Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 84 of 91
Found at i:18888535 original size:25 final size:25
Alignment explanation
Indices: 18888476--18888535 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
18888466 TTGAAAACAA
* ** *
18888476 TTTTCAAAAATATATATATTGTATAT
1 TTTTGAAAAA-ATATATATAATATAG
18888502 TTTTG--AAAATATATATAATATAG
1 TTTTGAAAAAATATATATAATATAG
18888525 TTTTGAAAAAA
1 TTTTGAAAAAA
18888536 AACATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 17 0.61
24 3 0.11
25 4 0.14
26 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (25 bp):
TTTTGAAAAAATATATATAATATAG
Found at i:18888550 original size:12 final size:12
Alignment explanation
Indices: 18888533--18888572 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
18888523 AGTTTTGAAA
*
18888533 AAAAACATTTTT
1 AAAAACATTTTG
18888545 AAAAACATTTTG
1 AAAAACATTTTG
*
18888557 -AAAACGTTTTG
1 AAAAACATTTTG
18888568 AAAAA
1 AAAAA
18888573 TATATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (12 bp):
AAAAACATTTTG
Found at i:18888670 original size:38 final size:38
Alignment explanation
Indices: 18888551--18888670 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 38
18888541 TTTTAAAAAC
* *
18888551 ATTTTGAAAAC-GTTTTGAAAAATATATATAATATATA
1 ATTTTGAAAACATTTTTAAAAAATATATATAATATATA
** * * *
18888588 ATTCAGAAAACATTTTCGAAAAACATGTATATAATATATG
1 ATTTTGAAAACATTTT-TAAAAA-ATATATATAATATATA
** * *
18888628 ATTTTGAAAACATTTTTTTAAAATATATGTAATATGTA
1 ATTTTGAAAACATTTTTAAAAAATATATATAATATATA
18888666 ATTTT
1 ATTTT
18888671 CATTTATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
37 9 0.14
38 20 0.31
39 7 0.11
40 28 0.44
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (38 bp):
ATTTTGAAAACATTTTTAAAAAATATATATAATATATA
Found at i:18889799 original size:26 final size:26
Alignment explanation
Indices: 18889769--18889834 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
18889759 TATTATGTTA
18889769 TTCTTTTATTTAATTTAACATTTTTC
1 TTCTTTTATTTAATTTAACATTTTTC
** *
18889795 TTCTTTT-TAAAAATTAACATTTTTC
1 TTCTTTTATTTAATTTAACATTTTTC
18889820 TTCTTTTAATTTAAT
1 TTCTTTT-ATTTAAT
18889835 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 22 0.69
26 7 0.22
27 3 0.09
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (26 bp):
TTCTTTTATTTAATTTAACATTTTTC
Found at i:18901591 original size:21 final size:21
Alignment explanation
Indices: 18901521--18901591 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
18901511 TTTTGTGCAC
*
18901521 TGTGCATCGATGCACTATGAA
1 TGTGCATCGATACACTATGAA
* * * *
18901542 AGTGTACCGATGTATCCCT-TGAA
1 TGTGCATCGA--TA-CACTATGAA
*
18901565 TATGCATCGATACACTATGAA
1 TGTGCATCGATACACTATGAA
18901586 TGTGCA
1 TGTGCA
18901592 CTGCTGCATG
Statistics
Matches: 35, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
20 3 0.09
21 18 0.51
23 11 0.31
24 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTGCATCGATACACTATGAA
Found at i:18901606 original size:44 final size:44
Alignment explanation
Indices: 18901523--18901624 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
18901513 TTGTGCACTG
* * *
18901523 TGCATCGATGCACTATGAAAGTGTACCGATGTATCCCTTGAATA
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATA
* * * * *
18901567 TGCATCGATACACTATGAATGTGCACTGCTGCATGCCTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATA
*
18901611 TACATCGATACACT
1 TGCATCGATACACT
18901625 CGTCAGGTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATA
Found at i:18903838 original size:14 final size:15
Alignment explanation
Indices: 18903819--18903849 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
18903809 AATTGGCTAA
18903819 TTTTTTAAAAAC-CT
1 TTTTTTAAAAACGCT
18903833 TTTTTTAAAAACGCT
1 TTTTTTAAAAACGCT
18903848 TT
1 TT
18903850 AGAGTCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTTTTAAAAACGCT
Found at i:18903923 original size:14 final size:15
Alignment explanation
Indices: 18903900--18903942 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
18903890 AGGGGGAGTA
*
18903900 ATTTTC-AAAAATTG
1 ATTTTCAAAAAAATG
18903914 A-TTTCAAAAAAATG
1 ATTTTCAAAAAAATG
18903928 ATTTTCAAAGAAAAT
1 ATTTTCAAA-AAAAT
18903943 CTTAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 7 0.28
16 5 0.20
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (15 bp):
ATTTTCAAAAAAATG
Found at i:18903926 original size:15 final size:16
Alignment explanation
Indices: 18903906--18903942 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18903896 AGTAATTTTC
18903906 AAAAATTGA-TTTCAA
1 AAAAATTGATTTTCAA
18903921 AAAAA-TGATTTTCAA
1 AAAAATTGATTTTCAA
18903936 AGAAAAT
1 A-AAAAT
18903943 CTTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.16
15 12 0.63
16 4 0.21
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (16 bp):
AAAAATTGATTTTCAA
Found at i:18906607 original size:36 final size:36
Alignment explanation
Indices: 18906523--18906738 Score: 116
Period size: 32 Copynumber: 6.2 Consensus size: 36
18906513 ATGATTATTG
* * * * *
18906523 AAAACATAAAATATATAGTTTTTAAAAATCATTTTTTTG
1 AAAACAT-ATATATATAGTTTTGAAAAAACA--ATTTTA
* * * *
18906562 AAAATATATATAATATGGTTTTGAAAATACGA-TTTA
1 AAAACATATAT-ATATAGTTTTGAAAAAACAATTTTA
* *
18906598 AAAACATATATTATATAATTTTGAAAAAACAATTTTG
1 AAAACATATA-TATATAGTTTTGAAAAAACAATTTTA
18906635 AAAACATAT-TATATAGTTTTG--AAAACAATTTT-
1 AAAACATATATATATAGTTTTGAAAAAACAATTTTA
** ** *
18906667 TGATTATAT-TATATAGTTTTG--AAAATAATTTT-
1 AAAACATATATATATAGTTTTGAAAAAACAATTTTA
* * *
18906699 GAAA-ATATATAT-TA--TTTGAAAAAAACATTTTTG
1 AAAACATATATATATAGTTTTG-AAAAAACAATTTTA
18906732 AAAACAT
1 AAAACAT
18906739 TTTGAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
29 4 0.03
31 6 0.04
32 40 0.28
33 14 0.10
34 2 0.01
35 11 0.08
36 28 0.20
37 13 0.09
38 3 0.02
39 20 0.14
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (36 bp):
AAAACATATATATATAGTTTTGAAAAAACAATTTTA
Found at i:18906681 original size:32 final size:33
Alignment explanation
Indices: 18906603--18906708 Score: 119
Period size: 32 Copynumber: 3.2 Consensus size: 33
18906593 ATTTAAAAAC
*
18906603 ATATATTATATAATTTTGAAAAAACAA-TTTTGAAA
1 ATATATTATATAGTTTTG--AAAACAATTTTTG-AA
*
18906638 ACATATTATATAGTTTTGAAAACAATTTTTG-A
1 ATATATTATATAGTTTTGAAAACAATTTTTGAA
* *
18906670 TTATATTATATAGTTTTGAAAATAA-TTTTGAAA
1 ATATATTATATAGTTTTGAAAACAATTTTTG-AA
18906703 ATATAT
1 ATATAT
18906709 ATTATTTGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
31 5 0.08
32 23 0.37
33 13 0.21
34 5 0.08
35 16 0.26
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (33 bp):
ATATATTATATAGTTTTGAAAACAATTTTTGAA
Found at i:18906743 original size:11 final size:11
Alignment explanation
Indices: 18906720--18906757 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
18906710 TTATTTGAAA
18906720 AAAACATTTTTG
1 AAAACA-TTTTG
18906732 AAAACATTTTG
1 AAAACATTTTG
*
18906743 AAAACGTTTTG
1 AAAACATTTTG
18906754 AAAA
1 AAAA
18906758 ATATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (11 bp):
AAAACATTTTG
Found at i:18906810 original size:40 final size:37
Alignment explanation
Indices: 18906737--18906855 Score: 148
Period size: 37 Copynumber: 3.1 Consensus size: 37
18906727 TTTTGAAAAC
*
18906737 ATTTTGAAAACGTTTTGAAAAATATATATAATATATA
1 ATTTTGAAAACATTTTGAAAAATATATATAATATATA
* *
18906774 ATTTAGAAAACATTTTCGAAAAAACTATATATAATATATG
1 ATTTTGAAAACATTTT-G-AAAAA-TATATATAATATATA
** * *
18906814 ATTTTGAAAACATTTTTTAAAATATATGTAATATGTA
1 ATTTTGAAAACATTTTGAAAAATATATATAATATATA
18906851 ATTTT
1 ATTTT
18906856 CATTTTATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 31 0.44
38 5 0.07
39 5 0.07
40 29 0.41
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (37 bp):
ATTTTGAAAACATTTTGAAAAATATATATAATATATA
Found at i:18906881 original size:19 final size:20
Alignment explanation
Indices: 18906852--18906899 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
18906842 TAATATGTAA
*
18906852 TTTTCATTTTATTTATTTCT
1 TTTTCATTTTATTCATTTCT
18906872 TTTTCA-TTTATTCATTTCT
1 TTTTCATTTTATTCATTTCT
18906891 TTTTC-TTTT
1 TTTTCATTTT
18906900 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCATTTTATTCATTTCT
Found at i:18908021 original size:24 final size:23
Alignment explanation
Indices: 18907994--18908092 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 23
18907984 TATTCTATTA
18907994 TTCTTTTATTTAATTTAACATTTT
1 TTCTTTT-TTTAATTTAACATTTT
* *
18908018 TTCTTCTTTTTAAAAATTAACTTTTTT
1 TTCTT-TTTTT--AATTTAAC-ATTTT
* * *
18908045 TTCTTCTTTTCATTTAATATTTAT
1 TTCTTTTTTTAATTTAACATTT-T
* * *
18908069 TTATTTTTTTAATCTAACCTTTT
1 TTCTTTTTTTAATTTAACATTTT
18908092 T
1 T
18908093 GACCTTTTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
23 5 0.09
24 30 0.53
25 2 0.04
26 11 0.19
27 9 0.16
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (23 bp):
TTCTTTTTTTAATTTAACATTTT
Found at i:18908024 original size:27 final size:28
Alignment explanation
Indices: 18907994--18908062 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
18907984 TATTCTATTA
18907994 TTCTTTTATTTAATTTAAC-ATTTTTTC
1 TTCTTTTATTTAATTTAACTATTTTTTC
** * *
18908021 TTCTTTT-TAAAAATTAACTTTTTTTTC
1 TTCTTTTATTTAATTTAACTATTTTTTC
18908048 TTCTTTTCATTTAAT
1 TTCTTTT-ATTTAAT
18908063 ATTTATTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
26 8 0.25
27 21 0.66
29 3 0.09
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (28 bp):
TTCTTTTATTTAATTTAACTATTTTTTC
Found at i:18908495 original size:21 final size:21
Alignment explanation
Indices: 18908451--18908496 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18908441 TAAAATTTCT
*
18908451 GGTTTAAGATTTAAGTTTTAG
1 GGTTTAAGATTTAAGATTTAG
* * *
18908472 GGTTTAGGATTTATGATTTGG
1 GGTTTAAGATTTAAGATTTAG
18908493 GGTT
1 GGTT
18908497 GAGAGTTTAG
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:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
GGTTTAAGATTTAAGATTTAG
Found at i:18908810 original size:23 final size:23
Alignment explanation
Indices: 18908784--18908830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18908774 AAAATATACT
*
18908784 TATTAGTAATTTTAATAATACAA
1 TATTAATAATTTTAATAATACAA
* * *
18908807 TATTAATATTTTTAGTATTACAA
1 TATTAATAATTTTAATAATACAA
18908830 T
1 T
18908831 TATATACTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTAATAATTTTAATAATACAA
Found at i:18909856 original size:34 final size:34
Alignment explanation
Indices: 18909800--18909893 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 34
18909790 GTCTAAGCAG
* * *
18909800 TTGCTATTTGTCGGACAA-GATTAGGGTTAGAGAA
1 TTGCTATTTATCAG-CAACGATTAGGGTTAGACAA
* * *
18909834 TTGTTATTT-TCCAGCCACGATTAAGGTTAGACAA
1 TTGCTATTTAT-CAGCAACGATTAGGGTTAGACAA
*
18909868 TTGCTATTTATCGGCAACGATTAGGG
1 TTGCTATTTATCAGCAACGATTAGGG
