512 AACTCACAT
1 AACTTACAT
1910521 AA-TTA-AT
1 AACTTACAT
* *
1910528 -ATTATACAC
1 AACT-TACAT
1910537 AACTTACAT
1 AACTTACAT
1910546 AA--TACAT
1 AACTTACAT
*
1910553 TACTTACAT
1 AACTTACAT
*
1910562 AACTTTCAT
1 AACTTACAT
*
1910571 TACTTACAGT
1 AACTTACA-T
1910581 -ACTTACAT
1 AACTTACAT
1910589 AA--TACAT
1 AACTTACAT
1910596 AA--TACAT
1 AACTTACAT
1910603 AACTTACAT
1 AACTTACAT
1910612 AA
1 AA
1910614 TACATAAAAA
Statistics
Matches: 379, Mismatches: 65, Indels: 40
0.78 0.13 0.08
Matches are distributed among these distances:
6 1 0.00
7 39 0.10
8 17 0.04
9 315 0.83
10 7 0.02
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:1910573 original size:18 final size:16
Alignment explanation
Indices: 1910538--1910618 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
1910528 ATTATACACA
1910538 ACTTACATAATACATT
1 ACTTACATAATACATT
*
1910554 ACTTACATAACTTTCATT
1 ACTTACATAA--TACATT
*
1910572 ACTTACAGTACTTACA-T
1 ACTTACA-TA-ATACATT
* *
1910589 A-ATACATAATACATA
1 ACTTACATAATACATT
1910604 ACTTACATAATACAT
1 ACTTACATAATACAT
1910619 AAAAATATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
14 4 0.08
15 3 0.06
16 26 0.50
17 2 0.04
18 15 0.29
19 2 0.04
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (16 bp):
ACTTACATAATACATT
Found at i:1910596 original size:7 final size:7
Alignment explanation
Indices: 1910584--1910620 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
1910574 TTACAGTACT
1910584 TACATAA
1 TACATAA
1910591 TACATAA
1 TACATAA
1910598 TACATAA
1 TACATAA
1910605 CTTACATAA
1 --TACATAA
1910614 TACATAA
1 TACATAA
1910621 AAATATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:1913052 original size:19 final size:20
Alignment explanation
Indices: 1913023--1913063 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1913013 TTTTGAATTT
*
1913023 TTTTTACATATTCTTTAGAA
1 TTTTTACATATTCTTTAAAA
*
1913043 TTTTTA-ATATTTTTTAAAA
1 TTTTTACATATTCTTTAAAA
1913062 TT
1 TT
1913064 ATTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTACATATTCTTTAAAA
Found at i:1913230 original size:18 final size:18
Alignment explanation
Indices: 1913207--1913244 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1913197 TACCAATATG
1913207 TTATTTGAG-TTATTTGAA
1 TTATTT-AGTTTATTTGAA
1913225 TTATTTAGTTTATTTGAA
1 TTATTTAGTTTATTTGAA
1913243 TT
1 TT
1913245 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (18 bp):
TTATTTAGTTTATTTGAA
Found at i:1922744 original size:18 final size:17
Alignment explanation
Indices: 1922716--1922750 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1922706 ATTATTAAGA
*
1922716 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1922733 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1922751 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1922888 original size:18 final size:17
Alignment explanation
Indices: 1922860--1922894 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1922850 ATTATTAAGA
*
1922860 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1922877 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1922895 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1923105 original size:44 final size:45
Alignment explanation
Indices: 1923056--1923150 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
1923046 TTACACCTCT
* *
1923056 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
1923100 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
1923145 ATTACA
1 ATTACA
1923151 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:1923150 original size:16 final size:16
Alignment explanation
Indices: 1923129--1923161 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1923119 TTGATTTGCT
*
1923129 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
1923145 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
1923161 A
1 A
1923162 ATCCAATACA
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:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:1923171 original size:21 final size:21
Alignment explanation
Indices: 1923142--1923184 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1923132 ACACCTCTAT
*
1923142 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
1923163 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
1923184 T
1 T
1923185 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:1925851 original size:24 final size:24
Alignment explanation
Indices: 1925806--1925852 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1925796 ATTACACCTT
*
1925806 ATATTACAGGATGACCGTAATGTG
1 ATATTACAGGATGACCGGAATGTG
**
1925830 ATATTACAGGATGGTCGGAATGT
1 ATATTACAGGATGACCGGAATGT
