Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_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: 1004101
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:836889 original size:42 final size:42
Alignment explanation
Indices: 836841--837174 Score: 346
Period size: 43 Copynumber: 7.8 Consensus size: 42
836831 TTGTATAAAC
* * *
836841 AAACGCCGCTATAGATCTGACATTTTGCGGTGTTTGTTCCAA
1 AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAA
* *
836883 AAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGTATCCAA
1 AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCTAA
** *
836926 AAACGCCGCTATAGATCAT-ACCTTTTGCGATGTTTGTTCAAA
1 AAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTTCTAA
** * * *
836968 AAATACCGCTATAGATCTGACTTTTTGCGACGTTTGTTCTGA
1 AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAA
* * * * *
837010 AAATGCCGTTATAGATATTGACCTTTTGCGGCGTTTGTTTTGA
1 AAACGCCGCTATAGAT-CTGACCTTTTGCGGCGTTTGTTCTAA
* * * * *
837053 AAACGCAGCTATAGATCTCGACGTTTTACGACGTTTGTTCAAA
1 AAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAA
** *
837096 AAACGATGCTATATATCTCGACCTTTTGCGGCGTTTGTTCTAA
1 AAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAA
* * *
837139 AAACACCGCGATAGATCTTGACCTATTGCGGCGTTT
1 AAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
837175 TTTGTTCTCA
Statistics
Matches: 244, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.00
42 87 0.36
43 154 0.63
44 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (42 bp):
AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAA
Found at i:836940 original size:85 final size:84
Alignment explanation
Indices: 836827--837162 Score: 352
Period size: 85 Copynumber: 3.9 Consensus size: 84
836817 ATATTTGGCA
* * * *
836827 ACGTTTGTAT-AAACAAACGCCGCTATAGATCTGACATTTTGCGGTGTTTGTTCCAAAAACGCCG
1 ACGTTTGT-TCAAA-AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACACCG
836891 CTATAGATCTGACCTTTTACG
64 CTATAGATCTGACCTTTTACG
* * ** * *
836912 GCGTTTGTATCCAAAAACGCCGCTATAGATCAT-ACCTTTTGCGATGTTTGTTCAAAAAATACCG
1 ACGTTTGT-TCAAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTTCTAAAAACACCG
* *
836976 CTATAGATCTGACTTTTTGCG
64 CTATAGATCTGACCTTTTACG
** * * * * * * *
836997 ACGTTTGTTCTGAAAATGCCGTTATAGATATTGACCTTTTGCGGCGTTTGTTTTGAAAACGCAGC
1 ACGTTTGTTCAAAAAACGCCGCTATAGAT-CTGACCTTTTGCGGCGTTTGTTCTAAAAACACCGC
*
837062 TATAGATCTCGACGTTTTACG
65 TATAGATCT-GACCTTTTACG
** *
837083 ACGTTTGTTCAAAAAACGATGCTATATATCTCGACCTTTTGCGGCGTTTGTTCTAAAAACACCGC
1 ACGTTTGTTCAAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAAAAACACCGC
*
837148 GATAGATCTTGACCT
65 TATAGATC-TGACCT
837163 ATTGCGGCGT
Statistics
Matches: 205, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
84 18 0.09
85 112 0.55
86 74 0.36
87 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (84 bp):
ACGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACACCGCT
ATAGATCTGACCTTTTACG
Found at i:838420 original size:21 final size:22
Alignment explanation
Indices: 838370--838420 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
838360 AAAAAAAGAT
*
838370 CTTCAACTATTTCTTTCTTTACA
1 CTTCAA-TATTTCTTTCTATACA
*
838393 CTT-AATATTTTTTTCTATA-A
1 CTTCAATATTTCTTTCTATACA
838413 CTTCAATA
1 CTTCAATA
838421 GGGTCAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.16
21 16 0.64
22 2 0.08
23 3 0.12
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (22 bp):
CTTCAATATTTCTTTCTATACA
Found at i:841830 original size:22 final size:23
Alignment explanation
Indices: 841788--841832 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
841778 AACTGCGTGC
*
841788 ACTTTCGGATATTTATTATATTT
1 ACTTTCGGATATTTATAATATTT
841811 ACTTT-GGATATTTCA-AATATTT
1 ACTTTCGGATATTT-ATAATATTT
841833 GGTATGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (23 bp):
ACTTTCGGATATTTATAATATTT
Found at i:842378 original size:39 final size:37
Alignment explanation
Indices: 842308--842585 Score: 226
Period size: 37 Copynumber: 7.4 Consensus size: 37
842298 ATATATATAT
* ** *
842308 ATATATTATATATAGTTTGCAAACGGT-TTTTGAAGATAC
1 ATATATAATATATAGTTTTTAAAC-ATATTTTGAA-A-AC
* *
842347 ATATATAATATATAGTTTCTAAACATATTTTGAAAAT
1 ATATATAATATATAGTTTTTAAACATATTTTGAAAAC
* *
842384 GTATATAATATAAAGTTTTTAAA-ATACTTTTGAAAA-
1 ATATATAATATATAGTTTTTAAACATA-TTTTGAAAAC
* * *
842420 TTATATAATATATAGTTTTTAAAACAT-TTTAGAAAAT
1 ATATATAATATATAGTTTTT-AAACATATTTTGAAAAC
842457 ATATATAATATATAGTTTTTAAA-ATCATTTTGAAAAAC
1 ATATATAATATATAGTTTTTAAACAT-ATTTTG-AAAAC
* * *
842495 TTATATAATATATAGTTTTTGAAAACATTTTTTAAATAAAC
1 ATATATAATATATAGTTTTT--AAACATATTTT-GA-AAAC
* * * * * *
842536 TTATATAATATACAGTTTTTGAA-TTTTTTTTAAAAC
1 ATATATAATATATAGTTTTTAAACATATTTTGAAAAC
*
842572 TTATATAATATATA
1 ATATATAATATATA
842586 ATTAAAAAAA
Statistics
Matches: 204, Mismatches: 22, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
35 2 0.01
36 49 0.24
37 57 0.28
38 33 0.16
39 30 0.15
40 8 0.04
41 25 0.12
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (37 bp):
ATATATAATATATAGTTTTTAAACATATTTTGAAAAC
Found at i:842389 original size:37 final size:35
Alignment explanation
Indices: 842348--842614 Score: 255
Period size: 36 Copynumber: 7.2 Consensus size: 35
842338 TGAAGATACA
*
842348 TATATAATATATAGTTTCTAAACATATTTTGAAAAT
1 TATATAATATATAGTTTTTAAA-ATATTTTGAAAAT
*
842384 GTATATAATATAAAGTTTTTAAAATACTTTTGAAAAT
1 -TATATAATATATAGTTTTTAAAATA-TTTTGAAAAT
*
842421 TATATAATATATAGTTTTTAAAACATTTTAGAAAAT
1 TATATAATATATAGTTTTTAAAATATTTT-GAAAAT
842457 ATATATAATATATAGTTTTTAAAATCATTTTGAAAAACT
1 -TATATAATATATAGTTTTTAAAAT-ATTTTG-AAAA-T
* *
842496 TATATAATATATAGTTTTTGAAAACATTTTTTAAATAAACT
1 TATATAATATATAGTTTTT--AAA-ATATTTT-GA-AAA-T
* * * * *
842537 TATATAATATACAGTTTTTGAATTTTTTTTAAAACT
1 TATATAATATATAGTTTTTAAAATATTTTGAAAA-T
* *** *
842573 TATATAATATATAATTAAAAAAACATTTTGGAAAAT
1 TATATAATATATAGTTTTTAAAATATTTT-GAAAAT
842609 TATATA
1 TATATA
842615 GTTTTCAAAA
Statistics
Matches: 197, Mismatches: 21, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
35 4 0.02
36 64 0.32
37 59 0.30
38 34 0.17
39 3 0.02
40 8 0.04
41 25 0.13
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAATATTTTGAAAAT
Found at i:842437 original size:36 final size:36
Alignment explanation
Indices: 842348--842585 Score: 257
Period size: 37 Copynumber: 6.4 Consensus size: 36
842338 TGAAGATACA
*
842348 TATATAATATATAGTTTCTAAACATATTTTGAAAA-T
1 TATATAATATATAGTTTTTAAA-ATATTTTGAAAACT
*
842384 GTATATAATATAAAGTTTTTAAAATACTTTTGAAAA-T
1 -TATATAATATATAGTTTTTAAAATA-TTTTGAAAACT
*
842421 TATATAATATATAGTTTTTAAAACATTTTAGAAAA-T
1 TATATAATATATAGTTTTTAAAATATTTT-GAAAACT
842457 ATATATAATATATAGTTTTTAAAATCATTTTGAAAAACT
1 -TATATAATATATAGTTTTTAAAAT-ATTTTG-AAAACT
* *
842496 TATATAATATATAGTTTTTGAAAACATTTTTTAAATAAACT
1 TATATAATATATAGTTTTT--AAA-ATATTTT-GA-AAACT
* * * * *
842537 TATATAATATACAGTTTTTGAATTTTTTTTAAAACT
1 TATATAATATATAGTTTTTAAAATATTTTGAAAACT
842573 TATATAATATATA
1 TATATAATATATA
842586 ATTAAAAAAA
Statistics
Matches: 178, Mismatches: 12, Indels: 23
0.84 0.06 0.11
Matches are distributed among these distances:
35 4 0.02
36 49 0.28
37 55 0.31
38 34 0.19
39 3 0.02
40 8 0.04
41 25 0.14
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAATATTTTGAAAACT
Found at i:842640 original size:33 final size:30
Alignment explanation
Indices: 842587--842676 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 30
842577 TAATATATAA
*
842587 TTAAAAAAACATTTTGGAAAATTATATAGTT
1 TTAAAAAAACATTTTTGAAAATTATATAG-T
*
842618 TTCAAAAAAATATTTTTTGAAAATTATATAGT
1 TT-AAAAAAACA-TTTTTGAAAATTATATAGT
*
842650 TT-AAAAAACATTTTTGAAAAATATATA
1 TTAAAAAAACATTTTTGAAAATTATATA
842677 ATATTGTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.30
30 7 0.13
31 2 0.04
32 11 0.21
33 17 0.32
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (30 bp):
TTAAAAAAACATTTTTGAAAATTATATAGT
Found at i:842749 original size:10 final size:10
Alignment explanation
Indices: 842724--842783 Score: 66
Period size: 10 Copynumber: 5.7 Consensus size: 10
842714 ATATAAAAAA
842724 TATTTATTATT
1 TATTTATTA-T
842735 TATTTATTAT
1 TATTTATTAT
842745 TATTTATTTTAT
1 TATTTA--TTAT
*
842757 TATTTTTTAT
1 TATTTATTAT
*
842767 TATTTTTTAT
1 TATTTATTAT
*
842777 TACTTAT
1 TATTTAT
842784 ATATATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
10 26 0.59
11 9 0.20
12 9 0.20
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTATTAT
Found at i:842783 original size:7 final size:7
Alignment explanation
Indices: 842724--842777 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
842714 ATATAAAAAA
842724 TATTTAT
1 TATTTAT
842731 TATTTAT
1 TATTTAT
842738 T-TATTAT
1 TAT-TTAT
842745 TATTTAT
1 TATTTAT
*
842752 TTTATTAT
1 TAT-TTAT
*
842760 TTTTTAT
1 TATTTAT
*
842767 TATTTTT
1 TATTTAT
842774 TATT
1 TATT
842778 ACTTATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.02
7 32 0.78
8 8 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TATTTAT
Found at i:843838 original size:5 final size:5
Alignment explanation
Indices: 843828--843872 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
843818 TTTATTTTGG
*
843828 TTATT TTA-T TTATT TTA-C TTATT TTATT TTATT TTACTT TT-TT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TT
843873 CGAAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
4 11 0.31
5 20 0.57
6 4 0.11