18909894 ATTTAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
33 3 0.06
34 44 0.92
35 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (34 bp):
TTGCTATTTATCAGCAACGATTAGGGTTAGACAA
Found at i:18913756 original size:12 final size:12
Alignment explanation
Indices: 18913739--18913768 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18913729 TAGGGCCGTT
18913739 AGTTTTACATCA
1 AGTTTTACATCA
*
18913751 AGTTTTACATTA
1 AGTTTTACATCA
18913763 AGTTTT
1 AGTTTT
18913769 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:18933837 original size:23 final size:23
Alignment explanation
Indices: 18933810--18933858 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18933800 AGGTCAGAGA
18933810 AAAACAGAACAGAGAAGCTAAGT
1 AAAACAGAACAGAGAAGCTAAGT
18933833 AAAACAGAACAGAGAAGCTAAGT
1 AAAACAGAACAGAGAAGCTAAGT
18933856 AAA
1 AAA
18933859 TAATTAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.20, T:0.08
Consensus pattern (23 bp):
AAAACAGAACAGAGAAGCTAAGT
Found at i:18934924 original size:3 final size:3
Alignment explanation
Indices: 18934916--18934942 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18934906 GCCGAATATG
18934916 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
18934943 TCGGTCTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18938894 original size:20 final size:22
Alignment explanation
Indices: 18938869--18938926 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
18938859 TCCCCTTTGA
18938869 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
18938889 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
18938912 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
18938927 CTACTCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:18939013 original size:19 final size:19
Alignment explanation
Indices: 18938985--18939030 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18938975 GGGGTACATT
*
18938985 GATGCCCTCCTTATGCATC
1 GATGCACTCCTTATGCATC
18939004 GATGCACTCCTTATGCATC
1 GATGCACTCCTTATGCATC
18939023 GATGCACT
1 GATGCACT
18939031 AATTGCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (19 bp):
GATGCACTCCTTATGCATC
Found at i:18939072 original size:83 final size:83
Alignment explanation
Indices: 18938915--18939089 Score: 201
Period size: 83 Copynumber: 2.1 Consensus size: 83
18938905 CTTTAACATG
* *
18938915 TGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGGGT
1 TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGGGGT
*
18938980 ACATTGATGC-CCTCCTTA
66 ACATCGATGCACCTCC-TA
* * * * ** *
18938998 TGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAA-TGGG
1 TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCA-TTTTAAGGGGG
* * *
18939062 TGCATCGATGCACTTCCTG
65 TACATCGATGCACCTCCTA
18939081 TGCATCGAT
1 TGCATCGAT
18939090 ACACACTGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
83 67 0.87
84 10 0.13
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (83 bp):
TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGGGGT
ACATCGATGCACCTCCTA
Found at i:18941297 original size:25 final size:25
Alignment explanation
Indices: 18941268--18941320 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
18941258 AGAATATGAA
18941268 CAGCCCTTGGTTTGAATGATGAAAT
1 CAGCCCTTGGTTTGAATGATGAAAT
* *
18941293 CAGCCCTTGGTTTGGATGATTAAAT
1 CAGCCCTTGGTTTGAATGATGAAAT
18941318 CAG
1 CAG
18941321 TTTTGAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (25 bp):
CAGCCCTTGGTTTGAATGATGAAAT
Found at i:18941747 original size:17 final size:17
Alignment explanation
Indices: 18941725--18941796 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
18941715 AATTACGAGT
18941725 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
18941742 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* *
18941759 TAGTTTAATTAATGAGC
1 TAGTTTAATAAATGAAC
* *
18941776 TAATTTTATTAAATGAAC
1 T-AGTTTAATAAATGAAC
18941794 TAG
1 TAG
18941797 ATGCATAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:18941764 original size:34 final size:35
Alignment explanation
Indices: 18941725--18941796 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
18941715 AATTACGAGT
* *
18941725 TAGTTTAATAAATGAACTAGTTTGA-TGAATGAAC
1 TAGTTTAATAAATGAACTAATTTGATTAAATGAAC
* * *
18941759 TAGTTTAATTAATGAGCTAATTTTATTAAATGAAC
1 TAGTTTAATAAATGAACTAATTTGATTAAATGAAC
18941794 TAG
1 TAG
18941797 ATGCATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (35 bp):
TAGTTTAATAAATGAACTAATTTGATTAAATGAAC
Found at i:18941805 original size:17 final size:17
Alignment explanation
Indices: 18941785--18941850 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
18941775 CTAATTTTAT
18941785 TAAATGAACTAGATGCA
1 TAAATGAACTAGATGCA
* * *
18941802 TAAATGAAGTAGCT-TA
1 TAAATGAACTAGATGCA
*
18941818 CTAAAT-AATCTAAATGCA
1 -TAAATGAA-CTAGATGCA
18941836 TAAATGAACTAGATG
1 TAAATGAACTAGATG
18941851 ATTTAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
16 3 0.08
17 31 0.84
18 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (17 bp):
TAAATGAACTAGATGCA
Found at i:18969446 original size:14 final size:14
Alignment explanation
Indices: 18969414--18969448 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18969404 ACCAGGACCA
*
18969414 TGCAACCCTCGACT
1 TGCAGCCCTCGACT
*
18969428 TGCAGCCCTTGACT
1 TGCAGCCCTCGACT
18969442 TGCAGCC
1 TGCAGCC
18969449 AATTTGGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.40, G:0.20, T:0.23
Consensus pattern (14 bp):
TGCAGCCCTCGACT
Found at i:18984115 original size:13 final size:13
Alignment explanation
Indices: 18984097--18984152 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
18984087 GTCATAAATC
*
18984097 TATGACGCGCATT
1 TATGACACGCATT
18984110 TATGACACGCATT
1 TATGACACGCATT
*
18984123 TAAGACA--CATT
1 TATGACACGCATT
*
18984134 TATGACACTCATT
1 TATGACACGCATT
18984147 TATGAC
1 TATGAC
18984153 GTGCATTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 10 0.26
13 28 0.74
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:18984159 original size:13 final size:13
Alignment explanation
Indices: 18984097--18984159 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
18984087 GTCATAAATC
18984097 TATGACGCGCATT
1 TATGACGCGCATT
*
18984110 TATGACACGCATT
1 TATGACGCGCATT
* *
18984123 TAAGA--CACATT
1 TATGACGCGCATT
* *
18984134 TATGACACTCATT
1 TATGACGCGCATT
*
18984147 TATGACGTGCATT
1 TATGACGCGCATT
18984160 AAGCATCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 9 0.22
13 31 0.77
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:18984323 original size:2 final size:2
Alignment explanation
Indices: 18984316--18984352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18984306 TTTTGTAAAT
18984316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18984353 TGTAGATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18995772 original size:89 final size:89
Alignment explanation
Indices: 18995621--18995801 Score: 308
Period size: 89 Copynumber: 2.0 Consensus size: 89
18995611 TCCCTTTTAA
* * ** * *
18995621 TTCAACATTTTCATTACTTTGAGTCAAACATGATTTTTCTTGATTTCTAACCTTCTTTTTCTTTA
1 TTCAACATTTTCATTAATTGGAGTCAAACATGATTTTTCTCAAATTCTAACCTCCTTTTTCTTTA
18995686 CACAAATTGTGAAAATACTAGGAT
66 CACAAATTGTGAAAATACTAGGAT
18995710 TTCAACATTTTCATTAATTGGAGTCAAACATGATTTTTCTCAAATTCTAACCTCCTTTTTCTTTA
1 TTCAACATTTTCATTAATTGGAGTCAAACATGATTTTTCTCAAATTCTAACCTCCTTTTTCTTTA
18995775 CACAAATTGTGAAAATACTAGGAT
66 CACAAATTGTGAAAATACTAGGAT
18995799 TTC
1 TTC
18995802 GAGACTAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (89 bp):
TTCAACATTTTCATTAATTGGAGTCAAACATGATTTTTCTCAAATTCTAACCTCCTTTTTCTTTA
CACAAATTGTGAAAATACTAGGAT
Found at i:19013225 original size:21 final size:20
Alignment explanation
Indices: 19013183--19013233 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
19013173 CCTTCCTCTT
19013183 AATATCGATACCTACACATC
1 AATATCGATACCTACACATC
*
19013203 AATATTGATA-CTACTAGCATC
1 AATATCGATACCTAC-A-CATC
19013224 AATATCGATA
1 AATATCGATA
19013234 TTGTTAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 10 0.37
21 13 0.48
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (20 bp):
AATATCGATACCTACACATC
Found at i:19014045 original size:2 final size:2
Alignment explanation
Indices: 19014038--19014070 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19014028 AACAACCGAT
19014038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19014071 CACATATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19016499 original size:16 final size:16
Alignment explanation
Indices: 19016477--19016519 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
19016467 CTAGTTTTTG
19016477 AAAATATAATAATAAA
1 AAAATATAATAATAAA
* *
19016493 TAAATATAATCATAAA
1 AAAATATAATAATAAA
*
19016509 AAAATAAAATA
1 AAAATATAATA
19016520 GACTGGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAATAATAAA
Found at i:19017443 original size:21 final size:20
Alignment explanation
Indices: 19017423--19017486 Score: 96
Period size: 21 Copynumber: 3.2 Consensus size: 20
19017413 CCCATTTTAT
*
19017423 TTATTTATTTATTGTTATTA
1 TTATTTATTTATTATTATTA
19017443 TTATTTTATTTATTATTATTA
1 TTA-TTTATTTATTATTATTA
19017464 TTA-TTA-TTATTATTATTA
1 TTATTTATTTATTATTATTA
19017482 TTATT
1 TTATT
19017487 ATTATTACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
18 15 0.37
19 4 0.10
20 3 0.07
21 19 0.46
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATTTATTTATTATTATTA
Found at i:19017445 original size:3 final size:3
Alignment explanation
Indices: 19017431--19017493 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
19017421 ATTTATTTAT
*
19017431 TTA TTG TTA TTA TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
19017476 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
19017494 CAAACAGGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19019078 original size:20 final size:19
Alignment explanation
Indices: 19019053--19019094 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
19019043 TTATTTTATA
19019053 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
19019073 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
19019092 AAT
1 AAT
19019095 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:19023038 original size:15 final size:15
Alignment explanation
Indices: 19023018--19023049 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19023008 GATCAATACC
19023018 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
19023033 TTTTGCATACATTCA
1 TTTTGCATACATGCA
19023048 TT
1 TT
19023050 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:19030398 original size:6 final size:5
Alignment explanation
Indices: 19030374--19030439 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 5