1925853 TGAAATCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (24 bp):
ATATTACAGGATGACCGGAATGTG
Found at i:1962260 original size:39 final size:37
Alignment explanation
Indices: 1962193--1962285 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1962183 ACCAGAATGG
* *
1962193 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1962232 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1962269 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1962286 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1962612 original size:24 final size:24
Alignment explanation
Indices: 1962580--1962629 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1962570 ATTTCCCGCT
1962580 TTCAATCAACAAACAATTCAAATA
1 TTCAATCAACAAACAATTCAAATA
1962604 TTCAATCAACAAACAATTCAAATA
1 TTCAATCAACAAACAATTCAAATA
1962628 TT
1 TT
1962630 ATCATATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (24 bp):
TTCAATCAACAAACAATTCAAATA
Found at i:1962704 original size:18 final size:18
Alignment explanation
Indices: 1962662--1962705 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1962652 ATTCCCACTC
*
1962662 ATAATAATAATACTAATA
1 ATAATACTAATACTAATA
1962680 ATAATACTAATACTAATA
1 ATAATACTAATACTAATA
*
1962698 TTAATACT
1 ATAATACT
1962706 TACCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATACTAATACTAATA
Found at i:1962705 original size:12 final size:12
Alignment explanation
Indices: 1962663--1962703 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
1962653 TTCCCACTCA
1962663 TAATAATAATAC
1 TAATAATAATAC
1962675 TAATAATAATAC
1 TAATAATAATAC
* *
1962687 TAATACTAATAT
1 TAATAATAATAC
1962699 TAATA
1 TAATA
1962704 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:1964002 original size:16 final size:16
Alignment explanation
Indices: 1963983--1964017 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1963973 TTCTTTGTTC
1963983 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
1963999 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
1964015 TTT
1 TTT
1964018 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:1964091 original size:28 final size:29
Alignment explanation
Indices: 1964020--1964083 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
1964010 TTTCTTTTAT
*
1964020 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
1964051 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
1964079 ATATA
1 ATATA
1964084 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:1969012 original size:21 final size:21
Alignment explanation
Indices: 1968970--1969012 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1968960 TTCACTATAC
*
1968970 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
1968991 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
1969012 A
1 A
1969013 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:1970125 original size:39 final size:37
Alignment explanation
Indices: 1970058--1970150 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1970048 ACCAGAATGG
* *
1970058 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1970097 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1970134 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1970151 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1970547 original size:18 final size:18
Alignment explanation
Indices: 1970505--1970548 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1970495 ATTCCCACTC
*
1970505 ATAATAATAATACTAATA
1 ATAATACTAATACTAATA
1970523 ATAATACTAATACTAATA
1 ATAATACTAATACTAATA
*
1970541 TTAATACT
1 ATAATACT
1970549 TACCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATACTAATACTAATA
Found at i:1970548 original size:12 final size:12
Alignment explanation
Indices: 1970506--1970546 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
1970496 TTCCCACTCA
1970506 TAATAATAATAC
1 TAATAATAATAC
1970518 TAATAATAATAC
1 TAATAATAATAC
* *
1970530 TAATACTAATAT
1 TAATAATAATAC
1970542 TAATA
1 TAATA
1970547 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:1971848 original size:16 final size:16
Alignment explanation
Indices: 1971829--1971863 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1971819 TTCTTTGTTC
1971829 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
1971845 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
1971861 TTT
1 TTT
1971864 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:1971937 original size:28 final size:29
Alignment explanation
Indices: 1971866--1971929 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
1971856 TTTCTTTTAT
*
1971866 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
1971897 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