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:843840 original size:9 final size:9
Alignment explanation
Indices: 843814--843863 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
843804 CACACGTTTG
843814 TTTATTTAT
1 TTTATTTAT
**
843823 TTTGGTTAT
1 TTTATTTAT
843832 TTTATTTAT
1 TTTATTTAT
*
843841 TTTACTTAT
1 TTTATTTAT
843850 TTTATTTTAT
1 TTTA-TTTAT
843860 TTTA
1 TTTA
843864 CTTTTTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:843871 original size:9 final size:10
Alignment explanation
Indices: 843828--843871 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
843818 TTTATTTTGG
843828 TTATTTTA-T
1 TTATTTTACT
843837 TTATTTTAC-
1 TTATTTTACT
*
843846 TTATTTTATT
1 TTATTTTACT
843856 TTATTTTACT
1 TTATTTTACT
843866 TT-TTTT
1 TTATTTT
843872 TCGAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 20 0.65
10 11 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTACT
Found at i:843871 original size:19 final size:18
Alignment explanation
Indices: 843814--843870 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
843804 CACACGTTTG
**
843814 TTTATTTATTTTGGTTAT
1 TTTATTTATTTTACTTAT
843832 TTTATTTATTTTACTTAT
1 TTTATTTATTTTACTTAT
843850 TTTATTTTATTTTACTT-T
1 TTTA-TTTATTTTACTTAT
843868 TTT
1 TTT
843871 TTCGAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 24 0.67
19 12 0.33
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTATTTATTTTACTTAT
Found at i:843954 original size:15 final size:14
Alignment explanation
Indices: 843901--843952 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
843891 AGAATCTAAC
843901 ATTTTTTTCTTTTT
1 ATTTTTTTCTTTTT
*
843915 AGTTTTTTCTTCTTTT
1 ATTTTTTTC-T-TTTT
*
843931 ATCTTTTATCTTTTT
1 AT-TTTTTTCTTTTT
843946 ATTTTTT
1 ATTTTTT
843953 ATTTATTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 12 0.39
15 7 0.23
16 6 0.19
17 6 0.19
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (14 bp):
ATTTTTTTCTTTTT
Found at i:843955 original size:7 final size:7
Alignment explanation
Indices: 843901--843956 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
843891 AGAATCTAAC
843901 ATTTTTT
1 ATTTTTT
843908 -TCTTTTT
1 AT-TTTTT
843915 AGTTTTTT
1 A-TTTTTT
*
843923 CTTCTTTT
1 ATT-TTTT
*
843931 ATCTTTT
1 ATTTTTT
843938 ATCTTTTT
1 AT-TTTTT
843946 ATTTTTT
1 ATTTTTT
843953 ATTT
1 ATTT
843957 ATTGATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.03
7 22 0.55
8 16 0.40
9 1 0.03
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:844071 original size:6 final size:6
Alignment explanation
Indices: 844062--844095 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
844052 TATACTAACA
*
844062 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCT CTTT
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CTTT
844096 ATTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
CTTTCC
Found at i:847659 original size:95 final size:94
Alignment explanation
Indices: 847535--847707 Score: 249
Period size: 95 Copynumber: 1.8 Consensus size: 94
847525 TATAATATTA
* * * *
847535 TATATATACAATAAAGCTTGAGTTATCCCT-TTAGAGCAATTGGTTAAACGCCCTAACTTTATAG
1 TATATATACAATAAAGCTTGAGCTATCCCTCTAAG-GCAATTGATTAAACGCCCCAACTTTATAG
*
847599 ATAATATTCAGCTAGCTTGATAAAGGTAAT
65 ATAAGATTCAGCTAGCTTGATAAAGGTAAT
* * *
847629 TATACTATACAATAAAGCTTGAGCTGTCCCTCTAAGGCAATTGATTAAACGCCCCGACTTTATGG
1 TATA-TATACAATAAAGCTTGAGCTATCCCTCTAAGGCAATTGATTAAACGCCCCAACTTTATAG
847694 ATAAGATTCAGCTA
65 ATAAGATTCAGCTA
847708 ACCTAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
94 4 0.06
95 62 0.90
96 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGCTATCCCTCTAAGGCAATTGATTAAACGCCCCAACTTTATAGA
TAAGATTCAGCTAGCTTGATAAAGGTAAT
Found at i:849307 original size:165 final size:161
Alignment explanation
Indices: 848932--849927 Score: 1010
Period size: 165 Copynumber: 6.0 Consensus size: 161
848922 TGCAACTTAG
* * ** *
848932 CTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGGTTAGCTCCAAGGCA
1 CTCAAGTCGAGAAGGGCTATCTGCCA--AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA
* * * *
848997 CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAAGACCTCCGAGTTTGATTA
64 CATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACC-AAAGACCTTCGAGTTCGACTA
* * * *
849061 CACTCAGCTTCGAGGGCACATCATTTGCAGAATAA
128 CGCTCAGC-TCTAAGGCACATCATTTGCAGCATAA
* * * * *
849096 CTCAAGGCTATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG
* * * *
849161 CACATCATTTGCAGCATAGCATAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTTGACT
62 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGACT
* *
849225 ACGCTCAGCTTCTAGGGCACATCATTTACAGCATAA
127 ACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAA
* * * * * * *
849261 CTCAAGGCTAGAAGAGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-CCTTAG
1 CTCAAGTCGAGAAGGGCTATC--T-GCC-AAAGACCTTCGAGTTCGACTACACTCAGCTCC-AAG
* * * *
849325 GCATATCATTTGCAGTATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTC
61 GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCTTCGAGTTC
* * * *
849390 GACTATGCTCAGCTCCAAGGAACATCATTTGCAGCATAG
123 GACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAA
* * * ** *
849429 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTGGAGGGCAC
1 CTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCAC
* * * * * * *
849494 ATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTAGACTA
65 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCTTCGAGTTCGACTA
* * *
849559 AGCTCAGCTCTAAGGCACACCATTTGCAGAATAA
128 CGCTCAGCTCTAAGGCACATCATTTGCAGCATAA
* * *
849593 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACC
1 CTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-C
* * * *
849658 AACATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATT
65 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCTTCGAGTTCGACT
* *
849723 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAG
127 ACGCTCAGCTCTAAGGCACATCATTTGCAGCATAA
* * * * * *
849758 CTTAAGTCGAGAAGGGATATCTGCCAAAGACCTTCGAGTTCGATTATACCCAGCTCAAAGGCACC
1 CTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-C
* * * *
849823 ATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCTTCAAAGACCTTTGAGTTCGACTA
65 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGAC--CAAAGACCTTCGAGTTCGACTA
* * *
849888 CGCTCAACTCCT-AGGCACTATCATTTGTAGCATAG
128 CGCTCAGCT-CTAAGGCAC-ATCATTTGCAGCATAA
849923 CTCAA
1 CTCAA
849928 AGCAAGAGGG
Statistics
Matches: 717, Mismatches: 94, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
162 1 0.00
163 6 0.01
164 223 0.31
165 341 0.48
166 77 0.11
167 1 0.00
168 40 0.06
169 28 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (161 bp):
CTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACA
TCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCTAAGGCACATCATTTGCAGCATAA
Found at i:849371 original size:249 final size:243
Alignment explanation
Indices: 848941--849924 Score: 1085
Period size: 249 Copynumber: 4.0 Consensus size: 243
848931 GCTCAAGGCC
* * * *
848941 AGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGGTTAGCTCCAAGGCACATCATTTG
1 AGAAGGGCTATCTGCCA--AAGACCCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* * * * * * * *
849006 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCTCCGAGTTTGATTACACTCAGCTT
64 CAGCATAACTCAAGGCGAGAAGGGTTATCTACC-AAAGACCTTCGAGTTCGACTACACTCAGC-T
* * * * * * *
849071 CGAGGGCACATCATTTGCAGAATAACTCAAGGCTATAAGGGTTATCTGCCAACCAAAGACCTTCG
127 CTAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCG
*
849136 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCATAAGTCG
191 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * *
849189 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTTGACTACGCTCAGCTTCTAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTAC
* * *
849254 AGCATAACTCAAGGCTAGAAGAGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
65 AGCATAACTCAAGGCGAGAAGGGTTATC--T-ACC-AAAGACCTTCGAGTTCGACTACACTCAGC
* * * * * *
849319 CCTTAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTC
126 TCTAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTC
* *
849384 GAGTTCGACTATGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCG
190 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * ** *
849438 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTGGAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTAC
* * *
849503 AACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTAGACTA-AGCTCAGC
65 AGCATAACTCAAGGCGAGAAGGGTTATC--T-ACCAAAGACCTTCGAGTTCGACTACA-CTCAGC
*
849567 TCTAAGGCACACCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCG
126 TCTAAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCG
* * * * * *
849629 AGTTCGATTACACTCAGCTCAAAGGCACCAACATTTGCAACATAACTTAAGTCG
191 AGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAGCTTAAGTCG
* * *
849683 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * * * *
849748 TGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCTTCGAGTTCGATTATACCCAGCT
62 TACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * * ** *
849813 CAAAGGCACCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCTTCAAAGACCTTTG
127 CTAAGGCA-CATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCG
* * *
849878 AGTTCGACTACGCTCAACTCCTAGGCACTATCATTTGTAGCATAGCT
191 AGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTTGCAGCATAGCT
849925 CAAAGCAAGA
Statistics
Matches: 630, Mismatches: 90, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
244 35 0.06
245 70 0.11
246 62 0.10
247 38 0.06
248 123 0.20
249 274 0.43
250 28 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (243 bp):
AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACA
GCATAACTCAAGGCGAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGACTACACTCAGCTCTAA
GGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTC
GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
Found at i:849682 original size:329 final size:326
Alignment explanation
Indices: 848932--849893 Score: 1135
Period size: 329 Copynumber: 2.9 Consensus size: 326
848922 TGCAACTTAG
* * * *
848932 CTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGGTTAGCTCCAAGGCA
1 CTCAAGGCGAGAAGGGCTATCTGCCA--AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA
* * * *
848997 CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAAGACCTCCGAGTTTGAT
64 CATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAT
* * * * * * * * * *
849059 TACACTCAGCTTCGAGGGCACATCATTTGCAGAATAACTCAAGGCTATAAGGGTTATCTGCCAAC
129 TACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG----C
* * * *
849124 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCATAAGTCG
189 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGC-TAAGTCA
* * * *
849189 AGAAGGGCTATCTG--CCAAAGACCCTCGAGTTTGACTACGCTCAGCTTCTAGGGCACATCATTT
253 AGAAGGGCTATCTGTCCCAAAGACCTTCGAGTTAGACTACGCTCAGCTTCTAAGGCACACCATTT
*
849252 ACAGCATAA
318 ACAGAATAA
* * * * * **
849261 CTCAAGGCTAGAAGAGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCCCTTAGG
1 CTCAAGGCGAGAAGGGCTATC--T-GCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGG
* * *
849326 CATATCATTTGCAGTATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
62 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
* * * *
849391 ACTATGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
127 ATTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAA
* ** * * * * * *
849456 AGACCCTCGAGTTCGATTACACTCAGCTTGGAGGGCACATCATTTACAACATAACTCAAGGCTAG
192 AGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAGCT-AAGTCAAG
* * *
849521 AAGGGTTATCTGTCACCAAAGACCTTCGAGTTAGACTAAGCTCAGC-TCTAAGGCACACCATTTG
255 AAGGGCTATCTGTC-CCAAAGACCTTCGAGTTAGACTACGCTCAGCTTCTAAGGCACACCATTTA
849585 CAGAATAA
319 CAGAATAA
* * * *
849593 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACC
1 CTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-C
* *
849658 AACATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATT
65 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATT
849723 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGA
130 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGA
* *
849788 CCTTCGAGTTCGATTATACCCAGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAGTCAAGAAG
195 CCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAGC-TAAGTCAAGAAG
* * *
849853 GGCTATCTGTCTTCAAAGACCTTTGAGTTCGACTACGCTCA
258 GGCTATCTGTC-CCAAAGACCTTCGAGTTAGACTACGCTCA
849894 ACTCCTAGGC
Statistics
Matches: 533, Mismatches: 85, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
328 39 0.07
329 251 0.47
330 40 0.08
331 70 0.13
332 41 0.08
333 68 0.13
334 24 0.05
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (326 bp):
CTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACA
TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTA
CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGAC
CTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTAAGTCAAGAAGGGC
TATCTGTCCCAAAGACCTTCGAGTTAGACTACGCTCAGCTTCTAAGGCACACCATTTACAGAATA
A
Found at i:849981 original size:413 final size:410
Alignment explanation
Indices: 848960--849950 Score: 1141
Period size: 413 Copynumber: 2.4 Consensus size: 410
848950 ATCTGCCACC
***** * * *
848960 AAGACCTTCGAGTTCGACTACGGTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTATACCCAGCTCAAAGGAACATCATTTGCAGCATAGCTTAAGTCAAG
* * * * *
849025 AAGGGCTATCTGCCAAAAGA-CCTCCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGC
66 AAGGGCTATCTGCC-AAAGACCCT-CGAGTTCGACTACACTCAACTCCGAGGGCACATCATTTAC
* * * * * * * *
849089 AGA-ATAACTCAAGGCTATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
129 A-ACATAACTCAAAGCAAGAAGGGCTATATGTCAA-CAAAGACCTTCGAGTTAGACTAAGCTCAG
* * *
849153 CTCCAAGGCACATCATTTGCAGCATAGCATAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
192 CTCCAAGGCACACCATTTGCAGAATAACATAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
* * * * * * *
849218 TTTGACTACGCTCAGCTTCTAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGAGTTATCT
257 TTCGACTACACTCAGCTTCAAAGGCACAACATTTACAACATAACTCAAGGCGAGAAGAGTTATCT
* * * *
849283 ATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCCCTTAGGCATATCATTTGCAGTATAACTT
322 ACCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCCCTAAGGCACATCATTTGCAGCATAACTT
*
849348 AAGTCGAGAAAGGTTATCTGCCAACCA
387 AAGTCGAGAAAGGATATCTG---ACCA
* * * *
849375 AAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTATACCCAGCTCAAAGGAACATCATTTGCAGCATAGCTTAAGTCAAG
* * **
849440 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTGGAGGGCACATCATTTACAA
66 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAACTCCGAGGGCACATCATTTACAA
* * * * * *
849505 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTAGACTAAGCTCAGCTCT
131 CATAACTCAAAGCAAGAAGGGCTATATGTCAACAAAGACCTTCGAGTTAGACTAAGCTCAGCTCC
* *
849570 AAGGCACACCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCG
196 AAGGCACACCATTTGCAGAATAACATAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCG
* * * * * *
849635 ATTACACTCAGC-TCAAAGGCACCAACATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCC
261 ACTACACTCAGCTTCAAAGGCA-CAACATTTACAACATAACTCAAGGCGAGAAGAGTTATCTACC
* *
849699 AACC-AAAGACCTTCGAGTTCGATTACGCTCAGCTCC-AAGGCACATCATTTGCAGCATAGCTTA
325 -ACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-CCTAAGGCACATCATTTGCAGCATAACTTA
*
849762 AGTCGAGAAGGGATATCTG-CCA
388 AGTCGAGAAAGGATATCTGACCA
* *
849784 AAGACCTTCGAGTTCGATTATACCCAGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAGTCAA
1 AAGACCTTCGAGTTCGACTATACCCAGCTCAAAGG-AACATCATTTGCAGCATAGCTTAAGTCAA
* * * *
849849 GAAGGGCTATCTGTCTTCAAAGACCTTTGAGTTCGACTACGCTCAACTCCTA-GGCACTATCATT
65 GAAGGGCTATCTG-C--CAAAGACCCTCGAGTTCGACTACACTCAACTCCGAGGGCAC-ATCATT
** * * *
849913 TGTAGCATAGCTCAAAGCAAGAGGGGGCTATATGTCAA
126 TACAACATAACTCAAAGCAAGA-AGGGCTATATGTCAA
849951 TAAAATTGTC
Statistics
Matches: 502, Mismatches: 63, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
409 34 0.07
410 40 0.08
411 1 0.00
412 12 0.02
413 250 0.50
414 87 0.17
415 78 0.16
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (410 bp):
AAGACCTTCGAGTTCGACTATACCCAGCTCAAAGGAACATCATTTGCAGCATAGCTTAAGTCAAG
AAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAACTCCGAGGGCACATCATTTACAA
CATAACTCAAAGCAAGAAGGGCTATATGTCAACAAAGACCTTCGAGTTAGACTAAGCTCAGCTCC
AAGGCACACCATTTGCAGAATAACATAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCG
ACTACACTCAGCTTCAAAGGCACAACATTTACAACATAACTCAAGGCGAGAAGAGTTATCTACCA
CCAAAAGACCTTCGAGTTCGACTACGCTCAGCCCTAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAAGGATATCTGACCA
Found at i:850503 original size:2 final size:2
Alignment explanation
Indices: 850496--850525 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
850486 TTTCGTCCAC
850496 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
850526 GTTTGCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:850604 original size:37 final size:36
Alignment explanation
Indices: 850554--850825 Score: 269
Period size: 37 Copynumber: 7.2 Consensus size: 36
850544 AAGATATATA
*
850554 TATATAATATATAGTTTCTAAAAACATTTTGAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAAT
*
850590 GTATATAATATATAGTTTTTAAAAA-ACTTTTGAAAAC
1 -TATATAATATATAGTTTTTAAAAACA-TTTTGAAAAT
850627 TATATAATATATAGTTTTT-AAAACATTTTAGAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTT-GAAAAT
*
850663 ATATATAATATATAGTTTTTAAAATCATTTTGAAAAACT
1 -TATATAATATATAGTTTTTAAAAACATTTTG-AAAA-T
*** *
850702 TATATAATATATAGTTTTTGAAAATTTTTTTTAAATAAACT
1 TATATAATATATAGTTTTT-AAAA-ACATTTT-GA-AAA-T
** *
850743 TATATAATATATAGTTTTTGAAAATATTTTTTTAAAACT
1 TATATAATATATAGTTTTT-AAAA-ACATTTTGAAAA-T
* **
850782 TATATAATATATAATTTAAAAAAAACATTTTGGAAAAT
1 TATATAATATATAGTTT-TTAAAAACATTTT-GAAAAT
850820 TATATA
1 TATATA
850826 GTTTTCAAAA
Statistics
Matches: 207, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
35 8 0.04
36 26 0.13
37 52 0.25
38 44 0.21
39 34 0.16
40 7 0.03
41 36 0.17
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAAT
Found at i:850753 original size:39 final size:39
Alignment explanation
Indices: 850591--850794 Score: 219
Period size: 39 Copynumber: 5.3 Consensus size: 39
850581 TTTGAAAATG
*** *
850591 TATATAATATATAGTTTTT-AAAA-AACTTTTGAAAAC-
1 TATATAATATATAGTTTTTGAAAATTTTTTTTAAAAACT
**
850627 TATATAATATATAGTTTTT-AAAA--CATTTTAGAAAA-T
1 TATATAATATATAGTTTTTGAAAATTTTTTTTA-AAAACT
** *
850663 ATATATAATATATAGTTTTT-AAAATCATTTTGAAAAACT
1 -TATATAATATATAGTTTTTGAAAATTTTTTTTAAAAACT
850702 TATATAATATATAGTTTTTGAAAATTTTTTTTAAATAAACT
1 TATATAATATATAGTTTTTGAAAATTTTTTTT-AA-AAACT
850743 TATATAATATATAGTTTTTGAAAATATTTTTTT-AAAACT
1 TATATAATATATAGTTTTTGAAAAT-TTTTTTTAAAAACT