19030364 TATTATGCTT
*
19030374 GAAAA -AAAA TGAAAA -AAAA TGAAAA GAAAAA GAAAA -AAAA GAGAA
1 GAAAA GAAAA -GAAAA GAAAA -GAAAA G-AAAA GAAAA GAAAA GAAAA
19030419 GAAGAA GAAGAA -AAAA GAAAA
1 GAA-AA GAA-AA GAAAA GAAAA
19030440 AAGAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
4 14 0.27
5 16 0.31
6 21 0.41
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:19030440 original size:6 final size:6
Alignment explanation
Indices: 19030395--19030447 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
19030385 AAAAAAAATG
* * *
19030395 AAAAGA AAAAGA AAAA-A AAGAGA AGAAGA AGAAGAA AAAAGAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG-A AAAAG-A AAAAGA
19030444 AAAA
1 AAAA
19030448 AAAGGGGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.10
6 25 0.61
7 12 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:19030449 original size:10 final size:10
Alignment explanation
Indices: 19030374--19030450 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
19030364 TATTATGCTT
*
19030374 GAAAAAAAAT
1 GAAAAAAAAA
*
19030384 GAAAAAAAAT
1 GAAAAAAAAA
19030394 GAAAAGAAAAA
1 GAAAA-AAAAA
19030405 G-AAAAAAAA
1 GAAAAAAAAA
* *
19030414 GAGAAGAAGAA
1 GA-AAAAAAAA
*
19030425 GAAGAAAAAA
1 GAAAAAAAAA
19030435 GAAAAAAGAAA
1 GAAAAAA-AAA
19030446 -AAAAA
1 GAAAAA
19030451 GGGGGTCAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
9 6 0.11
10 34 0.61
11 16 0.29
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:19030845 original size:19 final size:17
Alignment explanation
Indices: 19030803--19030851 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
19030793 TATTTTCTCT
19030803 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
19030819 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
19030837 AAAATTCAACTTATT
1 -AAATTCAATTTATT
19030852 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:19031381 original size:114 final size:114
Alignment explanation
Indices: 19031173--19031397 Score: 369
Period size: 114 Copynumber: 2.0 Consensus size: 114
19031163 TGCCACGTTA
* * *
19031173 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGG
* * * * *
19031238 TTTGGTATGAACCCCAAAACTAATTATTAGATTTGAAAGATGAATTTGC
66 TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
19031287 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGG
*
19031352 TTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAATT
66 TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATT
19031398 GCATGATCGT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGG
TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
Found at i:19032293 original size:113 final size:111
Alignment explanation
Indices: 19032126--19032887 Score: 836
Period size: 113 Copynumber: 6.7 Consensus size: 111
19032116 TGCCAGTTAG
*
19032126 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
19032191 AACTTTTTGTTTGAATTCATCATTCGATGGATCATCACTTCAAAAGAA
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCA-TTC-CAAGAA
* * **
19032239 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
19032304 AACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCATT-CCAAG-AA
* * * *
19032352 AGTTTATAATGAGAAGAACTTGTTATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTT
1 AGTTCATAATGAGAAGAAC---TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * *
19032416 TTCAACCTTTTG-CTCAGATCCATCACTT-GATGGATCAGCTTTTCCAGAGAA
63 TTCAACCTTTTGTTTGA-ATTCATCA-TTCGATGGATCAGC-ATTCCA-AGAA
*
19032467 AGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
19032532 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCATT-CCAAG-AA
* *
19032580 AGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
19032645 AACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCC-AGAA
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGC-ATTCCAAGAA
*
19032691 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAA-AATTTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTTGTT
* * * ** *
19032754 CAACCTTTT-TCATGACTTTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
65 CAACCTTTTGT-TTGAATTCATCAT-----TCGATGGATCAG---C-A---TTCCA-AGAA
* * **
19032814 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
19032879 GACCTTTTG
66 AACCTTTTG
19032888 CATGACTCTA
Statistics
Matches: 554, Mismatches: 62, Indels: 54
0.83 0.09 0.08
Matches are distributed among these distances:
109 3 0.01
110 48 0.09
111 28 0.05
112 19 0.03
113 275 0.50
114 6 0.01
115 86 0.16
116 15 0.03
118 1 0.00
121 4 0.01
123 32 0.06
124 36 0.06
125 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCATTCCAAGAA
Found at i:19032482 original size:228 final size:226
Alignment explanation
Indices: 19032087--19032762 Score: 983
Period size: 228 Copynumber: 3.0 Consensus size: 226
19032077 TTAGCAAAGA
* ** * * *
19032087 TTTAAATCCATCATTCAATGGATCAACAGTGCCAGTTAGAGTTCATAATGAGAAGAACT-CATCT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTGTATCT
* *
19032151 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTC
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTC
* ** * *
19032216 GATGGATCATCACTTCAAAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAAAAGAAG
131 GATGGATCAACTTTTC-CAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAG
**
19032281 TTCATAATGAGAAGAGCTTGTTCAACCTTTTG
195 TTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
19032313 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTTATAATGAGAAGAACTTGTTAT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAAC-TG-TAT
* * * * *
19032378 CTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTG-CTCAGATCCATCA
64 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGA-ATTCATCA
* * *
19032441 CTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAA
128 -TTCGATGGATCAACTTTTCCA-AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAA
19032505 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
191 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
* *
19032541 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCG--TC
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT-GTATC
19032604 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATT
65 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATT
19032669 CGATGGATCAACTTTTCC-AGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAG
130 CGATGGATCAACTTTTCCAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAG
19032732 TTCATAATGAGAA-AATTTTGTTCAACCTTTT
195 TTCATAATGAGAAGAA-TTTGTTCAACCTTTT
19032763 TCATGACTTT
Statistics
Matches: 405, Mismatches: 34, Indels: 25
0.87 0.07 0.05
Matches are distributed among these distances:
222 2 0.00
223 39 0.10
224 32 0.08
225 9 0.02
226 117 0.29
227 7 0.02
228 189 0.47
229 10 0.02
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (226 bp):
TTTAAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTGTATCT
GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTC
GATGGATCAACTTTTCCAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:19032795 original size:341 final size:339
Alignment explanation
Indices: 19032126--19032887 Score: 1020
Period size: 341 Copynumber: 2.2 Consensus size: 339
19032116 TGCCAGTTAG
*
19032126 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
19032191 AACTTTTTGTTTGAATTCATCATTCGATGGATCATCACTTCAAAAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCACTTCAAAAGAAAGTTCATAATGAGAAGA
* * *
19032256 ACTTATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATT
131 ACTCATCTGAAGAAGGAAAAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATT
* * *
19032321 CATCATTTGATGGATCAACATTGCCAGGTAGAGTTTATAATGAGAAGAACTTGTTATCTGAAGAG
196 CATCATTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAAC-T-TTATCTGAAGAG
* *
19032386 GAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGCTCAGATCCATCACTTGATGGAT
259 GAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTT-CTCAGATCCATCACTAGATAGAT
19032451 CAG-CTTTTCCAGAGAA
323 CAGACTTTTCCAGAGAA
* *
19032467 AGTTCATAATGAGAAGAACTCATCTGAAGAACGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
19032532 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCA-TTGC-CAGGTAGAGTTCATAATGAGAA
66 AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCACTT-CAAAAG-AAAGTTCATAATGAGAA
* * * * *
19032595 GAACTCGTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAA
129 GAACTCATCTGAAGAAGGAAAAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAA
* *
19032660 TTCATCATTCGATGGATCAACTTTTCCA-G-AAAGTTCATAATGAGAAGAAC-TTATCTGAAGAG
194 TTCATCATTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTTTATCTGAAGAG
* **
19032722 GAAGAAGAAGTTCATAATGAGAA-AATTTTGTTCAACCTTTT-TCATGACTTTATCA-TAGAAGG
259 GAAGAAGAAATTCATAATGAGAAGAATTTT-TTCAACCTTTTCTCA-GA-TCCATCACT------
19032784 AGATAGATCAGCATCAACTTTTCCAGAGAA
315 AGATAGATCAG-----ACTTTTCCAGAGAA
* *
19032814 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
19032879 GACCTTTTG
66 AACCTTTTG
19032888 CATGACTCTA
Statistics
Matches: 373, Mismatches: 31, Indels: 28
0.86 0.07 0.06
Matches are distributed among these distances:
334 3 0.01
335 9 0.02
336 50 0.13
339 19 0.05
340 5 0.01
341 205 0.55
347 82 0.22
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (339 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGTTTGAATTCATCATTCGATGGATCAGCACTTCAAAAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAAAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATT
CATCATTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTTTATCTGAAGAGGA
AGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTCTCAGATCCATCACTAGATAGATCAG
ACTTTTCCAGAGAA
Found at i:19032892 original size:124 final size:123
Alignment explanation
Indices: 19032675--19033031 Score: 446
Period size: 124 Copynumber: 2.9 Consensus size: 123
19032665 CATTCGATGG
* * *
19032675 ATCAACTTTTCC-AGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACA
* ** * * *
19032738 ATGAGAAAATTTTGTTCAACCTTTTTCATGACTTTATCATAGAAGGAGATAGATCAGC
66 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
19032796 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAC
1 ATCAACTTTTCCA-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAC
* * *
19032861 AATGAGAAGAGCTTGTTCGACCTTTTGCATGACTCTATCACAGAAGGAGATATATCATC
65 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
19032920 ATCAGCATTTCCACA-AGGAGTTCACAATGAGAAGAACTCATCTG-A-AAA-AA-AAGAAGTTCA
1 ATCAACTTTTCCA-AGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCA
*
19032980 CAATGAGAAGAGCTTGTTCAACC-TTTGC-TAGATTAC-ATCACAGAAGGAGATA
64 CAATGAGAAGAGCTTGTTCAACCTTTTGCAT-GACT-CTATCACAGAAGGAGATA
19033032 AATTGTCATC
Statistics
Matches: 211, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
118 1 0.00
119 24 0.11
120 33 0.16
121 14 0.07