1971925 ATATA
1 ATATA
1971930 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:1978176 original size:13 final size:13
Alignment explanation
Indices: 1978158--1978182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1978148 ATATGATATG
1978158 TTTTATTTTTTAT
1 TTTTATTTTTTAT
1978171 TTTTATTTTTTA
1 TTTTATTTTTTA
1978183 AAAGAGAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:1978464 original size:20 final size:21
Alignment explanation
Indices: 1978421--1978475 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
1978411 TTCTCTCAAC
1978421 AAAAATTACAAAATAATTTTT
1 AAAAATTACAAAATAATTTTT
1978442 -AAAATT-CAAAAT-ATGTTTAT
1 AAAAATTACAAAATAAT-TTT-T
*
1978462 AAAAATTCCAAAAT
1 AAAAATTACAAAAT
1978476 TTGTGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.07
19 9 0.30
20 7 0.23
21 6 0.20
22 6 0.20
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATTACAAAATAATTTTT
Found at i:1978926 original size:3 final size:3
Alignment explanation
Indices: 1978918--1978963 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1978908 TTTGAAATTG
1978918 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1978964 ACCAACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2004338 original size:14 final size:15
Alignment explanation
Indices: 2004319--2004355 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2004309 TTCAGGCTTT
2004319 TGTTTTTTG-TTTTC
1 TGTTTTTTGTTTTTC
*
2004333 TGTTTTTTGTTTTTT
1 TGTTTTTTGTTTTTC
2004348 TGTTTTTT
1 TGTTTTTT
2004356 AATTTCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (15 bp):
TGTTTTTTGTTTTTC
Found at i:2004346 original size:8 final size:7
Alignment explanation
Indices: 2004316--2004355 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
2004306 ATGTTCAGGC
2004316 TTTTGTT
1 TTTTGTT
2004323 TTTTGTT
1 TTTTGTT
*
2004330 TTCTGTT
1 TTTTGTT
2004337 TTTTGTTT
1 TTTTG-TT
2004345 TTTTGTT
1 TTTTGTT
2004352 TTTT
1 TTTT
2004356 AATTTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:2010798 original size:17 final size:19
Alignment explanation
Indices: 2010768--2010804 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
2010758 CATTGTGTAA
2010768 AAAAAATCTAAATTAAAAT
1 AAAAAATCTAAATTAAAAT
2010787 AAAAAAT-T-AATTAAAAT
1 AAAAAATCTAAATTAAAAT
2010804 A
1 A
2010805 TATCCGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAATCTAAATTAAAAT
Found at i:2022591 original size:13 final size:13
Alignment explanation
Indices: 2022573--2022597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2022563 TTTTGCTTCC
2022573 TTTTTCCTTTTTA
1 TTTTTCCTTTTTA
2022586 TTTTTCCTTTTT
1 TTTTTCCTTTTT
2022598 CCCGCCGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCCTTTTTA
Found at i:2025906 original size:17 final size:17
Alignment explanation
Indices: 2025884--2025923 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2025874 GTTAGTCTAC
*
2025884 ATTATTTTTTAAATTTG
1 ATTATTTTTTAAATTTA
*
2025901 ATTATTTTTTCAATTTA
1 ATTATTTTTTAAATTTA
2025918 ATTATT
1 ATTATT
2025924 GAATTATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
ATTATTTTTTAAATTTA
Found at i:2032077 original size:21 final size:21
Alignment explanation
Indices: 2032053--2032096 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2032043 TGGAGGGGAG
*
2032053 TGTGGAGGCGGTGGTGGAGAA
1 TGTGGAGGCGGTGGGGGAGAA
* * *
2032074 TGTGGTGGGGGTGGGGGTGAA
1 TGTGGAGGCGGTGGGGGAGAA
2032095 TG
1 TG
2032097 ATGTGGCGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.02, G:0.61, T:0.23
Consensus pattern (21 bp):
TGTGGAGGCGGTGGGGGAGAA
Found at i:2032102 original size:21 final size:21
Alignment explanation
Indices: 2032059--2032132 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
2032049 GGAGTGTGGA
* *
2032059 GGCGGTGGTGGAGAATG-TGGT
1 GGCGGTGGAGGTGAATGAT-GT
* *
2032080 GGGGGTGGGGGTGAATGATGT
1 GGCGGTGGAGGTGAATGATGT
*
2032101 GGCGGTGGAGGTGACTGATGT
1 GGCGGTGGAGGTGAATGATGT
*
2032122 GGTGGTGGAGG
1 GGCGGTGGAGG
2032133 GGAGTTATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.14, C:0.04, G:0.59, T:0.23
Consensus pattern (21 bp):
GGCGGTGGAGGTGAATGATGT
Found at i:2032281 original size:39 final size:39
Alignment explanation
Indices: 2032238--2032345 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 39
2032228 ATATTGGCGC
* *
2032238 AGGTGGTGGGGGTGAAGGGGGCGGTGGTGACGGATAAGT
1 AGGTGGTGGGGGTGAAGGAGGTGGTGGTGACGGATAAGT
* * * * *
2032277 AGGTGGCGGGGGTGAAGGTGGTGGAGGTGATGGATATGT
1 AGGTGGTGGGGGTGAAGGAGGTGGTGGTGACGGATAAGT
*
2032316 AGGGGGTGGGGGTGAAGGAGGTGGTGGTGA
1 AGGTGGTGGGGGTGAAGGAGGTGGTGGTGA
2032346 GGGCGGTGGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.18, C:0.03, G:0.60, T:0.19