850782 TATATAATATATA
1 TATATAATATATA
850795 ATTTAAAAAA
Statistics
Matches: 149, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
35 4 0.03
36 27 0.18
37 23 0.15
38 23 0.15
39 32 0.21
40 3 0.02
41 30 0.20
42 7 0.05
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (39 bp):
TATATAATATATAGTTTTTGAAAATTTTTTTTAAAAACT
Found at i:850895 original size:35 final size:32
Alignment explanation
Indices: 850789--850893 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 32
850779 ACTTATATAA
* *
850789 TATATAATTT-AAAAAAAACATTTTGGAAAAT
1 TATATAGTTTAAAAAAAAACATTTTTGAAAAT
**
850820 TATATAGTTTTCAAAAAAAATATTTTTTTGAAAAT
1 TATATAG-TTT-AAAAAAAA-ACATTTTTGAAAAT
850855 TATATAGTTTAAAAAAAAACATTTTTGAAAATT
1 TATATAGTTTAAAAAAAAACATTTTTGAAAA-T
850888 TATATA
1 TATATA
850894 TAATATTGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.10
32 14 0.22
33 15 0.24
34 10 0.16
35 18 0.29
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (32 bp):
TATATAGTTTAAAAAAAAACATTTTTGAAAAT
Found at i:850933 original size:10 final size:10
Alignment explanation
Indices: 850920--850986 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 10
850910 AAAGTTTATA
850920 TTATATTTTT
1 TTATATTTTT
850930 TTAT-TTTTT
1 TTATATTTTT
850939 TTAT-TTTTT
1 TTATATTTTT
*
850948 TTATTTTTTT
1 TTATATTTTT
850958 ATTATTATTATTT
1 -TTA-TATT-TTT
* *
850971 TT-TATTATA
1 TTATATTTTT
850980 TTATATT
1 TTATATT
850987 ATATATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 21 0.43
10 17 0.35
11 3 0.06
12 5 0.10
13 3 0.06
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATATTTTT
Found at i:850939 original size:9 final size:9
Alignment explanation
Indices: 850920--850978 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
850910 AAAGTTTATA
850920 TTATATTTTT
1 TTAT-TTTTT
850930 TTATTTTTT
1 TTATTTTTT
850939 TTATTTTTT
1 TTATTTTTT
850948 TTA-TTTTT
1 TTATTTTTT
* *
850956 TTATTATTA
1 TTATTTTTT
850965 TTATTTTTT
1 TTATTTTTT
850974 ATTAT
1 -TTAT
850979 ATTATATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.19
9 27 0.63
10 8 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTATTTTTT
Found at i:850945 original size:17 final size:17
Alignment explanation
Indices: 850920--850973 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
850910 AAAGTTTATA
850920 TTATATTTTTTTATTTTTT
1 TTAT-TTTTTTTA-TTTTT
850939 TTATTTTTTTTATTTTT
1 TTATTTTTTTTATTTTT
* *
850956 TTATTATTATTATTTTT
1 TTATTTTTTTTATTTTT
850973 T
1 T
850974 ATTATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 21 0.64
18 8 0.24
19 4 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTTTTATTTTT
Found at i:850986 original size:26 final size:23
Alignment explanation
Indices: 850939--850988 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 23
850929 TTTATTTTTT
*
850939 TTATTTTTTTTATTTTTTTATTA
1 TTATTTTTTTTATTTTTATATTA
850962 TTATTATTTTTTATTATATTATATTA
1 TTATT-TTTTTTATT-T-TTATATTA
850988 T
1 T
850989 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 9 0.39
25 1 0.04
26 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TTATTTTTTTTATTTTTATATTA
Found at i:850987 original size:10 final size:10
Alignment explanation
Indices: 850957--851007 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
850947 TTTATTTTTT
850957 TATTATTATTA
1 TATTA-TATTA
* *
850968 TTTTTTATTA
1 TATTATATTA
850978 TATTATATTA
1 TATTATATTA
850988 TA-TATATATA
1 TATTATAT-TA
850998 TATATATATT
1 TAT-TATATT
851008 CTTCAGGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 19 0.58
11 4 0.12
12 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTATATTA
Found at i:852041 original size:18 final size:18
Alignment explanation
Indices: 852018--852074 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
852008 CACACTTTTG
**
852018 TTTATTTATTTTGGTTAT
1 TTTATTTATTTTACTTAT
852036 TTTATTTATTTTACTTAT
1 TTTATTTATTTTACTTAT
852054 TTTATTTTATTTTACTT-T
1 TTTA-TTTATTTTACTTAT
852072 TTT
1 TTT
852075 TCTGAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 24 0.67
19 12 0.33
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTATTTATTTTACTTAT
Found at i:852042 original size:5 final size:5
Alignment explanation
Indices: 852032--852072 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
852022 TTTATTTTGG
*
852032 TTATT TTA-T TTATT TTA-C TTATT TTATT TTATT TTACTT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA-TT TT
852073 TTTCTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 7 0.23
5 20 0.65
6 4 0.13
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:852044 original size:9 final size:9
Alignment explanation
Indices: 852018--852067 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
852008 CACACTTTTG
852018 TTTATTTAT
1 TTTATTTAT
**
852027 TTTGGTTAT
1 TTTATTTAT
852036 TTTATTTAT
1 TTTATTTAT
*
852045 TTTACTTAT
1 TTTATTTAT
852054 TTTATTTTAT
1 TTTA-TTTAT
852064 TTTA
1 TTTA
852068 CTTTTTTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:852075 original size:9 final size:10
Alignment explanation
Indices: 852032--852075 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
852022 TTTATTTTGG
852032 TTATTTTA-T
1 TTATTTTACT
852041 TTATTTTAC-
1 TTATTTTACT
*
852050 TTATTTTATT
1 TTATTTTACT
852060 TTATTTTACT
1 TTATTTTACT
852070 TT-TTTT
1 TTATTTT
852076 CTGAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 20 0.65
10 11 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTACT
Found at i:852158 original size:15 final size:14
Alignment explanation
Indices: 852105--852156 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
852095 AGAATCTAAC
852105 ATTTTTTTCTTTTT
1 ATTTTTTTCTTTTT
*
852119 AGTTTTTTCTTATTTT
1 ATTTTTTTC-T-TTTT
*
852135 ATCTTTTATCTTTTT
1 AT-TTTTTTCTTTTT
852150 ATTTTTT
1 ATTTTTT
852157 ATTTATTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 12 0.39
15 7 0.23
16 6 0.19
17 6 0.19
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.79
Consensus pattern (14 bp):
ATTTTTTTCTTTTT
Found at i:852159 original size:7 final size:7
Alignment explanation
Indices: 852105--852160 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
852095 AGAATCTAAC
852105 ATTTTTT
1 ATTTTTT
852112 -TCTTTTT
1 AT-TTTTT
852119 AGTTTTTT
1 A-TTTTTT
*
852127 CTTATTTT
1 ATT-TTTT
*
852135 ATCTTTT
1 ATTTTTT
852142 ATCTTTTT
1 AT-TTTTT
852150 ATTTTTT
1 ATTTTTT
852157 ATTT
1 ATTT
852161 ATTGATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.03
7 22 0.55
8 16 0.40
9 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:853269 original size:15 final size:15
Alignment explanation
Indices: 853249--853286 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
853239 TTTGAAGCTC
* *
853249 TCGTCGTCGTCGCTG
1 TCGTCGCCGTCACTG
853264 TCGTCGCCGTCACTG
1 TCGTCGCCGTCACTG
853279 TCGTCGCC
1 TCGTCGCC
853287 ATCGAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.03, C:0.39, G:0.29, T:0.29
Consensus pattern (15 bp):
TCGTCGCCGTCACTG
Found at i:861026 original size:744 final size:740
Alignment explanation
Indices: 859418--861473 Score: 2759
Period size: 744 Copynumber: 2.8 Consensus size: 740
859408 AAATGATTCG
* * *
859418 AATTCGAATCAATTAACGCATGACGGATGATGGTTGTAGTTTTCCTTTTCTGTGTCCATTGGGAG
1 AATTCGAATCAATTAACGCATGACGGATGATGGTTGTAGTTGTCATTTTCTGTGTCCATCGGGAG
*
859483 ATTTAGTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTATGAAATATT
66 ATTTAGTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTACGAAATATT
* * *
859548 GTTAAGTTTTAATCTTTCAGATTGTATGAAGTTGATTTTCTAC-T--TTACTTTATCTTTTTTAC
131 GTTAAGTTTTAATCTTTTAGATTGTATGAAGTTGGTTTTCTACTTACTTACTTTATCTTATTTAC
* ** * *
859610 AATTACGATGTTTACAGTATTTTGTGGTTTTTAATAATAGTTTGGTTTAAATGAAAAAAATATCC
196 AATTACGATGTTTACAGTGTTTTGTGGTTTTTAACGATAGTTTGGTTTAAATGAAAAATATATCA
**
859675 AATCCAAA--AAATTT-GTCTTTGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTATTT
261 AATCCAAATTATTTTTGGTCTTTGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTATTT
* *
859737 CAAACAAATTCAAATCCAATGTTAGAATATAAAAGTTTTTTGAAACAAATTCTAATTGTTTATAA
326 CAAACAAA-T----T-CAATGTTAGAATATAAAAGTTTTTTTAAACAAATTCTAATTATTTATAA
*
859802 TACATGTTCCTTACTGTGAG--------AACAAATTCAAATTCAACGCAGTAGATATACAGTGCG
385 TACATGTTCCTTACAGTGAGTTTTTTTTAACAAATTCAAATTCAACGCAGTAGATATACAGTGCG
* * * *
859859 TACTAATAC---A-ATCA--ATA-C--T-T-TTCAATTATATGAAATTCCAGTGCGTTTCAACGA
450 TACCAATACGATACATCATTGTATCGATATGTTCAATTATGTGAAATTCCAGTGGGTTTCAACG-
* * * * *
859913 TACCGATACATACTATGTACCGATACCATTAAATTACACGTACCGATACTCATTAATGATCATAC
514 TATCGATACAGACTGTGTACCGATACCATTCAATTACACGTACCGATACTCATTAATGATCGTAC
* *
859978 CGGTACACGCGAGCCTTGTGACATTAGTTTTATTAGTGATTCATTGACATAAAAACATGTTTTAG
579 CGGTACACACGAGCCTAGTGACATTAGTTTTATTAGTGATTCATTGACATAAAAACATGTTTTAG
* * * *
860043 TTTTTGTCGTTGTTGTGATTACTAATGTTATTTTCTATAATTTTTTACTTTAATGATAAACAAAA
644 TTTTTGTCGTTGTTGCGATTACTAATGCTATTTTCTATAATTTTTCACTCTAATGATAAACAAAA
* ** * *
860108 CTAGGTCTGAGTGTGCCTCGATAACATATTAA
709 CTAGGTCTGAGCGCACCTCAATAACATATCAA
* ** ** * * *
860140 AATTCAAATCAGCTAACGCATGGTGGATAACGGTTGTAGTTGTCTTTTTCTGTGTCCATCGGGAG
1 AATTCGAATCAATTAACGCATGACGGATGATGGTTGTAGTTGTCATTTTCTGTGTCCATCGGGAG
* * * ** * * *
860205 ATTTAGTTTAGTTATGTTATTCTAGATATACATTCAGGACATAAAAGTTATATATACGGAATACT
66 ATTTAGTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTACGAAATATT
* * *
860270 GTTAAATTTTAATCTTTTAGATTGCATGAAGTTGGTTTTCTACTTACATTAATTTTATCTTATTT