122 3 0.01
123 34 0.16
124 102 0.48
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (123 bp):
ATCAACTTTTCCAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACA
ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:19033253 original size:3 final size:3
Alignment explanation
Indices: 19033239--19033315 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
19033229 ATTTATTTAT
*
19033239 TTA TTG TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19033286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19033316 CAAATAGGCT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19034892 original size:20 final size:19
Alignment explanation
Indices: 19034867--19034908 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
19034857 TTATTTTATA
19034867 AATTATATATTAATTATTTT
1 AATTATATATTAATT-TTTT
* *
19034887 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
19034906 AAT
1 AAT
19034909 ATCAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:19039116 original size:77 final size:79
Alignment explanation
Indices: 19039021--19039165 Score: 183
Period size: 77 Copynumber: 1.9 Consensus size: 79
19039011 AAAAAATCTG
*
19039021 ATTTAATTAATTCAAATTAAATATAC-ATT-AAAGACTTATAATCTGAA-TTACAATC-TTTAAT
1 ATTTAATTAATTCAAATTAAATAT-CGATTAAAAGACTTATAATC-AAATTTACAATCTTTTAAT
19039082 GTTTATTTAAACTCTT
64 GTTTATTTAAACTCTT
* * * *
19039098 ATTTAATT-ATTCCGAATTAAATATCGATTAAAAGAGTTGTAATCAAATTTACATTCTTTTAATG
1 ATTTAATTAATT-CAAATTAAATATCGATTAAAAGACTTATAATCAAATTTACAATCTTTTAATG
19039162 TTTA
65 TTTA
19039166 CTTACTATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
76 4 0.07
77 24 0.41
78 19 0.33
79 11 0.19
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (79 bp):
ATTTAATTAATTCAAATTAAATATCGATTAAAAGACTTATAATCAAATTTACAATCTTTTAATGT
TTATTTAAACTCTT
Found at i:19041894 original size:40 final size:40
Alignment explanation
Indices: 19041839--19041916 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
19041829 GGCACTTCGA
* *
19041839 TGCAAATCTATGTGGTCTTTCCGGACAAATAGGTGGTAGG
1 TGCAAACCTATGTGGTCCTTCCGGACAAATAGGTGGTAGG
* * *
19041879 TGCAAACCTATGTGGTCCTTCGGGACAATTATGTGGTA
1 TGCAAACCTATGTGGTCCTTCCGGACAAATAGGTGGTA
19041917 CTTCGGTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (40 bp):
TGCAAACCTATGTGGTCCTTCCGGACAAATAGGTGGTAGG
Found at i:19041912 original size:21 final size:21
Alignment explanation
Indices: 19041887--19041927 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19041877 GGTGCAAACC
*
19041887 TATGTGGTCCTTCGGGACAAT
1 TATGTGGTACTTCGGGACAAT
*
19041908 TATGTGGTACTTCGGTACAA
1 TATGTGGTACTTCGGGACAA
19041928 ATTACGAGCT
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:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (21 bp):
TATGTGGTACTTCGGGACAAT
Found at i:19046432 original size:2 final size:2
Alignment explanation
Indices: 19046425--19046475 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
19046415 TTTCCTTCAT
19046425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19046467 TA TA TA TA T
1 TA TA TA TA T
19046476 CGTTTTTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19058971 original size:12 final size:12
Alignment explanation
Indices: 19058956--19058980 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19058946 TTTTATTTGC
19058956 ATTATTATTACT
1 ATTATTATTACT
19058968 ATTATTATTACT
1 ATTATTATTACT
19058980 A
1 A
19058981 AATTTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:19063138 original size:21 final size:22
Alignment explanation
Indices: 19063112--19063152 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19063102 CATATTAAAG
19063112 AATTTAAGA-TCAAGAATCAGA
1 AATTTAAGATTCAAGAATCAGA
*
19063133 AATTTAAGATTCCAGAATCA
1 AATTTAAGATTCAAGAATCA
19063153 AGAAGACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (22 bp):
AATTTAAGATTCAAGAATCAGA
Found at i:19063627 original size:37 final size:35
Alignment explanation
Indices: 19063586--19063673 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
19063576 ACAAGGGGTC
19063586 GTCTCGCTTGAGACTAATTTAC-TCAAAACAAAGTTTT
1 GTCTC-CTTGAGAC-AATTTACATCAAAACAAA-TTTT
* * **
19063623 GTCTCCTTCGAGACAGTTTCCATTGAAACAAATTTT
1 GTCTCCTT-GAGACAATTTACATCAAAACAAATTTT
19063659 GTCTCTCTTGAGACA
1 GTCTC-CTTGAGACA
19063674 GTTTCCCTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 23 0.52
37 21 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (35 bp):
GTCTCCTTGAGACAATTTACATCAAAACAAATTTT
Found at i:19063672 original size:36 final size:37
Alignment explanation
Indices: 19063611--19064000 Score: 152
Period size: 36 Copynumber: 11.1 Consensus size: 37
19063601 AATTTACTCA
19063611 AAACAAAGTTTTGTCTCCTTCGAGACAGTTTCCATTG
1 AAACAAAGTTTTGTCTCCTTCGAGACAGTTTCCATTG
*
19063648 AAACAAA-TTTTGTCTCTCTT-GAGACAGTTTCCCTTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTCCATTG
* * * *
19063684 AAATAAA-----ATCT--TT--AAATCTGTTTTCC-TTG
1 AAACAAAGTTTTGTCTCCTTCGAGA-CAG-TTTCCATTG
**
19063713 AAACAAA-TTTCATCTCCCTT-GAGACAGTTTCTCA-TG
1 AAACAAAGTTTTGTCT-CCTTCGAGACAGTTTC-CATTG
*
19063749 AAACAAA-TTTTGTCTCTCTT-GAGACAGTTTCCCTTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTCCATTG
* * *
19063785 AACCAAA-TTTTATCTCTCTT-GAGACAGGTTCTC-TTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTC-CATTG
* * *
19063821 AAACAAA-----ATCT--TT-GA-ATCTGTTTTCCA-TA
1 AAACAAAGTTTTGTCTCCTTCGAGA-CAG-TTTCCATTG
** * * **
19063850 AAATTAA-TTTCGTCTCCCTTC-AGATAGTTTCTTTTG
1 AAACAAAGTTTTGTCT-CCTTCGAGACAGTTTCCATTG
* * **
19063886 GAACTAAGTTTTGTCTCTCTT-GAGACAGTTTCTTTTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTCCATTG
*
19063923 AAACAAA-TTTTGTCTCTCTT-GAGACAGTTTCCCTTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTCCATTG
*
19063959 AAACAAAGTTTTGTCTCTCTT-AAGACAGTTTCTC-TTG
1 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTC-CATTG
19063996 AAACA
1 AAACA
19064001 TCAATCTTTG
Statistics
Matches: 284, Mismatches: 35, Indels: 68
0.73 0.09 0.18
Matches are distributed among these distances:
28 3 0.01
29 26 0.09
30 8 0.03
32 7 0.02
33 7 0.02
35 10 0.04
36 148 0.52
37 74 0.26
38 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
AAACAAAGTTTTGTCTCCTTCGAGACAGTTTCCATTG
Found at i:19063786 original size:137 final size:137
Alignment explanation
Indices: 19063611--19063965 Score: 496
Period size: 137 Copynumber: 2.6 Consensus size: 137
19063601 AATTTACTCA
19063611 AAACAAAGTTTTGTCTC-CTTCGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAG
1 AAACAAA-TTTTGTCTCTCTT-GAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
19063675 TTTCCCTTGAAATAAAATCTTTAAATCTGTTTTCCTTGAAACAAATTTCATCTCCCTTGAGACAG
64 TTTCCCTTGAAACAAAATCTTTAAATCTGTTTTCCATAAAACAAATTTCATCTCCCTTCAGACAG
19063740 TTTCTCATG
129 TTTCTCATG
* * * *
19063749 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAACCAAATTTTATCTCTCTTGAGACAGGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * ** * *
19063814 TCTCTTGAAACAAAATCTTTGAATCTGTTTTCCATAAAATTAATTTCGTCTCCCTTCAGATAGTT
66 TCCCTTGAAACAAAATCTTTAAATCTGTTTTCCATAAAACAAATTTCATCTCCCTTCAGACAGTT
**
19063879 TCTTTTG
131 TCTCATG
* * **
19063886 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGT
19063951 TTCCCTTGAAACAAA
65 TTCCCTTGAAACAAA
19063966 GTTTTGTCTC
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
137 113 0.59
138 78 0.41
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCCCTTGAAACAAAATCTTTAAATCTGTTTTCCATAAAACAAATTTCATCTCCCTTCAGACAGTT
TCTCATG
Found at i:19063916 original size:37 final size:36
Alignment explanation
Indices: 19063861--19064000 Score: 181
Period size: 37 Copynumber: 3.8 Consensus size: 36
19063851 AATTAATTTC
* * * *
19063861 GTCTCCCTTCAGATAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAAC-AAGTTTT
*
19063898 GTCTCTCTTGAGACAGTTTCTTTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAACAAGTTTT
**
19063934 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAAC-AAGTTTT
* *
19063971 GTCTCTCTTAAGACAGTTTCTCTTGAAACA
1 GTCTCTCTTGAGACAGTTTCTTTTGAAACA
19064001 TCAATCTTTG
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
36 34 0.37
37 58 0.63
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
GTCTCTCTTGAGACAGTTTCTTTTGAAACAAGTTTT
Found at i:19063974 original size:73 final size:73
Alignment explanation
Indices: 19063855--19064000 Score: 202
Period size: 73 Copynumber: 2.0 Consensus size: 73
19063845 CCATAAAATT
* ** * * * *
19063855 AATTTCGTCTCCCTTCAGATAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 AATTTCGTCTCCCTTCAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCTC
19063920 TTGAAACA
66 TTGAAACA
* * *
19063928 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCTC
1 AATTTCGTCTCCCTTCAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCTC
19063993 TTGAAACA
66 TTGAAACA
19064001 TCAATCTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (73 bp):
AATTTCGTCTCCCTTCAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCTC
TTGAAACA
Found at i:19064116 original size:36 final size:35
Alignment explanation
Indices: 19064053--19064141 Score: 137
Period size: 36 Copynumber: 2.6 Consensus size: 35
19064043 CCTTGAGATA
*
19064053 GTTTCTCTTGAAACAC--AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT
19064086 GTTTCTCTTGAAACACAAAAAAAAGCCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAA-CCTTTGAAAAT
*
19064122 GTTTATCTTGAAACACAAAA
1 GTTTCTCTTGAAACACAAAA
19064142 CCTTTTAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
33 16 0.31
35 6 0.12
36 29 0.57
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT
Found at i:19065501 original size:12 final size:12
Alignment explanation
Indices: 19065484--19065508 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19065474 TTTCATTTGC
19065484 ATTATTATTACT
1 ATTATTATTACT
19065496 ATTATTATTACT
1 ATTATTATTACT
19065508 A
1 A
19065509 AATTTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:19068097 original size:24 final size:24
Alignment explanation
Indices: 19068065--19068110 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19068055 ATTATCCTGT
19068065 AAGTGCTTACGATCTAATTTTACA
1 AAGTGCTTACGATCTAATTTTACA
19068089 AAGTGCTTACGATCTAATTTTA
1 AAGTGCTTACGATCTAATTTTA
19068111 TAGTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (24 bp):
AAGTGCTTACGATCTAATTTTACA
Found at i:19074587 original size:21 final size:19
Alignment explanation
Indices: 19074556--19074595 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
19074546 GATTGCAAAG
19074556 TTTTCCCCAGTATCGATAC
1 TTTTCCCCAGTATCGATAC
19074575 TTTTACCCTCAGTATCGATAC
1 TTTT-CCC-CAGTATCGATAC
19074596 CAGGATGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (19 bp):
TTTTCCCCAGTATCGATAC
Found at i:19079573 original size:15 final size:15