Consensus pattern (39 bp):
AGGTGGTGGGGGTGAAGGAGGTGGTGGTGACGGATAAGT
Found at i:2032344 original size:15 final size:15
Alignment explanation
Indices: 2032320--2032372 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
2032310 ATATGTAGGG
*
2032320 GGTGGGGGTGAAGGA
1 GGTGGAGGTGAAGGA
* * *
2032335 GGTGGTGGTGAGGGC
1 GGTGGAGGTGAAGGA
* *
2032350 GGTGGAGGTGATGGT
1 GGTGGAGGTGAAGGA
2032365 GGTGGAGG
1 GGTGGAGG
2032373 AGGTGAGAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.13, C:0.02, G:0.66, T:0.19
Consensus pattern (15 bp):
GGTGGAGGTGAAGGA
Found at i:2032430 original size:21 final size:21
Alignment explanation
Indices: 2032406--2032451 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2032396 TGGTGGCGGA
2032406 GGCGAAGGAGGAGGAGGCGAG
1 GGCGAAGGAGGAGGAGGCGAG
** * *
2032427 GGCGGTGGTGGGGGAGGCGAG
1 GGCGAAGGAGGAGGAGGCGAG
2032448 GGCG
1 GGCG
2032452 GTGGTGGGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.67, T:0.04
Consensus pattern (21 bp):
GGCGAAGGAGGAGGAGGCGAG
Found at i:2032452 original size:21 final size:21
Alignment explanation
Indices: 2032418--2032464 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2032408 CGAAGGAGGA
2032418 GGAGGCGAGGGCGGTGGTGGG
1 GGAGGCGAGGGCGGTGGTGGG
2032439 GGAGGCGAGGGCGGTGGTGGG
1 GGAGGCGAGGGCGGTGGTGGG
2032460 GGAGG
1 GGAGG
2032465 TGAAAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.11, C:0.09, G:0.72, T:0.09
Consensus pattern (21 bp):
GGAGGCGAGGGCGGTGGTGGG
Found at i:2052003 original size:20 final size:21
Alignment explanation
Indices: 2051962--2052005 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2051952 GACCCGGTCC
2051962 ATTTTTTTAATAAACACCAAAA
1 ATTTTTTTAATAAACA-CAAAA
2051984 ATTTATTTTAA-AAACA-AAAA
1 ATTT-TTTTAATAAACACAAAA
2052004 AT
1 AT
2052006 AAAAAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTTTTTAATAAACACAAAA
Found at i:2052024 original size:11 final size:11
Alignment explanation
Indices: 2052008--2052033 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2051998 CAAAAAATAA
2052008 AAAAGTATTTT
1 AAAAGTATTTT
2052019 AAAAGTATTTT
1 AAAAGTATTTT
2052030 AAAA
1 AAAA
2052034 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:2052754 original size:16 final size:17
Alignment explanation
Indices: 2052735--2052767 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2052725 TAATTTTTTG
2052735 TAATTAC-AAGAGAGTA
1 TAATTACTAAGAGAGTA
2052751 TAATTACTAAGAGAGTA
1 TAATTACTAAGAGAGTA
2052768 ATTGCACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.27
Consensus pattern (17 bp):
TAATTACTAAGAGAGTA
Found at i:2057682 original size:24 final size:24
Alignment explanation
Indices: 2057655--2057701 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2057645 CGGTGCTTCC
2057655 CGTTAATTGCTCTTCGGAGCTACT
1 CGTTAATTGCTCTTCGGAGCTACT
*
2057679 CGTTAATTGCTCTTTGGAGCTAC
1 CGTTAATTGCTCTTCGGAGCTAC
2057702 CCATTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
CGTTAATTGCTCTTCGGAGCTACT
Found at i:2060127 original size:27 final size:28
Alignment explanation
Indices: 2060088--2060156 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
2060078 TTTCCAAACA
2060088 CGACCTTGACCTTTT-CTAGGGTTT-GAC
1 CGACCTTGACCTTTTACTA-GGTTTCGAC
* *
2060115 CGACCTTGGCCTTTTACTAGGTTTCGGC
1 CGACCTTGACCTTTTACTAGGTTTCGAC
2060143 CGACCTTGACCTTT
1 CGACCTTGACCTTT
2060157 AGCGTATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.13, C:0.29, G:0.22, T:0.36
Consensus pattern (28 bp):
CGACCTTGACCTTTTACTAGGTTTCGAC
Found at i:2067592 original size:11 final size:11
Alignment explanation
Indices: 2067555--2067592 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2067545 AATTTGACCT
2067555 TTAATTTTTTA
1 TTAATTTTTTA
2067566 TT-ATTTTTTA
1 TTAATTTTTTA
* *
2067576 TAAATTTTATA
1 TTAATTTTTTA
2067587 TTAATT
1 TTAATT
2067593 GATAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:2082114 original size:30 final size:30
Alignment explanation
Indices: 2082057--2082114 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2082047 AAGAACATAC
* *
2082057 AGAAAATAGTTTAAAACTTTACCAATTTAA
1 AGAAAATAGTTAAAAACTTTACAAATTTAA
2082087 AGAAAA-AGTTAAAAACTTTAACAAATTT
1 AGAAAATAGTTAAAAACTTT-ACAAATTT
2082115 CAGCATCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (30 bp):
AGAAAATAGTTAAAAACTTTACAAATTTAA
Found at i:2083304 original size:8 final size:9
Alignment explanation
Indices: 2083283--2083309 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
2083273 AACATACAAT
2083283 TTTTTTATA
1 TTTTTTATA
2083292 TTTTTTATA
1 TTTTTTATA
2083301 TTTTTTATA
1 TTTTTTATA
2083310 CGAATGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTATA
Done.