131 GTTAAGTTTTAATCTTTTAGATTGTATGAAGTTGGTTTTCTACTTAC-TT-ACTTTATCTTATTT
* *
860335 ACAATTACGATATTTACAGTGTTTTGTGGTTTTTAACGATAATTTGGTTTAAATGAAAAATATAT
194 ACAATTACGATGTTTACAGTGTTTTGTGGTTTTTAACGATAGTTTGGTTTAAATGAAAAATATAT
*
860400 CAAATCCAAATTATTTTTGGTCTTTGGATTTAAATACGAGTGTCAAATAAAAATATAAAACTTAT
259 CAAATCCAAATTATTTTTGGTCTTTGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTAT
* * *
860465 TTGAAACAAATTCAATGTTGGAATATAAAAGTATTTTTTAAATAAATTCTAATTATTTATAATAC
324 TTCAAACAAATTCAATGTTAGAATATAAAAGT-TTTTTTAAACAAATTCTAATTATTTATAATAC
* * * *
860530 GTGTTCCTTACAGTGAGTTTTTTTTAACAAATTCAAATTCAACGTAGTAGAAATACAGTGTGTAC
388 ATGTTCCTTACAGTGAGTTTTTTTTAACAAATTCAAATTCAACGCAGTAGATATACAGTGCGTAC
*
860595 CAATACGATACATCATGTGTATCGATAATGTTCAATTATGTGAAATTACAGTGGGTTTCAACAGT
453 CAATACGATACATCAT-TGTATCGAT-ATGTTCAATTATGTGAAATTCCAGTGGGTTTCAAC-GT
* * *
860660 ATC-ATTACAGACTGTGTACCGATACCATTCAATTACACGTACTGATACTCATTAGTGATCGTAT
515 ATCGA-TACAGACTGTGTACCGATACCATTCAATTACACGTACCGATACTCATTAATGATCGTAC
* * *
860724 CGGTACGCAC-ATGCCTAGTGATATTATTTTTATTAGTGATTCATTGACAT-AAAA-ATGTTTTA
579 CGGTACACACGA-GCCTAGTGACATTAGTTTTATTAGTGATTCATTGACATAAAAACATGTTTTA
* *
860786 GTTTTTTGTTGTTGTTGCGATTACTAATGCTATTTTCTATAATTTTTCACTCTCATGATAAACAA
643 G-TTTTTGTCGTTGTTGCGATTACTAATGCTATTTTCTATAATTTTTCACTCTAATGATAAACAA
* *
860851 GACTAGGTCTGAGCGCACCTCAATACCATATCAA
707 AACTAGGTCTGAGCGCACCTCAATAACATATCAA
*
860885 AATTCGAATCAATTAA-GCATGACAGATGATGGTTGTAGTTGTCATTTTCTGTGTCCATCGGGAG
1 AATTCGAATCAATTAACGCATGACGGATGATGGTTGTAGTTGTCATTTTCTGTGTCCATCGGGAG
*
860949 ATTTATTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTACGAAATATT
66 ATTTAGTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTACGAAATATT
861014 GTTAAGTTTTAATCTTTTAGATTGTATGAAGTTGGTTTTCTACTTACTTTACTTTATCTTATTTA
131 GTTAAGTTTTAATCTTTTAGATTGTATGAAGTTGGTTTTCTACTTAC-TTACTTTATCTTATTTA
* *
861079 CAATTACAATGTTTACAGTGTTTTGTGGTCTTTAACGATAGTTTGGTTTAAATGAAAAATATATC
195 CAATTACGATGTTTACAGTGTTTTGTGGTTTTTAACGATAGTTTGGTTTAAATGAAAAATATATC
* *
861144 TAATCCAAATTATTTTTGGTCTTGGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTATT
260 AAATCCAAATTATTTTTGGTCTTTGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTA-T
*
861209 TTAAACAAATTCAAATTCAATGTTAGAATATAAAAGTTTTTTTTGAAACAAATTCTAATTTTTTA
324 TT---CAAA--CAAATTCAATGTTAGAATATAAAAG-TTTTTTT-AAACAAATTCTAATTATTTA
* * *
861274 TAATACATGTTCCTTACAGTGAGTTTTTTTTGGAACAAATACAAATTCAACACAGTGGATATACA
382 TAATACATGTTCCTTACAGTGAGTTTTTTTT--AACAAATTCAAATTCAACGCAGTAGATATACA
** * * *
861339 ACGCGTACCGATATGATACAACATTTGTATCGATACTGTTCAATTATGTGAAATTCCAGTGGGTT
445 GTGCGTACCAATACGATACATCA-TTGTATCGATA-TGTTCAATTATGTGAAATTCCAGTGGGTT
* * * * *
861404 TCAATGGTATCGATACAGATTGTGTACTGATACAATCCAATTACACGTACCGATACTCATTAATG
508 TCAA-CGTATCGATACAGACTGTGTACCGATACCATTCAATTACACGTACCGATACTCATTAATG
861469 ATCGT
572 ATCGT
861474 TATTGTACGT
Statistics
Matches: 1157, Mismatches: 129, Indels: 66
0.86 0.10 0.05
Matches are distributed among these distances:
722 150 0.13
723 1 0.00
724 19 0.02
725 45 0.04
726 2 0.00
727 80 0.07
729 5 0.00
730 54 0.05
733 42 0.04
736 1 0.00
737 4 0.00
740 2 0.00
741 1 0.00
743 136 0.12
744 157 0.14
745 104 0.09
746 127 0.11
747 4 0.00
749 30 0.03
750 49 0.04
751 1 0.00
752 141 0.12
753 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (740 bp):
AATTCGAATCAATTAACGCATGACGGATGATGGTTGTAGTTGTCATTTTCTGTGTCCATCGGGAG
ATTTAGTTTAGTTATGTTATTCTATATATACATTCAAGAAATACTAGTTATATGTACGAAATATT
GTTAAGTTTTAATCTTTTAGATTGTATGAAGTTGGTTTTCTACTTACTTACTTTATCTTATTTAC
AATTACGATGTTTACAGTGTTTTGTGGTTTTTAACGATAGTTTGGTTTAAATGAAAAATATATCA
AATCCAAATTATTTTTGGTCTTTGGATTCAAATACGAGTGTCAAATAAAAATATAAAACTTATTT
CAAACAAATTCAATGTTAGAATATAAAAGTTTTTTTAAACAAATTCTAATTATTTATAATACATG
TTCCTTACAGTGAGTTTTTTTTAACAAATTCAAATTCAACGCAGTAGATATACAGTGCGTACCAA
TACGATACATCATTGTATCGATATGTTCAATTATGTGAAATTCCAGTGGGTTTCAACGTATCGAT
ACAGACTGTGTACCGATACCATTCAATTACACGTACCGATACTCATTAATGATCGTACCGGTACA
CACGAGCCTAGTGACATTAGTTTTATTAGTGATTCATTGACATAAAAACATGTTTTAGTTTTTGT
CGTTGTTGCGATTACTAATGCTATTTTCTATAATTTTTCACTCTAATGATAAACAAAACTAGGTC
TGAGCGCACCTCAATAACATATCAA
Found at i:863280 original size:20 final size:20
Alignment explanation
Indices: 863257--863316 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
863247 TAAAGGTATG
*
863257 GGTCAACGGTCAAAGTCAAT
1 GGTCAATGGTCAAAGTCAAT
* *
863277 GGTCAATGGTCAGAGTTAAT
1 GGTCAATGGTCAAAGTCAAT
* *
863297 AGTCAATGATCAATAGTCAA
1 GGTCAATGGTCAA-AGTCAA
863317 CAATCCGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 27 0.84
21 5 0.16
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (20 bp):
GGTCAATGGTCAAAGTCAAT
Found at i:865345 original size:36 final size:36
Alignment explanation
Indices: 865303--865378 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
865293 TTATAGCTAA
*
865303 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
865339 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
865375 AAAA
1 AAAA
865379 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:880928 original size:31 final size:30
Alignment explanation
Indices: 880847--880930 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
880837 GGACTAGTGG
* *
880847 CTAAAAA-GTAAAATTTGAAAA-TTTAGGGC
1 CTAAAAATGT-AAATTTTAAAAGTTTAGGGA
* *
880876 CT-AAAGTGTAAAGTTATAAAAGTTTAGGGA
1 CTAAAAATGTAAA-TTTTAAAAGTTTAGGGA
880906 CTAAAAATGTAAATTTTCAAAAGTT
1 CTAAAAATGTAAATTTT-AAAAGTT
880931 ATGTATTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.14
29 10 0.23
30 12 0.27
31 16 0.36
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (30 bp):
CTAAAAATGTAAATTTTAAAAGTTTAGGGA
Found at i:881319 original size:29 final size:30
Alignment explanation
Indices: 881268--881329 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
881258 AAATTTTGTC
* **
881268 TAGTGACTAAAGTGTAAGTTTTG-AAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
*
881297 TAGTGGCTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
881327 TAG
1 TAG
881330 GGACCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (30 bp):
TAGTGACTAAAGTATAAACTTTGAAAAGTT
Found at i:881420 original size:17 final size:18
Alignment explanation
Indices: 881398--881431 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
881388 ATTACAACAG
881398 AGATTTTAGT-GGGAATC
1 AGATTTTAGTAGGGAATC
*
881415 AGATTTTGGTAGGGAAT
1 AGATTTTAGTAGGGAAT
881432 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.35
Consensus pattern (18 bp):
AGATTTTAGTAGGGAATC
Found at i:886421 original size:14 final size:15
Alignment explanation
Indices: 886385--886425 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
886375 ATTCATATTA
886385 ATAATGTTT-TTTTT
1 ATAATGTTTATTTTT
886399 ATAATTGTTTATTTTT
1 ATAA-TGTTTATTTTT
886415 AT-ATG-TTATTT
1 ATAATGTTTATTT
886426 ATTTAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 6 0.24
16 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
ATAATGTTTATTTTT
Found at i:890187 original size:28 final size:27
Alignment explanation
Indices: 890152--890207 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
890142 GCTCACCGTT
890152 TATTTTTTATT-TTTTAAATAATAAAAA
1 TATTTTTT-TTATTTTAAATAATAAAAA
* *
890179 TATTGTTTTTTATTTTTATTAATAAAAA
1 TATT-TTTTTTATTTTAAATAATAAAAA
890207 T
1 T
890208 TTATTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTTTTTTTATTTTAAATAATAAAAA
Found at i:891966 original size:31 final size:31
Alignment explanation
Indices: 891896--891973 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
891886 CTTTTAAAAC
** *
891896 TTGCAATACAGTCCCCTAACATTTAGTATGT
1 TTGCAATATGGTCCCCCAACATTTAGTATGT
*
891927 TTGCAATATGGTCCCCCAACATTTAGTTTGT
1 TTGCAATATGGTCCCCCAACATTTAGTATGT
*
891958 TTGCAATATGATCCCC
1 TTGCAATATGGTCCCC
891974 GACCTTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTATGT
Found at i:893948 original size:31 final size:31
Alignment explanation
Indices: 893910--893976 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
893900 CAAACGGTTA
893910 GGGACCATATTGCAAATAGACTAAATATTGG
1 GGGACCATATTGCAAATAGACTAAATATTGG
* *
893941 GGGACCATTTTGCAAATAGACTAAATGTTGG
1 GGGACCATATTGCAAATAGACTAAATATTGG
893972 GGGAC
1 GGGAC
893977 TGTATTGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (31 bp):
GGGACCATATTGCAAATAGACTAAATATTGG
Found at i:898317 original size:4 final size:4
Alignment explanation
Indices: 898295--898412 Score: 89
Period size: 4 Copynumber: 27.8 Consensus size: 4
898285 AAAAAGGACA
* * *
898295 AAAT AAA- ATAT ATAAT AAAT AAAT AAA- AACT AGA- AAAT AAAT AAAT
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
898341 AAAT ACAAT AAAG ATAAT AAAT AAGAT AAGAT AAGAT AAGAT AAGAT AAGAT
1 AAAT A-AAT AAAT A-AAT AAAT AA-AT AA-AT AA-AT AA-AT AA-AT AA-AT
898393 AAGAT AAAT AAAT AAAT AAA
1 AA-AT AAAT AAAT AAAT AAA
898413 GAGTATATAT
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
3 6 0.06
4 49 0.49
5 44 0.44
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:898350 original size:9 final size:8
Alignment explanation
Indices: 898295--898412 Score: 89
Period size: 10 Copynumber: 13.9 Consensus size: 8
898285 AAAAAGGACA
898295 AAATAAA-
1 AAATAAAT
*
898302 ATATATAAT
1 AAATA-AAT
898311 AAATAAAT
1 AAATAAAT
*
898319 AAA-AACT
1 AAATAAAT
*
898326 AGA-AAAT
1 AAATAAAT
898333 AAATAAAT
1 AAATAAAT
898341 AAATACAAT
1 AAATA-AAT
*
898350 AAAGATAAT
1 AAATA-AAT
898359 AAATAAGAT
1 AAATAA-AT
898368 AAGATAAGAT
1 AA-ATAA-AT