Alignment explanation
Indices: 19079555--19079599 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
19079545 TATAATCATT
19079555 AATAAATAAATATTA
1 AATAAATAAATATTA
19079570 AATAAATAAAT-TTA
1 AATAAATAAATATTA
* *
19079584 ATTTAA-AAATATTA
1 AATAAATAAATATTA
19079598 AA
1 AA
19079600 ATCTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 11 0.42
15 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAATAAATATTA
Found at i:19080328 original size:3 final size:3
Alignment explanation
Indices: 19080320--19080396 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
19080310 TAGTTTACAC
**
19080320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
19080365 TTA TTT TTA TTA CTA TTC TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19080397 CATGTATACA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 4 0.07
3 55 0.90
4 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19086921 original size:25 final size:24
Alignment explanation
Indices: 19086879--19086928 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
19086869 AATTATTTCA
19086879 TATTTTTATTATTAAAATAATATTT
1 TATTTTTATTATTAAAAT-ATATTT
*
19086904 TATTTTTATT-TATCAAATATATTT
1 TATTTTTATTAT-TAAAATATATTT
19086928 T
1 T
19086929 GTACTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTATTATTAAAATATATTT
Found at i:19087740 original size:15 final size:15
Alignment explanation
Indices: 19087722--19087755 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19087712 TAAAAAAATA
*
19087722 AATTTTAAAAATTGT
1 AATTTGAAAAATTGT
*
19087737 AATTTGAAAATTTGT
1 AATTTGAAAAATTGT
19087752 AATT
1 AATT
19087756 ATTACAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
AATTTGAAAAATTGT
Found at i:19094619 original size:2 final size:2
Alignment explanation
Indices: 19094612--19094650 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19094602 AGCATCATAG
19094612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19094651 TATCAGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19099734 original size:36 final size:36
Alignment explanation
Indices: 19099616--19099821 Score: 124
Period size: 34 Copynumber: 5.8 Consensus size: 36
19099606 CTCATGTCGG
* *
19099616 GAAAATATCTCGAGTGCGAT-AAATTT-TTTCAACA
1 GAAAATATCTCAAGTGAGATGAAATTTATTTCAACA
* * *
19099650 GAAAATATGTC-AGTTCAGAT-ATAATTTTTTGTTTC-A-A
1 GAAAATATCTCAAG-TGAGATGA-AA---TTTATTTCAACA
*
19099687 GAAAGCTATCTCAAGTGAGATGAAATTTATTTCAACA
1 GAAA-ATATCTCAAGTGAGATGAAATTTATTTCAACA
* * *
19099724 GAAAATATCTCAAGTGAGATAAAATTTTATTTCGAGA
1 GAAAATATCTCAAGTGAGATGAAA-TTTATTTCAACA
* * * * **
19099761 GAAACTACCTCGAGTGAGTTGAAA---AGTTTCAAGG
1 GAAAATATCTCAAGTGAGATGAAATTTA-TTTCAACA
* *
19099795 GAAAATATTTCAAGTGAGATGCAATTT
1 GAAAATATCTCAAGTGAGATGAAATTT
19099822 TTGTTTTAAG
Statistics
Matches: 132, Mismatches: 24, Indels: 29
0.71 0.13 0.16
Matches are distributed among these distances:
33 3 0.02
34 39 0.30
35 9 0.07
36 19 0.14
37 39 0.30
38 16 0.12
39 7 0.05
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (36 bp):
GAAAATATCTCAAGTGAGATGAAATTTATTTCAACA
Found at i:19099916 original size:73 final size:73
Alignment explanation
Indices: 19099822--19100031 Score: 282
Period size: 73 Copynumber: 2.9 Consensus size: 73
19099812 GATGCAATTT
* *
19099822 TTGTTTTAAGGGAAACTATCTCAAGCGAGATAAAATTTTTGTTTCGAGAGTAGCTGTCTCGAGTG
1 TTGTTTTAAGGAAAACTATCTCAAGCGAGATAAAA-TTTTGTTTCGAGAGAAGCTGTCTCGAGTG
19099887 AAACAAAAC
65 AAACAAAAC
* * * * *
19099896 TTGTTTTAA-GAAAACTATCTCAAGTGAGATATAACTTTTGTTTTGAAAGAAACTGTCTCGAGTG
1 TTGTTTTAAGGAAAACTATCTCAAGCGAGATA-AAATTTTGTTTCGAGAGAAGCTGTCTCGAGTG
*
19099960 AGACAAAAC
65 AAACAAAAC
* * *
19099969 TT-TTTTAAGGAAAACTATCTCAAGCGAGATGAAATTTTGTTTCGAGTGAAGCTG-CTTGAGTGA
1 TTGTTTTAAGGAAAACTATCTCAAGCGAGATAAAATTTTGTTTCGAGAGAAGCTGTCTCGAGTGA
19100032 GACGAAATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
71 8 0.07
72 24 0.20
73 75 0.64
74 11 0.09
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (73 bp):
TTGTTTTAAGGAAAACTATCTCAAGCGAGATAAAATTTTGTTTCGAGAGAAGCTGTCTCGAGTGA
AACAAAAC
Found at i:19099932 original size:35 final size:35
Alignment explanation
Indices: 19099678--19099998 Score: 127
Period size: 38 Copynumber: 8.9 Consensus size: 35
19099668 ATATAATTTT
* * * *
19099678 TTGTTTCAAGAAAGCTATCTCAAGTGAGATGAAAT
1 TTGTTTTAAGAAAACTATCTCAAGTGAGATAAAAC
* *
19099713 TTATTTCAACAGAAAA-TATCTCAAGTGAGATAAAA-
1 TTGTTT-TA-AGAAAACTATCTCAAGTGAGATAAAAC
* * * * *
19099748 TTTTATTTCGAGAGAAACTACCTCGAGTGAGTTGAAAA-
1 TTGT-TTT-AAGA-AAACTATCTCAAGTGAGAT-AAAAC
* * ***
19099786 --GTTTCAAGGGAAAA-TATTTCAAGTGAGATGCAATTT
1 TTGTTTTAA--GAAAACTATCTCAAGTGAGAT--AAAAC
* * *
19099822 TTGTTTTAAGGGAAACTATCTCAAGCGAGATAAAATTT
1 TTGTTTTAA-GAAAACTATCTCAAGTGAGATAAAA--C
** * * * * * *
19099860 TTGTTTCGAGAGTAGCTGTCTCGAGTGAAACAAAAC
1 TTGTTTTAAGA-AAACTATCTCAAGTGAGATAAAAC
*
19099896 TTGTTTTAAGAAAACTATCTCAAGTGAGATATAAC
1 TTGTTTTAAGAAAACTATCTCAAGTGAGATAAAAC
* * *
19099931 TTTTGTTTTGAA-AGAAACTGTCTCGAGTGAGACAAAAC
1 --TTGTTTT-AAGA-AAACTATCTCAAGTGAGATAAAAC
*
19099969 TT-TTTTAAGGAAAACTATCTCAAGCGAGAT
1 TTGTTTTAA-GAAAACTATCTCAAGTGAGAT
19099999 GAAATTTTGT
Statistics
Matches: 209, Mismatches: 54, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
34 14 0.07
35 54 0.26
36 41 0.20
37 31 0.15
38 69 0.33
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
TTGTTTTAAGAAAACTATCTCAAGTGAGATAAAAC
Found at i:19104726 original size:132 final size:132
Alignment explanation
Indices: 19104440--19104726 Score: 317
Period size: 132 Copynumber: 2.2 Consensus size: 132
19104430 TCATTGACAT
* * * *
19104440 AACTCCTTCTGTAAAGGATCAAGTAACATGAAAAATGTTGATCCAACTCCTTCTGTGAAGAATCA
1 AACTCCTTCTGTAAAGGATCAAGCAAAATGAAAAATATTGATCCAACTACTTCTGTGAAGAATCA
* * * *
19104505 AAACAATTGCCAACACTGATCTACCTCCTTTTATGATAGAATCGAATAAAATAAGGTTATGCTGA
66 AAACAATT-CCAACACTGATCTACCTCCTTCTACGATAGAATCGAACAAAATAAGGTTATACTGA
*
19104570 TTC
130 TCC
* * * * * *
19104573 AACTCCTTCTATTAAGAATCAAGCAAAATG-AAATTATTGATTCAACTATTTCTGTGAAGAATCA
1 AACTCCTTCTGTAAAGGATCAAGCAAAATGAAAAATATTGATCCAACTACTTCTGTGAAGAATCA
* * ** * * *
19104637 AACAGAATAT-CGACGTTGATCTACCTTCTTCTACGATAGAATCGAGCAAAATAAGGTTATATTG
66 AA-ACAAT-TCCAACACTGATCTACCTCCTTCTACGATAGAATCGAACAAAATAAGGTTATACTG
19104701 ATCC
129 ATCC
**
19104705 AACTCCTTCTGCGAAGGATCAA
1 AACTCCTTCTGTAAAGGATCAA
19104727 ACGAAAAATT
Statistics
Matches: 126, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
132 96 0.76
133 29 0.23
134 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (132 bp):
AACTCCTTCTGTAAAGGATCAAGCAAAATGAAAAATATTGATCCAACTACTTCTGTGAAGAATCA
AAACAATTCCAACACTGATCTACCTCCTTCTACGATAGAATCGAACAAAATAAGGTTATACTGAT
CC
Found at i:19105312 original size:23 final size:23
Alignment explanation
Indices: 19105284--19105334 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
19105274 CTTATATTTT
*
19105284 TCTTTCT-TTCTTTTTGGTCTTTC
1 TCTTTCTCTT-TTTTTAGTCTTTC
*
19105307 TCTTTCTCTTTTTTTAGTCTTTG
1 TCTTTCTCTTTTTTTAGTCTTTC
19105330 TCTTT
1 TCTTT
19105335 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.02, C:0.20, G:0.08, T:0.71
Consensus pattern (23 bp):
TCTTTCTCTTTTTTTAGTCTTTC
Found at i:19107425 original size:21 final size:20
Alignment explanation
Indices: 19107376--19107444 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
19107366 GCAAAAATAA
*
19107376 TATCGATACCATAACAT-TG
1 TATCGATACCATAATATGTG
19107395 TATC-AGTACCATAATATGTAG
1 TATCGA-TACCATAATATGT-G
** *
19107416 TATCGATACCATGGTATGGG
1 TATCGATACCATAATATGTG
19107436 TATCGATAC
1 TATCGATAC
19107445 TGAGGAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 11 0.26
21 15 0.36
22 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (20 bp):
TATCGATACCATAATATGTG
Found at i:19107828 original size:55 final size:55
Alignment explanation
Indices: 19107744--19108784 Score: 1331
Period size: 55 Copynumber: 18.9 Consensus size: 55
19107734 GCGATGATAG
* * * *
19107744 GCACTAAGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
19107799 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
** * * * *
19107854 GCACTATGTGTGTGAATGCACAAAATTTATCATGAGTTGATGAATAACCGTACAA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * *
19107909 GTACTATGTGTGAAAATCCAC-ATAATTCATCATGAGCTGATGAATAACCGTACAA
1 GCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAT
* * * * * * *
19107964 ACACTATGTGTGCGAATCCACGGAATTTATCATGTGTTGATGAATAATCGTATAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * **
19108019 GCACTATGTGTGCGAATCCACGTAATTCATCATGAGTTGATGAATAACATTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* ** * *
19108074 GCACTATGTATGTGAATCTACGGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
19108129 GCACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATAAATAATCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* ** * * *
19108184 GTACTACATGTGCAAATCCACGAAATTCATCATGAGTAGTTGAATAACCGTACAG
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * *
19108239 GCATTATGTGTACAAATCCATGAAATTCATCATGAGTTGATGAATAAACGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
*
19108294 GCACTATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
19108349 GCACTATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCATACAG
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * *
19108404 GCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGTTGAATAACCGTATA-
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * *
19108458 GACACTATGTGTGGAAATTCACGTAATTCATCATGAGTTGACGAATAACCGTACAT
1 G-CACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
*
19108514 GCACTTTGTGTGCAAATCCAC-AGAATTCATCATGAGTTGATGAATAACCGTACA-
1 GCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAT
* * *
19108568 GACACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAG
1 G-CACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
19108624 GAACTATGTGTACAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * **
19108679 GCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACTATACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * * * *
19108734 GAACCATGTGTAC-AA-CCCCCAGAATTTATCATGAGTTGATGAACT-ACCGTA
1 GCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAA-TAACCGTA
19108785 TAGGCAATAC
Statistics
Matches: 861, Mismatches: 115, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.00
54 29 0.03
55 828 0.96
56 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (55 bp):
GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
Found at i:19109166 original size:44 final size:45
Alignment explanation
Indices: 19109046--19109221 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
19109036 ATAACAACGC
* *
19109046 ATAATGGTGTATAAAATGCATGAAAGGATGCCATAAATGAAATAT
1 ATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGT
*
19109091 ATAATGGTGTATAAAAGGCATGAAAGGATGCCACAAATGAAATGT
1 ATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGT
** *
19109136 ATAAT-GTGTATAAAAGGCATGAAAATATGCCGTAAATGAAATGT
1 ATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGT
* * *
19109180 ATAGTGGTGTATAAAAGGCATGGAAGGATG-TATAAATGAAAT
1 ATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAAT
19109222 TAATAAATAA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 49 0.42
45 68 0.58
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGT
Found at i:19109207 original size:89 final size:90
Alignment explanation
Indices: 19109046--19109209 Score: 258
Period size: 89 Copynumber: 1.8 Consensus size: 90
19109036 ATAACAACGC
* *
19109046 ATAATGGTGTATAAAATGCATGAAAGGATGCCATAAATGAAATATATAATGGTGTATAAAAGGCA
1 ATAATGGTGTATAAAAGGCATGAAAAGATGCCATAAATGAAATATATAATGGTGTATAAAAGGCA
19109111 TGAAAGGATGCCACAAATGAAATGT
66 TGAAAGGATGCCACAAATGAAATGT
* * * *
19109136 ATAAT-GTGTATAAAAGGCATGAAAATATGCCGTAAATGAAATGTATAGTGGTGTATAAAAGGCA
1 ATAATGGTGTATAAAAGGCATGAAAAGATGCCATAAATGAAATATATAATGGTGTATAAAAGGCA
*
19109200 TGGAAGGATG
66 TGAAAGGATG
19109210 TATAAATGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 62 0.93
90 5 0.07
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (90 bp):
ATAATGGTGTATAAAAGGCATGAAAAGATGCCATAAATGAAATATATAATGGTGTATAAAAGGCA
TGAAAGGATGCCACAAATGAAATGT
Found at i:19119967 original size:3 final size:3
Alignment explanation
Indices: 19119959--19119999 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
19119949 TTTTTCACCA
*
19119959 TAT TAT TAT TAT TAT TAT TA- TAT ATAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
19120000 AATTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:19120000 original size:9 final size:9
Alignment explanation
Indices: 19119959--19120004 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
19119949 TTTTTCACCA
*
19119959 TATTATTAT
1 TATTAATAT
*
19119968 TATTATTAT
1 TATTAATAT
19119977 TA-TATATAT
1 TATTA-ATAT
19119986 TATTAATAT
1 TATTAATAT
19119995 TATTAA-AT
1 TATTAATAT
19120003 TA
1 TA
19120005 AATATTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 6 0.18
9 26 0.76
10 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTAATAT
Found at i:19121441 original size:28 final size:25
Alignment explanation
Indices: 19121380--19121441 Score: 61
Period size: 28 Copynumber: 2.3 Consensus size: 25
19121370 ATATATCTAA
* *
19121380 TTTATTATTTTAATTATTATTCTAT
1 TTTATTATTTTAATTATTAATATAT
19121405 TTATCATTATTTTTAATTATATAAATATAT
1 TT-T-ATTA-TTTTAATTAT-T-AATATAT
19121435 TTTATTA
1 TTTATTA
19121442 ATATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
26 1 0.03
27 4 0.13
28 14 0.47
29 2 0.07
30 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTATTTTAATTATTAATATAT
Found at i:19122601 original size:8 final size:8
Alignment explanation
Indices: 19122588--19122623 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
19122578 CATGATGTAT
19122588 TCAAAACA
1 TCAAAACA
19122596 TCAAAACA
1 TCAAAACA
19122604 TCAAAACA
1 TCAAAACA
19122612 TCAAAACA
1 TCAAAACA
19122620 TCAA
1 TCAA
19122624 CAAGAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (8 bp):
TCAAAACA
Found at i:19122954 original size:45 final size:45
Alignment explanation
Indices: 19122886--19123559 Score: 1105
Period size: 45 Copynumber: 15.0 Consensus size: 45
19122876 GTACTTCTCA
* * * * *
19122886 CATCTGTAAGCCCTTTAGAGCATGATGTCTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* * **
19122931 CATCTGTAAGCCCTTCAGTGCATGATGTCATCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
*
19122976 CATCTGTAAGTCCTTCAGTGCTTGATGTCTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
*
19123021 CATCTGTAAGTCCTTTAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* * *
19123066 CATCTGTAAGCCCTTCAGCGCTTGATGTCTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
19123111 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* *
19123156 CATCTGTAAGCCCTTCAGTACTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
*
19123201 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* *
19123246 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACTTTCCGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
*
19123291 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
19123336 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* *
19123381 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
*
19123426 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* *
19123471 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* *
19123516 CATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAACCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGG
19123560 AGCTTTTTGA
Statistics
Matches: 598, Mismatches: 31, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 598 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (45 bp):
CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
Found at i:19123775 original size:3 final size:3
Alignment explanation
Indices: 19123767--19123795 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19123757 TTTTTCACCA
19123767 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19123796 AATTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19125181 original size:25 final size:29
Alignment explanation
Indices: 19125152--19125213 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 29
19125142 TTTCATTATC
19125152 AATTATATA-TCTAATT-T-ATTA-TTTT
1 AATTATATATTCTAATTATCATTATTTTT
*
19125177 AATTAT-TATTCTATTTATCATTATTTTT
1 AATTATATATTCTAATTATCATTATTTTT
19125205 AATTATATA
1 AATTATATA
19125214 AATATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 2 0.06
25 12 0.39
26 1 0.03
27 4 0.13
28 10 0.32
29 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
AATTATATATTCTAATTATCATTATTTTT
Found at i:19125227 original size:28 final size:25
Alignment explanation
Indices: 19125166--19125227 Score: 61
Period size: 28 Copynumber: 2.3 Consensus size: 25
19125156 ATATATCTAA
* *
19125166 TTTATTATTTTAATTATTATTCTAT
1 TTTATTATTTTAATTATTAATATAT
19125191 TTATCATTATTTTTAATTATATAAATATAT
1 TT-T-ATTA-TTTTAATTAT-T-AATATAT
19125221 TTTATTA
1 TTTATTA
19125228 ATATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
26 1 0.03
27 4 0.13
28 14 0.47
29 2 0.07
30 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTATTTTAATTATTAATATAT
Found at i:19134516 original size:14 final size:14
Alignment explanation
Indices: 19134497--19134538 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
19134487 ATTGTTTAGA
*
19134497 GCATTTAGGATGTT
1 GCATTTATGATGTT
19134511 GCATTTATGATGTT
1 GCATTTATGATGTT
* *
19134525 CCATGTATGATGTT
1 GCATTTATGATGTT
19134539 TCCATGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (14 bp):
GCATTTATGATGTT
Found at i:19134543 original size:15 final size:14
Alignment explanation
Indices: 19134505--19134545 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
19134495 GAGCATTTAG
* *
19134505 GATGTTGCATTTAT
1 GATGTTCCATGTAT
19134519 GATGTTCCATGTAT
1 GATGTTCCATGTAT
19134533 GATGTTTCCATGT
1 GATG-TTCCATGT
19134546 TAATGAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (14 bp):
GATGTTCCATGTAT
Found at i:19138121 original size:17 final size:17
Alignment explanation
Indices: 19138099--19138141 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
19138089 ATTGTTCTTT
*
19138099 GAATAAAAATAATTTTA
1 GAATAAAAACAATTTTA
19138116 GAATAAAAACAATTTTA
1 GAATAAAAACAATTTTA
19138133 GAATAAAAA
1 GAATAAAAA
19138142 ACCCCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (17 bp):
GAATAAAAACAATTTTA
Found at i:19142486 original size:19 final size:20
Alignment explanation
Indices: 19142458--19142496 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19142448 TGTTTCCAGA
* *
19142458 TTTTATTAAATCATAACATT
1 TTTTATTAAAGCAAAACATT
19142478 TTTTA-TAAAGCAAAACATT
1 TTTTATTAAAGCAAAACATT
19142497 AATTGAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
TTTTATTAAAGCAAAACATT
Found at i:19143014 original size:45 final size:45
Alignment explanation
Indices: 19142947--19143283 Score: 478
Period size: 45 Copynumber: 7.5 Consensus size: 45
19142937 CTTCATACTT
*
19142947 ATAATGCA-CCATATGCATTTCAATTGTGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* *
19142991 ATAATTCACCCATATGCATTTCAATTATGTCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * * *
19143036 ATAATGCATCCATATGCATTTCATTTATGGCATCCTTTTATGTCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * *
19143081 ATAATGCACCCATATGTATTTCAATTATGACATCCTTTCATTCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * *
19143126 ATAATGCACCCATATGCATTTCATTTATGGAATCCTTTCATACCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * *
19143171 ATAATGCACCAATATGCATTTCAATTATGGCATCCTTCCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
** **
19143216 ATAATGCACCCATACACATTTCAATTATAACATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
*
19143261 ATAATGCACCCATATACATTTCA
1 ATAATGCACCCATATGCATTTCA
19143284 TCTAACTGGC
Statistics
Matches: 257, Mismatches: 35, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
44 7 0.03
45 250 0.97
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
Found at i:19143439 original size:68 final size:68
Alignment explanation
Indices: 19143279--19143467 Score: 324
Period size: 68 Copynumber: 2.8 Consensus size: 68
19143269 CCCATATACA
19143279 TTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGTCCTCAAAGGAACTT
1 TTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG-CCTCAAAGGAACTT
*
19143344 AGTC
65 AGCC
* * *
19143348 TTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGATAGGCCTCAAAGGCACTTA
1 TTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCTCAAAGGAACTTA
19143413 GCC
66 GCC
*
19143416 TTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCACAGCTAGGCC
1 TTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCC
19143468 ATTAATCTTT
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 65 0.58
69 48 0.42
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (68 bp):
TTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCTCAAAGGAACTTA
GCC
Found at i:19143842 original size:57 final size:57
Alignment explanation
Indices: 19143678--19143843 Score: 219
Period size: 57 Copynumber: 2.9 Consensus size: 57
19143668 TTCTTATATG
* *
19143678 GAAATTCATAAAAAAATTTATGAATTTCTTAACTTTTTGCA-TCTGAAGTGCCCATATT
1 GAAATTCATAAAAAAA-TTATGAATTTCTTAACTTTTTGCACTCT-AAGTGCCCACATC
* * *
19143736 GAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGTACTCAAAGTGCCCACA-C
1 GAAATTCATAAAAAAATTATGAATTTCTTAACTTTTTGCACTCTAAGTGCCCACATC
* * *
19143792 GAAAATTCATAAAAAAAATATGAATTTCTTAACTTTTTGCACACTCAGTGCC