898378 AAGATAAGAT
1 AA-ATAA-AT
898388 AAGATAAGAT
1 AA-ATAA-AT
898398 AAATAAAT
1 AAATAAAT
898406 AAATAAA
1 AAATAAA
898413 GAGTATATAT
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
7 14 0.15
8 27 0.28
9 26 0.27
10 29 0.30
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (8 bp):
AAATAAAT
Found at i:898359 original size:22 final size:25
Alignment explanation
Indices: 898306--898369 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
898296 AATAAAATAT
898306 ATAATAAATAAATAAAAACTAGAAA
1 ATAATAAATAAATAAAAACTAGAAA
* *
898331 ATAAATAAATAAAT-ACAA-TA-AAG
1 AT-AATAAATAAATAAAAACTAGAAA
898354 ATAATAAATAAGATAA
1 ATAATAAATAA-ATAA
898370 GATAAGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.26
23 6 0.18
24 3 0.09
25 5 0.15
26 11 0.32
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (25 bp):
ATAATAAATAAATAAAAACTAGAAA
Found at i:898381 original size:15 final size:14
Alignment explanation
Indices: 898331--898411 Score: 84
Period size: 15 Copynumber: 5.9 Consensus size: 14
898321 AAACTAGAAA
898331 ATAAATAA-ATAA-
1 ATAAATAAGATAAG
898343 ATACAATAAAGAT-A-
1 ATA-AAT-AAGATAAG
898357 ATAAATAAGATAAG
1 ATAAATAAGATAAG
898371 ATAAGATAAGATAAG
1 ATAA-ATAAGATAAG
898386 ATAAGATAAGATAA-
1 ATAA-ATAAGATAAG
898400 ATAAATAA-ATAA
1 ATAAATAAGATAA
898412 AGAGTATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.19
13 11 0.17
14 14 0.22
15 26 0.41
ACGTcount: A:0.67, C:0.01, G:0.10, T:0.22
Consensus pattern (14 bp):
ATAAATAAGATAAG
Found at i:898570 original size:21 final size:20
Alignment explanation
Indices: 898546--898585 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
898536 AAAGTAGTAG
898546 ATAAAAAAGAAATAAAATAAA
1 ATAAAAAAGAAA-AAAATAAA
*
898567 ATAAAAAATAAAAAAATAA
1 ATAAAAAAGAAAAAAATAA
898586 TAACGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (20 bp):
ATAAAAAAGAAAAAAATAAA
Found at i:898577 original size:17 final size:16
Alignment explanation
Indices: 898546--898579 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
898536 AAAGTAGTAG
*
898546 ATAAAAAAGAAATAAA
1 ATAAAAAAAAAATAAA
898562 ATAAAATAAAAAATAAA
1 ATAAAA-AAAAAATAAA
898579 A
1 A
898580 AAATAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
ATAAAAAAAAAATAAA
Found at i:900522 original size:123 final size:124
Alignment explanation
Indices: 900257--900561 Score: 432
Period size: 123 Copynumber: 2.5 Consensus size: 124
900247 CAGACGCTTC
* * * * * *
900257 TTCGCTGTGAAGTTGAGCTTTGAATTGAATATCCTTCGTTGTGAAGTTGAAATCCAATATGAAGA
1 TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAATATAAAGA
** ** * *
900322 TGGATGTTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATTGTGGATGGCCTA
66 TGGATGTTGCTGGTGGAAACGATATCCTTCGTCATGAAGTTGAAAGCGTGGATGACCCA
* * * *
900381 TTCGTTGTAAAGCTGAGCCTTGAATTGGATATCCTTTGTCGTGAAGTTAAAATCCAATTTAAAGA
1 TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAATATAAAGA
* *
900446 TGGATGTT-CTTGTGGAAACGATATCCTTCGTCATGAATTTGAAAGCGTGGATGACCCA
66 TGGATGTTGCTGGTGGAAACGATATCCTTCGTCATGAAGTTGAAAGCGTGGATGACCCA
*
900504 TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAATTAAAATCCAAT
1 TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAAT
900562 CTTGAGTAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 96 0.60
124 63 0.40
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (124 bp):
TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAATATAAAGA
TGGATGTTGCTGGTGGAAACGATATCCTTCGTCATGAAGTTGAAAGCGTGGATGACCCA
Found at i:901410 original size:29 final size:29
Alignment explanation
Indices: 901372--901487 Score: 151
Period size: 29 Copynumber: 3.9 Consensus size: 29
901362 ACCCACCTTA
*
901372 TTTTCTTTTTTTTTCTTTTTTTCTTTTCTC
1 TTTTCTTTTCTTTTCTTTTTTT-TTTTCTC
*
901402 TTTTCTTTTCTTTTCTTTTTATTTTTCTC
1 TTTTCTTTTCTTTTCTTTTTTTTTTTCTC
* *
901431 TTTTCTTTTCTTTTATTTTTATTTTTCTCTT
1 TTTTCTTTTCTTTTCTTTTT-TTTTT-TCTC
*
901462 TTTCTCTTTTCTTTTCTTTTATTTTT
1 TTT-TCTTTTCTTTTCTTTTTTTTTT
901488 ATTTTTCTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
29 26 0.34
30 24 0.32
31 11 0.14
32 15 0.20
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTCTTTTCTTTTCTTTTTTTTTTTCTC
Found at i:901473 original size:37 final size:36
Alignment explanation
Indices: 901377--901501 Score: 166
Period size: 37 Copynumber: 3.5 Consensus size: 36
901367 CCTTATTTTC
* *
901377 TTTTTTTTTCTTTTTTTCT-TTTCTCTTTTCTTTT-C
1 TTTTTTTTTCTCTTTTTCTCTTT-TCTTTTCTTTTAT
* *
901412 TTTTCTTTT-TATTTTTCTCTTTTCTTTTCTTTTAT
1 TTTTTTTTTCTCTTTTTCTCTTTTCTTTTCTTTTAT
901447 TTTTATTTTTCTCTTTTTCTCTTTTCTTTTCTTTTAT
1 TTTT-TTTTTCTCTTTTTCTCTTTTCTTTTCTTTTAT
901484 TTTTATTTTTCTCTTTTT
1 TTTT-TTTTTCTCTTTTT
901502 TTTCTATTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
34 19 0.23
35 15 0.19
36 4 0.05
37 43 0.53
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (36 bp):
TTTTTTTTTCTCTTTTTCTCTTTTCTTTTCTTTTAT
Found at i:901476 original size:66 final size:64
Alignment explanation
Indices: 901372--901511 Score: 219
Period size: 66 Copynumber: 2.2 Consensus size: 64
901362 ACCCACCTTA
* * *
901372 TTTTCTTTT-TTTTTCTTTTTTTCTTTTCTCTTTTCTTTTCTTTTCTTTTTATTTTTCTCTTTT
1 TTTTCTTTTATTTTTATTTTTCTCTTTTCTCTTTTCTTTTCTTTTATTTTTATTTTTCTCTTTT
901435 CTTTTCTTTTATTTTTATTTTTCTCTTTTTCTCTTTTCTTTTCTTTTATTTTTATTTTTCTCTTT
1 -TTTTCTTTTATTTTTATTTTTCTC-TTTTCTCTTTTCTTTTCTTTTATTTTTATTTTTCTCTTT
901500 T
64 T
901501 TTTTCTATTTA
1 TTTTCT-TTTA
901512 GGCACCCTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
64 9 0.13
65 18 0.26
66 43 0.61
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (64 bp):
TTTTCTTTTATTTTTATTTTTCTCTTTTCTCTTTTCTTTTCTTTTATTTTTATTTTTCTCTTTT
Found at i:901499 original size:29 final size:29
Alignment explanation
Indices: 901372--901511 Score: 147
Period size: 29 Copynumber: 4.5 Consensus size: 29
901362 ACCCACCTTA
* * *
901372 TTTTCTTTTTTTTTCTTTTTTTCTTTTCTC
1 TTTTCTTTTCTTTTATTTTTAT-TTTTCTC
*
901402 TTTTCTTTTCTTTTCTTTTTATTTTTCTC
1 TTTTCTTTTCTTTTATTTTTATTTTTCTC
901431 TTTTCTTTTCTTTTATTTTTATTTTTCTCTTTTTCTC
1 TTTTCTTTTCTTTTATTTTTA--------TTTTTCTC
901468 TTTTCTTTTCTTTTATTTTTATTTTTCTC
1 TTTTCTTTTCTTTTATTTTTATTTTTCTC
901497 TTTT-TTTTCTATTTA
1 TTTTCTTTTCT-TTTA
901512 GGCACCCTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 19
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.06
29 43 0.44
30 20 0.20
37 29 0.30
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTCTTTTCTTTTATTTTTATTTTTCTC
Found at i:910422 original size:4 final size:4
Alignment explanation
Indices: 910327--910567 Score: 92
Period size: 4 Copynumber: 59.8 Consensus size: 4
910317 AAAGTAATGA
* * * * *
910327 AAAT AAAT ATAA- AAAC AATT AAA- AAAC AAAT GAAAT AAGT AAGAT AGTAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AA-AT A-AAT
* * *
910377 AAAG AAAA AAAT AAA- ATAA- AAAT AAAT AGGAT AAAT ATAAT AAAT AAA-
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT A-AAT AAAT A-AAT AAAT AAAT
* * * * * * *
910425 AAAT ATAT AAA- ATAT AAAG AAA- AAGA- AAAG AAAC AAAG GAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
* * *
910470 AAA- ATAT ATAAT AAAT AAAT AAAT ACTAT AAAG AAAT AAAT AAAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
* *
910519 ACAAT AAAGAT AAA- AAAT AAA- AAAT AAAA AAAA AAAT AAGAT AAAT
1 A-AAT -AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT
910565 AAA
1 AAA
910568 AAAGTGTATA
Statistics
Matches: 183, Mismatches: 30, Indels: 48
0.70 0.11 0.18
Matches are distributed among these distances:
3 26 0.14
4 120 0.66
5 34 0.19
6 3 0.02
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:910434 original size:11 final size:11
Alignment explanation
Indices: 910415--910563 Score: 72
Period size: 11 Copynumber: 12.9 Consensus size: 11
910405 GGATAAATAT
910415 AATAAATAAAA
1 AATAAATAAAA
*
910426 AATATATAAAA
1 AATAAATAAAA
* *
910437 TATAAAGAAAA
1 AATAAATAAAA
*
910448 AGA-AAAGAAACA
1 A-ATAAATAAA-A
*
910460 AAGGAAA-AATAA
1 AA-TAAATAA-AA
* *
910472 AATATATAATA
1 AATAAATAAAA
*
910483 AATAAATAAAT
1 AATAAATAAAA
*
910494 ACT--ATAAAGA
1 AATAAATAAA-A
910504 AATAAATAAATA
1 AATAAATAAA-A
910516 AATACAATAAAGA
1 AATA-AATAAA-A
*
910529 TAAAAAATAAAA
1 -AATAAATAAAA
*
910541 AATAAAAAAAAA
1 AAT-AAATAAAA
910553 AATAAGATAAA
1 AATAA-ATAAA
910564 TAAAAAAGTG
Statistics
Matches: 105, Mismatches: 20, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 43 0.41
12 35 0.33
13 17 0.16
14 3 0.03
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.18
Consensus pattern (11 bp):
AATAAATAAAA
Found at i:910506 original size:13 final size:13
Alignment explanation
Indices: 910479--910528 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
910469 TAAAATATAT
*
910479 AATA-AATAAATA
1 AATACAATAAAGA
*
910491 AATACTATAAAGA
1 AATACAATAAAGA
*
910504 AATA-AATAAATA
1 AATACAATAAAGA
910516 AATACAATAAAGA
1 AATACAATAAAGA
910529 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 14 0.45
13 17 0.55
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (13 bp):
AATACAATAAAGA
Found at i:910507 original size:25 final size:25
Alignment explanation
Indices: 910479--910567 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
910469 TAAAATATAT
*
910479 AATAAATAAATAAATACTATAAAGA
1 AATAAATAAATAAATACAATAAAGA
910504 AATAAATAAATAAATACAATAAAGA
1 AATAAATAAATAAATACAATAAAGA
* * *
910529 TAAAAAATAAA-AAATA-AAAAAAAA
1 -AATAAATAAATAAATACAATAAAGA
910553 AATAAGATAAATAAA