1 G-AAATTCATAAAAAAATTATGAATTTCTTAACTTTTTGCACTCTAAGTGCC
19143844 ATTTTGTAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 1 0.01
57 77 0.81
58 17 0.18
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (57 bp):
GAAATTCATAAAAAAATTATGAATTTCTTAACTTTTTGCACTCTAAGTGCCCACATC
Found at i:19144177 original size:22 final size:19
Alignment explanation
Indices: 19144150--19144202 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
19144140 TACCCTTATC
19144150 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACT-C--TACT
*
19144172 ATGGTACCGATACTCTACT
1 ATGGTATCGATACTCTACT
*
19144191 ATGGAATCGATA
1 ATGGTATCGATA
19144203 TCATTTTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.50
21 1 0.04
22 13 0.46
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (19 bp):
ATGGTATCGATACTCTACT
Found at i:19144252 original size:20 final size:21
Alignment explanation
Indices: 19144227--19144279 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
19144217 TATTTCGAAT
*
19144227 GGTATCGATACTT-TCCCTTC
1 GGTATCGATACTTCCCCCTTC
19144247 GGTATCGATACTTCCCCCTTC
1 GGTATCGATACTTCCCCCTTC
*
19144268 GATATCGATACT
1 GGTATCGATACT
19144280 GATGTACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (21 bp):
GGTATCGATACTTCCCCCTTC
Found at i:19148091 original size:45 final size:45
Alignment explanation
Indices: 19148005--19148401 Score: 467
Period size: 45 Copynumber: 8.9 Consensus size: 45
19147995 TTCATTGAGA
* **
19148005 GCATCCTTTCATACTTATAATGCA-CCATATGCATTTCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
*
19148049 GCATCCTTTCATGCCGATAATGTACCCATATGCATTTCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
* ** * *
19148094 GCATCCTCTCATATCGATAATACACCCATATGCATTTCATTTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
* * * *
19148139 GAAACCTTTCATGTCGATAATGCACCCGTATGCATTTCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
** * *
19148184 GCATTATTTCATGCCGATAATG-AGCCCATATGCATTTTATTTATG
1 GCATCCTTTCATGCCGATAATGCA-CCCATATGCATTTCAATTATG
* ** * * * *
19148229 GCATCATTTCGCGCTGATAATACACCCATTTGCATTTCAATTATC
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
* * *
19148274 GCATCCTTTCATGTCGATAATTCACTCATATGCATTTCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
* * *
19148319 GAATCCTTTCATGTCGATAATGCACCCATATGC-CTTCAATTATG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
* * *
19148363 GCATCATTTCATACCTATAATGCACCCATATGCATTTCA
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCA
19148402 TCTAACTGAC
Statistics
Matches: 296, Mismatches: 53, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
44 59 0.20
45 236 0.80
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (45 bp):
GCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATG
Found at i:19148767 original size:57 final size:57
Alignment explanation
Indices: 19148683--19148883 Score: 246
Period size: 57 Copynumber: 3.5 Consensus size: 57
19148673 CGAATAAAGT
* * *
19148683 AATTCATGTAATTTCTT-AGTTTTTGCACACAAAGTTCTTATATGCAAATTCATAAACA
1 AATT-ATG-AATTTCTTAACTTTTTGCACACAAAGTTCCTATATGGAAATTCATAAACA
* *
19148741 AATTATGAATTTCTTAACTTTTTGCAC-CTGAAGTTCCTATATGGAAATTCATAAAGA
1 AATTATGAATTTCTTAACTTTTTGCACAC-AAAGTTCCTATATGGAAATTCATAAACA
* * * *
19148798 AATTATGAATTTCTTAACTTTTTGCACTA-AAAATGCCCATACGGAAATTCATAAACA
1 AATTATGAATTTCTTAACTTTTTGCAC-ACAAAGTTCCTATATGGAAATTCATAAACA
* *
19148855 AATTACGAATTTCTTAACTTTTTACACAC
1 AATTATGAATTTCTTAACTTTTTGCACAC
19148884 TCAGTTCTAT
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
56 10 0.08
57 111 0.89
58 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (57 bp):
AATTATGAATTTCTTAACTTTTTGCACACAAAGTTCCTATATGGAAATTCATAAACA
Found at i:19149975 original size:65 final size:64
Alignment explanation
Indices: 19149819--19149998 Score: 215
Period size: 65 Copynumber: 2.8 Consensus size: 64
19149809 TTGGACCCTT
19149819 AGTGCATCGATGCACTAAG-AGTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAACCA
1 AGTGCATCGATGCA-T-AGTAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAACCA
19149882 G
64 G
** * * * * *
19149883 AGTGCATTTATGCATGGCTGGTCCATCGATGCATGAAATGCATTTGATGTTTTCATAA-AACTCT
1 AGTGCATCGATGCATAG-TAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAAC-C-
19149947 A-
63 AG
19149948 AGTGCATCGATGCATAGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAGTA-GTGCATCGATGCATGAAATGCATTCGATGTT
19149999 CAATTTATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 43 0.44
65 51 0.53
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATAGTAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAACCAG
Found at i:19150471 original size:2 final size:2
Alignment explanation
Indices: 19150464--19150492 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19150454 TAGTCAATTG
19150464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19150493 GCTTAAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19154365 original size:37 final size:37
Alignment explanation
Indices: 19154324--19154397 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
19154314 ATCTAGTACC
* *
19154324 TACAGTAGATTTATTACTATGCCTTTCAACTAATGTT
1 TACAGTAGATTTATTACTAGGCATTTCAACTAATGTT
19154361 TACAGTAGATTTATTACTAGGCATTTCAACTAATGTT
1 TACAGTAGATTTATTACTAGGCATTTCAACTAATGTT
19154398 CATACTTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (37 bp):
TACAGTAGATTTATTACTAGGCATTTCAACTAATGTT
Found at i:19158616 original size:65 final size:64
Alignment explanation
Indices: 19158479--19158635 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 64
19158469 TGCACTAAGA
*
19158479 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCAAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCAAGAGTGCATCGATGCATAGCTG
* * **
19158543 GTGTATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-AAGAGTGCATCGATGCATAGC
*
19158605 TAT
63 T-G
* *
19158608 GTGCATCGATGCATGAATTACATTCGAT
1 GTGCATCGATGCATGAAATGCATTCGAT
19158636 ATTCAATTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
64 29 0.37
65 47 0.59
66 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCAAGAGTGCATCGATGCATAGCTG
Found at i:19162166 original size:32 final size:32
Alignment explanation
Indices: 19162074--19162166 Score: 80
Period size: 32 Copynumber: 2.9 Consensus size: 32
19162064 AGAATATTAC
* * *
19162074 TTGTCACAATTTTTATATTGAGAAATTAATAT
1 TTGTCACAATTTTTATTTTGACAAAATAATAT
* * * * **
19162106 TTGTTATAAATTATTATTTTAATTAAATAA-AT
1 TTGTCA-CAATTTTTATTTTGACAAAATAATAT
19162138 TTGTCACAATTTTTTATTTTGACAAAATA
1 TTGTCACAA-TTTTTATTTTGACAAAATA
19162167 TTGTGACAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
31 2 0.04
32 27 0.60
33 16 0.36
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.49
Consensus pattern (32 bp):
TTGTCACAATTTTTATTTTGACAAAATAATAT
Found at i:19162181 original size:196 final size:197
Alignment explanation
Indices: 19161831--19162185 Score: 570
Period size: 196 Copynumber: 1.8 Consensus size: 197
19161821 CTTTTTACTG
* * *
19161831 TGACTAAATAATTTTGTTACAATTTGTTATTGTGAAACAATATTATTTGTCATAATTTTTTATAA
1 TGACTAAATAATTTTGTTACAATTTGTTATTGTCAAACAATATTACTTGTCACAATTTTTTATAA
* *
19161896 TGAGAAATTAATATTTGTTATAAATTGTTATTTTGATTAAATAAATTTATCACAATTTATTATTT
66 TGAGAAATTAATATTTGTTATAAATTATTATTTTAATTAAATAAATTTATCACAATTTATTATTT
*
19161961 TGACAAAACATTAGGACGAAATAAATTTGGCATAACTTTTTTTTTTGATAAATTTAACTTGTTAT
131 TGACAAAACATTAGGACAAAATAAATTTGGCATAACTTTTTTTTTTGATAAATTTAACTTGTTAT
19162026 TA
196 TA
* * * *
19162028 TGACTAAATCATTTTTTTACAATTTGTTATTGTCAAAGAATATTACTTGTCACAA-TTTTTATAT
1 TGACTAAATAATTTTGTTACAATTTGTTATTGTCAAACAATATTACTTGTCACAATTTTTTATAA
* *
19162092 TGAGAAATTAATATTTGTTATAAATTATTATTTTAATTAAATAAATTTGTCACAATTTTTTATTT
66 TGAGAAATTAATATTTGTTATAAATTATTATTTTAATTAAATAAATTTATCACAATTTATTATTT
*
19162157 TGACAAAATATT-GTGACAAAATAAATTTG
131 TGACAAAACATTAG-GACAAAATAAATTTG
19162186 ACAAAGTTTT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
195 1 0.01
196 94 0.65
197 49 0.34
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.47
Consensus pattern (197 bp):
TGACTAAATAATTTTGTTACAATTTGTTATTGTCAAACAATATTACTTGTCACAATTTTTTATAA
TGAGAAATTAATATTTGTTATAAATTATTATTTTAATTAAATAAATTTATCACAATTTATTATTT
TGACAAAACATTAGGACAAAATAAATTTGGCATAACTTTTTTTTTTGATAAATTTAACTTGTTAT
TA
Found at i:19166655 original size:415 final size:412
Alignment explanation
Indices: 19166051--19166833 Score: 1058
Period size: 415 Copynumber: 1.9 Consensus size: 412
19166041 TTACTGTATA
*
19166051 ACATTTTTTGCACAAAAAATAGGGAAAATGTTTCTGATAGTATAATTTTCATAATGATTAAAATA
1 ACATTTTTTACACAAAAAATAGGGAAAATGTTTCTGATAGTATAATTTTCATAATGATTAAAATA
* *
19166116 TATAACTAAAAATAATTGATTACAAGAAACTTGAATTTTATTATCAGATGTGATAATTTTTTCTA
66 TACAACTAAAAATAATTGATTACAAGAAACTTGAATTTCATTATCAGATGTGATAATTTTTTCTA
*
19166181 TAAAAATAACTATAAATTACAATTACAAAACCTATCAATATAACTTTTTGAAACAAAAAAAGTGG
131 TAAAAATAACTATAAATTACAATTACAAAACCTATCAACATAACTTTTTGAAACAAAAAAAGTGG
* * * * *
19166246 AGAAAAATATTTATTACAATATAT-ATTATCACTATAATTAAAATTTTTAACTACAAGTATACTT
196 AGAAAAATAATTATGACAATATATGA-TATCACTATAATTAAAATTTATAACTACAAATATAATT
* * * *
19166310 TGACA-AAAAATGTGAATACCATTATTTTTTGTGACAATGTTTTTTGTAACAATTA-TAAACGCT
260 TGACACAAAAACGTGAATACAATTA-TTTTTGTGACAATGTGTTTTGTAACAATTATTAAA-ACT
* * * * *
19166373 TATAGTTACAAGAATTGTTACTATATGATTTTTTTGGAGCAAAAAAATATAGGGCAAAATTTTTA
323 TATAGTTAAAAAAATTGTCACTATATAACTTTTTTGGAGCAAAAAAATATAGGGCAAAATTTTTA
19166438 TGACAATGTATTATGTTACTATACT
388 TGACAATGTATTATGTTACTATACT
* *
19166463 ACATTTTTTACACTAAAAAATAGGGGGAAATGGTTT-TGATATTATAATTTTTCATAATGATTAA
1 ACATTTTTTACAC-AAAAAATA-GGGAAAAT-GTTTCTGATAGTATAA-TTTTCATAATGATTAA
* * **
19166527 AATATACAAGTACAAAAATAATTTATTAC-AGAAAACTTGAATTTCATTATTTGATGTGATAA-T
62 AATATACAACT--AAAAATAATTGATTACAAG-AAACTTGAATTTCATTATCAGATGTGATAATT
* * * * * ** *
19166590 TTTTCTATAACAATGACTATAAATTATATTTATAAAAGTTGTCAACATAAC-TTTTGAAACAAAA
124 TTTTCTATAAAAATAACTATAAATTACAATTACAAAACCTATCAACATAACTTTTTGAAACAAAA
* * * *
19166654 AAAGTGGAGAAAATTAATTATGACAATATATGATATCATTATAGTTAAAATTTATAACTATAAAT
189 AAAGTGGAGAAAAATAATTATGACAATATATGATATCACTATAATTAAAATTTATAACTACAAAT
* * *
19166719 ATAATTTGTCACAAAAACGTGAATATAATTATTTTTGTGACAATGTGTTTTGTAATAATTATTAA
254 ATAATTTGACACAAAAACGTGAATACAATTATTTTTGTGACAATGTGTTTTGTAACAATTATTAA
* *
19166784 AACTTATAGTTAAAAAAATTGTCATTATATAACTTTTTTGGGGCAAAAAA
319 AACTTATAGTTAAAAAAATTGTCACTATATAACTTTTTTGGAGCAAAAAA
19166834 TATGGAGAGA
Statistics
Matches: 320, Mismatches: 41, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
412 12 0.04
413 8 0.03
414 17 0.05
415 175 0.55
416 66 0.21
417 42 0.13
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (412 bp):
ACATTTTTTACACAAAAAATAGGGAAAATGTTTCTGATAGTATAATTTTCATAATGATTAAAATA
TACAACTAAAAATAATTGATTACAAGAAACTTGAATTTCATTATCAGATGTGATAATTTTTTCTA