1 AATAA-ATAAATAAA
910568 AAAGTGTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.07
24 11 0.20
25 32 0.57
26 9 0.16
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.19
Consensus pattern (25 bp):
AATAAATAAATAAATACAATAAAGA
Found at i:910508 original size:21 final size:21
Alignment explanation
Indices: 910466--910515 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
910456 AACAAAGGAA
*
910466 AAATAAA-ATATATAATAAAT
1 AAATAAATATATATAAGAAAT
910486 AAATAAATACTATA-AAGAAAT
1 AAATAAATA-TATATAAGAAAT
910507 AAATAAATA
1 AAATAAATA
910516 AATACAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATAAATATATATAAGAAAT
Found at i:910524 original size:17 final size:16
Alignment explanation
Indices: 910327--910567 Score: 92
Period size: 15 Copynumber: 14.9 Consensus size: 16
910317 AAAGTAATGA
*
910327 AAATAAATATAA-AAAC
1 AAATAAATA-AATAAAT
* *
910343 AATTAAA-AAACAAAT
1 AAATAAATAAATAAAT
* *
910358 GAAATAAGTAAGATAGTAT
1 -AAATAAATAA-ATA-AAT
* *
910377 AAAGAAAAAAATAAA-
1 AAATAAATAAATAAAT
*
910392 ATAA-AAATAAATAGGAT
1 A-AATAAATAAATA-AAT
910409 AAATATAATAAATAAA-
1 AAATA-AATAAATAAAT
* *
910425 AAATATATAAA-ATAT
1 AAATAAATAAATAAAT
* *
910440 AAAGAAA-AAGA-AAAG
1 AAATAAATAA-ATAAAT
* **
910455 AAACAAAGGAA-AAAT
1 AAATAAATAAATAAAT
*
910470 AAA-ATATATAATAAAT
1 AAATAAATA-AATAAAT
* *
910486 AAATAAATACTATAAAG
1 AAATAAATA-AATAAAT
910503 AAATAAATAAATAAAT
1 AAATAAATAAATAAAT
910519 ACAATAAAGATAAA-AAAT
1 A-AAT-AA-ATAAATAAAT
* *
910537 AAA-AAATAAAAAAAA
1 AAATAAATAAATAAAT
910552 AAATAAGATAAATAAA
1 AAATAA-ATAAATAAA
910568 AAAGTGTATA
Statistics
Matches: 170, Mismatches: 33, Indels: 43
0.69 0.13 0.17
Matches are distributed among these distances:
14 13 0.08
15 49 0.29
16 38 0.22
17 39 0.23
18 24 0.14
19 7 0.04
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAAATAAATAAAT
Found at i:910563 original size:37 final size:36
Alignment explanation
Indices: 910479--910570 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 36
910469 TAAAATATAT
* * *
910479 AATA-AATAAATAAATACTATAAAGAAATAAATAAATA
1 AATACAATAAATAAA-A-AATAAAGAAATAAAAAAAAA
910516 AATACAATAAAGATAAAAAATAAA-AAATAAAAAAAAA
1 AATACAAT-AA-ATAAAAAATAAAGAAATAAAAAAAAA
910553 AATA-AGATAAATAAAAAA
1 AATACA-ATAAATAAAAAA
910571 GTGTATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
35 8 0.17
36 3 0.06
37 21 0.44
38 8 0.17
39 3 0.06
40 5 0.10
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.18
Consensus pattern (36 bp):
AATACAATAAATAAAAAATAAAGAAATAAAAAAAAA
Found at i:910568 original size:17 final size:16
Alignment explanation
Indices: 910470--910570 Score: 73
Period size: 17 Copynumber: 6.2 Consensus size: 16
910460 AAGGAAAAAT
*
910470 AAAATATAT-AATAAA
1 AAAATAAATAAATAAA
* *
910485 TAAATAAATACTATAAA
1 AAAATAAATA-AATAAA
*
910502 GAAATAAATAAATAAA
1 AAAATAAATAAATAAA
*
910518 TACAATAAAGATAAA-AAA
1 -AAAAT-AA-ATAAATAAA
* *
910536 TAAA-AAATAAAAAAA
1 AAAATAAATAAATAAA
910551 AAAATAAGATAAATAAA
1 AAAATAA-ATAAATAAA
910568 AAA
1 AAA
910571 GTGTATATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
14 5 0.07
15 15 0.22
16 7 0.10
17 30 0.45
18 5 0.07
19 5 0.07
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAATAAA
Found at i:910723 original size:6 final size:6
Alignment explanation
Indices: 910703--910744 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
910693 AAAGTAGTAG
* *
910703 ATAAAA A-AGAA ATAAAA ATAAAA ATAAAA ATAAAC ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
910745 ATAATAACGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (6 bp):
ATAAAA
Found at i:913949 original size:17 final size:17
Alignment explanation
Indices: 913927--913980 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
913917 ATCTGCCCTC
913927 CCATTTTGATTTTTGTT
1 CCATTTTGATTTTTGTT
*
913944 CCATTTTGA--TTT-AT
1 CCATTTTGATTTTTGTT
913958 CCATTTTGATTTTTGTT
1 CCATTTTGATTTTTGTT
913975 CCATTT
1 CCATTT
913981 CCCTCCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.31
15 3 0.09
16 3 0.09
17 16 0.50
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (17 bp):
CCATTTTGATTTTTGTT
Found at i:913962 original size:14 final size:14
Alignment explanation
Indices: 913943--913969 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
913933 TGATTTTTGT
913943 TCCATTTTGATTTA
1 TCCATTTTGATTTA
913957 TCCATTTTGATTT
1 TCCATTTTGATTT
913970 TTGTTCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (14 bp):
TCCATTTTGATTTA
Found at i:916464 original size:21 final size:20
Alignment explanation
Indices: 916438--916491 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
916428 TTAGAAACAT
916438 AAAAATAATAAATTTAATATG
1 AAAAATAATAAATTTAAT-TG
* * *
916459 AAAAATATTTAATTTAATTT
1 AAAAATAATAAATTTAATTG
*
916479 AAAAATAAAAAAT
1 AAAAATAATAAAT
916492 AAATTTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATAATAAATTTAATTG
Found at i:916464 original size:49 final size:44
Alignment explanation
Indices: 916405--916498 Score: 125
Period size: 49 Copynumber: 2.0 Consensus size: 44
916395 TAGAAATATA
*
916405 AATATAAAAATGTTGAATTTAATTTAGAAACATAAAAATAATAAATTT
1 AATATAAAAATATTGAATTTAATTTA-AAA-AT-AAAA-AATAAATTT
*
916453 AATATGAAAAATATTTAATTTAATTTAAAAATAAAAAATAAATTT
1 AATAT-AAAAATATTGAATTTAATTTAAAAATAAAAAATAAATTT
916498 A
1 A
916499 TTTTAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
45 10 0.23
46 4 0.09
47 2 0.05
48 8 0.19
49 19 0.44
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (44 bp):
AATATAAAAATATTGAATTTAATTTAAAAATAAAAAATAAATTT
Found at i:917196 original size:20 final size:19
Alignment explanation
Indices: 917171--917214 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
917161 ATTTTAAATG
917171 ATAATTAATATTATTTTATT
1 ATAATTAATATTATTTTA-T
**
917191 ATAATTTTTATTATTTTAT
1 ATAATTAATATTATTTTAT
917210 ATAAT
1 ATAAT
917215 ATTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTAATATTATTTTAT
Found at i:917219 original size:20 final size:20
Alignment explanation
Indices: 917179--917220 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
917169 TGATAATTAA
917179 TATTATTTTATTATAATTTT
1 TATTATTTTATTATAATTTT
917199 TATTATTTTA-TATAATATTT
1 TATTATTTTATTATAAT-TTT
917219 TA
1 TA
917221 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATTTTATTATAATTTT
Found at i:926104 original size:40 final size:40
Alignment explanation
Indices: 926049--926143 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
926039 TCAGGCAAAA
* * *
926049 TCTATGTGTCTTCCTTGATGAAGTTGAAGAAGAACTGCAG
1 TCTATGCGTCTTCCTTGATGAAATTGAAGAAGAACCGCAG
926089 TCTATGCGTCTTCCTTGATGAAATTGAAGAAGAACCGCAG
1 TCTATGCGTCTTCCTTGATGAAATTGAAGAAGAACCGCAG
*
926129 TCTATGCTTCTTCCT
1 TCTATGCGTCTTCCT
926144 CATGATATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (40 bp):
TCTATGCGTCTTCCTTGATGAAATTGAAGAAGAACCGCAG
Found at i:927183 original size:16 final size:17
Alignment explanation
Indices: 927162--927195 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
927152 GGAATATCGT
927162 TTATTA-AAATTTTAAA
1 TTATTATAAATTTTAAA
*
927178 TTATTATATATTTTAAA
1 TTATTATAAATTTTAAA
927195 T
1 T
927196 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTATAAATTTTAAA
Found at i:928049 original size:31 final size:31
Alignment explanation
Indices: 928013--928093 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
928003 TAATTATAAT
928013 TTTTAGATAAAATATTAATTTAACACTTAAA
1 TTTTAGATAAAATATTAATTTAACACTTAAA
928044 TTTTAGATAAAATATTAATTTAACACTTAAA
1 TTTTAGATAAAATATTAATTTAACACTTAAA
* *
928075 TTTTAAATAAAATGTTAAT
1 TTTTAGATAAAATATTAAT
928094 ATAATTCTCG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (31 bp):
TTTTAGATAAAATATTAATTTAACACTTAAA
Found at i:928560 original size:14 final size:14
Alignment explanation
Indices: 928541--928568 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
928531 ACAAAAATAT
928541 AAAACATTTTTCAG
1 AAAACATTTTTCAG
928555 AAAACATTTTTCAG
1 AAAACATTTTTCAG
928569 TGTTTGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
AAAACATTTTTCAG
Found at i:935921 original size:14 final size:14
Alignment explanation
Indices: 935904--935931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
935894 CTCTAAAAAA
935904 TATAATTTATTAAT
1 TATAATTTATTAAT
935918 TATAATTTATTAAT
1 TATAATTTATTAAT
935932 GGATTAACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATAATTTATTAAT
Found at i:936921 original size:31 final size:31
Alignment explanation
Indices: 936869--936956 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
936859 AATTCATGGG
* *
936869 TTAAACTGATA-TTTATTTAAAATTTCA-GAA
1 TTAAACTAATATTTTATATAAAATTT-AGGAA
*
936899 TTAAACTAATATTTTATATAAAATTTAGGAG
1 TTAAACTAATATTTTATATAAAATTTAGGAA
* *
936930 TTAAATTAATATTTTATCTAAAATTTA
1 TTAAACTAATATTTTATATAAAATTTA
936957 ATGTTAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
30 11 0.22
31 40 0.78
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (31 bp):
TTAAACTAATATTTTATATAAAATTTAGGAA
Found at i:936965 original size:30 final size:30
Alignment explanation
Indices: 936880--936968 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 30
936870 TAAACTGATA
* * *
936880 TTTATTTAAAATTTCAGAATTAAACTAATAT
1 TTTATATAAAATTT-AGAGTTAAATTAATAT
936911 TTTATATAAAATTTAGGAGTTAAATTAATAT
1 TTTATATAAAATTTA-GAGTTAAATTAATAT
*
936942 TTTATCTAAAATTTA-ATGTTAAATTAA
1 TTTATATAAAATTTAGA-GTTAAATTAA