TAAAAATAACTATAAATTACAATTACAAAACCTATCAACATAACTTTTTGAAACAAAAAAAGTGG
AGAAAAATAATTATGACAATATATGATATCACTATAATTAAAATTTATAACTACAAATATAATTT
GACACAAAAACGTGAATACAATTATTTTTGTGACAATGTGTTTTGTAACAATTATTAAAACTTAT
AGTTAAAAAAATTGTCACTATATAACTTTTTTGGAGCAAAAAAATATAGGGCAAAATTTTTATGA
CAATGTATTATGTTACTATACT
Found at i:19170293 original size:24 final size:24
Alignment explanation
Indices: 19170260--19170330 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
19170250 ATACATTACT
*
19170260 TGAATACTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* *
19170284 TGGATTCTGTTCTGATATCTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* *
19170308 TGAATTCTGTTTTGATTTTTGAT
1 TGAATTCTGTTCTGATTTCTGAT
19170331 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:19170495 original size:2 final size:2
Alignment explanation
Indices: 19170488--19170522 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19170478 GGATGGGGTG
19170488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19170523 GTTTTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19174683 original size:22 final size:22
Alignment explanation
Indices: 19174658--19175286 Score: 877
Period size: 22 Copynumber: 28.6 Consensus size: 22
19174648 ATAATAAATT
*
19174658 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
19174680 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
19174702 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
19174724 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
19174746 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
19174768 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**** *
19174790 TTTTAAAATAAAAGTTTTCATA
1 TTTTAAAATAAATCAATCCATA
19174812 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
19174834 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
19174856 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
19174878 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
19174900 TTTTAAAATAAAAT-TTTCTATA
1 TTTTAAAAT-AAATCAATCCATA
*
19174922 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
19174944 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
19174966 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
19174988 TTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATCCATA
19175010 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
19175032 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
***
19175054 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
19175076 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
19175098 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
19175120 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
19175142 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
19175164 TTTCAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
* *
19175186 TTTTAAAATAGATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
19175208 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
19175230 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
**
19175252 TTTTAAAATAAATCAATATATA
1 TTTTAAAATAAATCAATCCATA
19175274 TTTTAAAATAAAT
1 TTTTAAAATAAAT
19175287 TTTAAAATAG
Statistics
Matches: 534, Mismatches: 67, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
21 12 0.02
22 510 0.96
23 12 0.02
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:19175303 original size:11 final size:12
Alignment explanation
Indices: 19175251--19175300 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
19175241 ATCAATTCAT
19175251 ATTTTAAAATAA
1 ATTTTAAAATAA
* * *
19175263 A--TCAATATAT
1 ATTTTAAAATAA
19175273 ATTTTAAAATAA
1 ATTTTAAAATAA
*
19175285 ATTTTAAAATAG
1 ATTTTAAAATAA
19175297 ATTT
1 ATTT
19175301 AAATTATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:19176115 original size:24 final size:25
Alignment explanation
Indices: 19176088--19176193 Score: 96
Period size: 24 Copynumber: 4.4 Consensus size: 25
19176078 AAATTTTATC
*
19176088 TGATTTCCGACT-TGAATTCTGTTA
1 TGATTTCTGACTCTGAATTCTGTTA
* * *
19176112 TGA-TACATTAC-CTGAATTCTGTTC
1 TGATTTC-TGACTCTGAATTCTGTTA
*
19176136 TGATTTCTGA-TCTGGATTCTGTTA
1 TGATTTCTGACTCTGAATTCTGTTA
* * *
19176160 TGATATCTG-GTCTGAATTCTGTTT
1 TGATTTCTGACTCTGAATTCTGTTA
19176184 TGATTTCTGA
1 TGATTTCTGA
19176194 TATCTCTGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
23 2 0.03
24 60 0.94
25 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (25 bp):
TGATTTCTGACTCTGAATTCTGTTA
Found at i:19176142 original size:48 final size:48
Alignment explanation
Indices: 19176086--19176190 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
19176076 AAAAATTTTA
*
19176086 TCTGATTTCCGA-CTTGAATTCTGTTATGATA-CATTACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTATGATATC-TGACCTGAATTCTGT
* * **
19176134 TCTGATTTCTGATCTGGATTCTGTTATGATATCTGGTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
*
19176182 TTTGATTTC
1 TCTGATTTC
19176191 TGATATCTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 47 0.96
49 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:19176143 original size:12 final size:12
Alignment explanation
Indices: 19176123--19176192 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
19176113 GATACATTAC
*
19176123 CTGAATTCTGTT
1 CTGATTTCTGTT
*
19176135 CTGATTTCTGAT
1 CTGATTTCTGTT
19176147 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
19176159 ATGATATCTGGT
1 CTGATTTCTGTT
*
19176171 CTGAATTCTGTT
1 CTGATTTCTGTT
*
19176183 TTGATTTCTG
1 CTGATTTCTG
19176193 ATATCTCTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:19177496 original size:42 final size:42
Alignment explanation
Indices: 19177352--19177785 Score: 351
Period size: 43 Copynumber: 10.3 Consensus size: 42
19177342 AGCTCTATCC
* *
19177352 ACAAACGCCGCAAAAGGTCA-ATACCTATAGCGGCGTTTTTGTA
1 ACAAACGCCGCAAAAGGTCAGAT--CTATAGCGGCATTTTTGGA
* * * * ** *
19177395 ACAAAC-CCTACAAAAGGTCGACACCTAAAGCGGTGTTTTTTGA
1 ACAAACGCC-GCAAAAGGTC-AGATCTATAGCGGCATTTTTGGA
* * * *
19177438 AAAAACGCCGCAAAAAGTCGAGATTTATAGCGACATTTTTGGA
1 ACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGA
* * *
19177481 ACAAACGCCGTAAAAGGTCGAGATTTATAGAGGCATTTTTGGA
1 ACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGA
* ** * * *
19177524 ATAAATACCGCAAAAGGTCAGATCTATGGTGGC--GTTTGGA
1 ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
* *
19177564 ACTAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA
1 ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
*
19177606 ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA
1 ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
* * * * *
19177648 AC-AACTACCGCAAAAGTTCAGACCTATAACGGCGTTTTT-GA
1 ACAAAC-GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
* * ** * *
19177689 ACAAACGCCACAAAAGATCGAGAT-TATAATGTCGTTTTTTGGA
1 ACAAACGCCGCAAAAGGTC-AGATCTATAGCGGC-ATTTTTGGA
* * * * * *
19177732 ACAAACACCACAAAATGTTAGATATATAGCGGCATTTTTTGA
1 ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
19177774 TACAAACGCCGC
1 -ACAAACGCCGC
19177786 TAATTACCAT
Statistics
Matches: 318, Mismatches: 60, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
40 33 0.10
41 24 0.08
42 113 0.36
43 144 0.45
44 3 0.01
45 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (42 bp):
ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA
Found at i:19177575 original size:40 final size:40
Alignment explanation
Indices: 19177355--19177704 Score: 256
Period size: 42 Copynumber: 8.3 Consensus size: 40
19177345 TCTATCCACA
*
19177355 AACGCCGCAAAAGGTCA-ATACCTATAGCGGCGTTTTTGTAAC
1 AACGCCGCAAAAGGTCAGAT--CTATAGCGGCG-TTTTGGAAC
* * * * * * *
19177397 AAAC-CCTACAAAAGGTCGACACCTAAAGCGGTGTTTTTTGAAAA
1 -AACGCC-GCAAAAGGTC-AGATCTATAGCGGCG--TTTTGGAAC
* * * *
19177441 AACGCCGCAAAAAGTCGAGATTTATAGCGACATTTTTGGAAC
1 AACGCCGCAAAAGGTC-AGATCTATAGCGGC-GTTTTGGAAC
* * * * *
19177483 AAACGCCGTAAAAGGTCGAGATTTATAGAGGCATTTTTGGAATA
1 -AACGCCGCAAAAGGTC-AGATCTATAGCGGC-GTTTTGGAA-C
** * *
19177527 AATACCGCAAAAGGTCAGATCTATGGTGGCG-TTTGGAAC
1 AACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTGGAAC
19177566 TAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
1 -AACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTTTGGAAC
19177608 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
1 -AACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTTTGGAAC
* * * * *
19177650 AACTACCGCAAAAGTTCAGACCTATAACGGCGTTTTTGAAC
1 AAC-GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTGGAAC
*
19177691 AAACGCCACAAAAG
1 -AACGCCGCAAAAG
19177705 ATCGAGATTA
Statistics
Matches: 252, Mismatches: 42, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
40 34 0.13
41 19 0.08
42 96 0.38
43 91 0.36
44 11 0.04
45 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
AACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTGGAAC
Found at i:19178041 original size:43 final size:43
Alignment explanation
Indices: 19177975--19178062 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
19177965 TTTATATTCC
*
19177975 AATGGAAATTACAAGAGGCAATATACAAGCTGTTCCACAATGG
1 AATGGAAAATACAAGAGGCAATATACAAGCTGTTCCACAATGG
* *
19178018 AATGGAAAATACAAGA-GCTAATATACAAGTTGTTCGACAATGG
1 AATGGAAAATACAAGAGGC-AATATACAAGCTGTTCCACAATGG
19178061 AA
1 AA
19178063 AGAAATCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (43 bp):
AATGGAAAATACAAGAGGCAATATACAAGCTGTTCCACAATGG
Found at i:19189345 original size:24 final size:24
Alignment explanation
Indices: 19189313--19189358 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19189303 ATGAAAAACT
**
19189313 AAGATAAGAGGTTTTGGTTAGGCC
1 AAGATAAGAGAATTTGGTTAGGCC
19189337 AAGATAAGAGAATTTGGTTAGG
1 AAGATAAGAGAATTTGGTTAGG
19189359 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (24 bp):
AAGATAAGAGAATTTGGTTAGGCC
Found at i:19189474 original size:22 final size:21
Alignment explanation
Indices: 19189449--19189505 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
19189439 TACTTTATTC
*
19189449 ATAGGGTATCCATACCCTGTTA
1 ATAGGGTATCAATA-CCTGTTA
* *
19189471 ATAGGGTATCGATA-TTGTTA
1 ATAGGGTATCAATACCTGTTA
*
19189491 ATAGGTTATCAATAC
1 ATAGGGTATCAATAC
19189506 TCGTACCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 17 0.57
22 13 0.43
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (21 bp):
ATAGGGTATCAATACCTGTTA
Found at i:19201455 original size:11 final size:11
Alignment explanation
Indices: 19201439--19201468 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
19201429 ATTATGTTTG
19201439 CATATCATTTA
1 CATATCATTTA
19201450 CATATCATTTA
1 CATATCATTTA
19201461 CATATCAT
1 CATATCAT
19201469 GATAAGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (11 bp):
CATATCATTTA
Done.