936969 AAATTAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 1 0.02
30 11 0.21
31 40 0.77
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTATATAAAATTTAGAGTTAAATTAATAT
Found at i:943563 original size:4 final size:4
Alignment explanation
Indices: 943556--943595 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
943546 AAAAAAAACG
*
943556 AAAT AAAT AAAT AAAT AAAT AGAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
943596 TAAAAACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:943683 original size:76 final size:75
Alignment explanation
Indices: 943606--944020 Score: 525
Period size: 76 Copynumber: 5.5 Consensus size: 75
943596 TAAAAACATT
* * * *
943606 TTTTTAAAACTATA-CA-ATATATGTTTTAAAAAATAATTTTCAAAACCATATAATATATATTTT
1 TTTTCAAAACTATATAATATATATGTTTTAAAAAATAATTTTCAAAACTATATAATATATA-TAT
943669 TTAAAAACTAA
65 TTAAAAACTAA
* **
943680 TTTTCAAAACTATATAATATATATATTTTTAAAAGCTAATTTTCAAAACTATATAATATATATAT
1 TTTTCAAAACTATATAATATATAT-GTTTTAAAAAATAATTTTCAAAACTATATAATATATATAT
943745 TTAAAAACTAA
65 TTAAAAACTAA
** *
943756 TTTTCAAAACTATATAATATATATGTTTTTAAAAGCTAATTTTTAAAACTATATAATATATATAT
1 TTTTCAAAACTATATAATATATATG-TTTTAAAAAATAATTTTCAAAACTATATAATATATATAT
943821 TTAAAAACTAA
65 TTAAAAACTAA
**
943832 TTTTCAAAACTATATAATATATATGTTTTTCAAAAT-ATTTTCAAAACTATATAATATATATATT
1 TTTTCAAAACTATATAATATATATGTTTTAAAAAATAATTTTCAAAACTATATAATATATATATT
943896 TAAAAACTAA
66 TAAAAACTAA
* * * *
943906 TTTTCAAAACTATATAATATATATGTTTTTCAAAAATATTTTTAAAAATTATATATTATATATAT
1 TTTTCAAAACTATATAATATATATG-TTTTAAAAAATAATTTTCAAAA--CTATA-TA-ATATAT
*
943971 ATATTTTTTAAAA-TAA
61 ATA--TTTAAAAACTAA
* *
943987 GTTTTCAAAACGATATAATATATAT-TTTCAAAAA
1 -TTTTCAAAACTATATAATATATATGTTTTAAAAA
944021 CTATATATCA
Statistics
Matches: 305, Mismatches: 23, Indels: 20
0.88 0.07 0.06
Matches are distributed among these distances:
74 75 0.25
75 17 0.06
76 125 0.41
77 33 0.11
78 4 0.01
79 2 0.01
80 16 0.05
81 3 0.01
82 30 0.10
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (75 bp):
TTTTCAAAACTATATAATATATATGTTTTAAAAAATAATTTTCAAAACTATATAATATATATATT
TAAAAACTAA
Found at i:943720 original size:39 final size:39
Alignment explanation
Indices: 943622--944023 Score: 515
Period size: 37 Copynumber: 10.5 Consensus size: 39
943612 AAACTATACA
* *
943622 ATATATGTTTTAAAAAATAATTTTCAAAACCATATAATAT
1 ATATAT-TTTTAAAAACTAATTTTCAAAACTATATAATAT
943662 ATAT-TTTTTAAAAACTAATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
*
943700 ATATATTTTTAAAAGCTAATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
943739 ATATA--TTTAAAAACTAATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
* * *
943776 ATATGTTTTTAAAAGCTAATTTTTAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
943815 ATATA--TTTAAAAACTAATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
* *
943852 ATATGTTTTTCAAAA-T-ATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
943889 ATATA--TTTAAAAACTAATTTTCAAAACTATATAATAT
1 ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
* * * *
943926 ATATGTTTTTCAAAAA-TATTTTTAAAAATTATATATTATATAT
1 ATATATTTTT-AAAAACTAATTTTCAAAA--CTATA-TA-ATAT
* *
943969 ATATATTTTTTAAAA-TAAGTTTTCAAAACGATAT-A-AT
1 ATATATTTTTAAAAACTAA-TTTTCAAAACTATATAATAT
*
944006 ATATATTTTCAAAAACTA
1 ATATATTTTTAAAAACTA
944024 TATATCATAT
Statistics
Matches: 320, Mismatches: 26, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
35 7 0.02
36 1 0.00
37 134 0.42
38 39 0.12
39 93 0.29
40 10 0.03
41 7 0.02
42 8 0.03
43 21 0.07
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (39 bp):
ATATATTTTTAAAAACTAATTTTCAAAACTATATAATAT
Found at i:944026 original size:24 final size:24
Alignment explanation
Indices: 943988--944043 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
943978 TTAAAATAAG
943988 TTTTC-AAAACGATATAAT-ATATA
1 TTTTCAAAAACGATAT-ATCATATA
*
944011 TTTTCAAAAACTATATATCATATA
1 TTTTCAAAAACGATATATCATATA
944035 TTTTCAAAA
1 TTTTCAAAA
944044 CATTTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTCAAAAACGATATATCATATA
Found at i:945280 original size:33 final size:33
Alignment explanation
Indices: 945209--945280 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
945199 AAAATACTTC
*
945209 AATTTAGGGTTTAGAATGTAATTAAGTATTTTGG
1 AATTTAGGGTTTAGAA-GTAATTAAGTATTTTGA
* * *
945243 AATTTGGGGTTTGGAA-TAATTGAAGTGTTTTGA
1 AATTTAGGGTTTAGAAGTAATT-AAGTATTTTGA
945276 AATTT
1 AATTT
945281 TGAACATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 5 0.15
33 14 0.42
34 14 0.42
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (33 bp):
AATTTAGGGTTTAGAAGTAATTAAGTATTTTGA
Found at i:948599 original size:28 final size:28
Alignment explanation
Indices: 948551--948614 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
948541 GGGTTTAGTA
*
948551 GGGTC-GGATTTTTTAAGTGTGATATT-
1 GGGTCGGGTTTTTTTAAGTGTGATATTC
948577 GGGTCGGGTTTTTTTAAAGTGTGATATTC
1 GGGTCGGGTTTTTTT-AAGTGTGATATTC
*
948606 GGTTCGGGT
1 GGGTCGGGT
948615 CGGGTACGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 8 0.24
28 12 0.36
29 8 0.24
ACGTcount: A:0.16, C:0.06, G:0.34, T:0.44
Consensus pattern (28 bp):
GGGTCGGGTTTTTTTAAGTGTGATATTC
Found at i:949183 original size:18 final size:17
Alignment explanation
Indices: 949145--949194 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
949135 ATAGAATTGA
*
949145 ATTCCAATTCCTGACAG
1 ATTCCAATTCCTCACAG
*
949162 ATTCCAATTCCTTCATAG
1 ATTCCAATTCC-TCACAG
*
949180 ATTCTAATTTCCTCA
1 ATTCCAA-TTCCTCA
949195 GAAACATTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 13 0.46
19 4 0.14
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTCCAATTCCTCACAG
Found at i:950529 original size:16 final size:16
Alignment explanation
Indices: 950504--950534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
950494 TTACCGGATT
950504 AAAAACCGATTTTTTA
1 AAAAACCGATTTTTTA
*
950520 AAAAATCGATTTTTT
1 AAAAACCGATTTTTT
950535 TCAAACCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (16 bp):
AAAAACCGATTTTTTA
Found at i:952444 original size:17 final size:16
Alignment explanation
Indices: 952424--952456 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
952414 CTAAATGGTT
952424 TTAATAACTAATTCTAA
1 TTAATAACTAA-TCTAA
952441 TTAATAACTAATCTAA
1 TTAATAACTAATCTAA
952457 AAGAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAATAACTAATCTAA
Found at i:953435 original size:112 final size:112
Alignment explanation
Indices: 953308--953867 Score: 942
Period size: 112 Copynumber: 5.0 Consensus size: 112
953298 GCTCTTTACC
953308 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
* * *
953373 TTTCAACATATTAGATAGCTCTTTACCGGTTTTGTCATAATAAAACC
66 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
* *
953420 GATTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
* * * *
953485 TTTCAACATATTATGTAGCTCTTTAGCGATTTTGTCAAAATGAAACT
66 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
* *
953532 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
953597 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
66 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
* *
953644 GGTTTTGTCATATTTTTACATGTTATATTGAAAATTATCGATACA-TTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
*
953708 TTTCAACATATTAGGTAACTCTTTACCGGTTTTGTCATAATGAAACT
66 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
* * *
953755 GATTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAA
1 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
* *
953820 TTTCAACATATCAGGTAGTTCTTTACCGGTTTTGTCATAATGAAACT
66 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
953867 G
1 G
953868 CTTTGTTCAT
Statistics
Matches: 419, Mismatches: 28, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
111 106 0.25
112 313 0.75
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (112 bp):
GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACT
Found at i:953652 original size:224 final size:224
Alignment explanation
Indices: 953308--954287 Score: 1397
Period size: 224 Copynumber: 4.3 Consensus size: 224
953298 GCTCTTTACC
*
953308 GGTTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
* * * * *
953373 TTTCAACATATTAGATAGCTCTTTACCGGTTTTGTCATAATAAAACCGATTTTGTCATATTTTTA
66 TTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTA
*
953438 CATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATACTTTCAACATATTATGTAG
131 CATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAG
* *
953503 CTCTTTAGCGATTTTGTCAAAATGAAACT
196 CTCTTTACCGATTTTGTCATAATGAAACT
*
953532 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
*
953597 TTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTA
66 TTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTA
* * * * * *
953662 CATGTTATATTGAAAATTATCGATACA-TTTTATAAAGTATCGATACTTTCAACATATTAGGTAA
131 CATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAG
*
953726 CTCTTTACCGGTTTTGTCATAATGAAACT
196 CTCTTTACCGATTTTGTCATAATGAAACT
* *
953755 GATTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
*
953820 TTTCAACATATCAGGTAGTTCTTTACCGGTTTTGTCATAATGAAACTGCTTTGTTCATAATGAAA
66 TTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAA---C--TG--------G---
*
953885 CTTGCTTTGTCATATTTTTACATGTTATATTGTAAAGTATTAATACATTTTTATAAAGTATCGAT
115 --T--TTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGAT
* * *
953950 ACTTTCAACATATCATGTACCTCTTTACC-AGTTTTTTCATAATGAAATT
176 ACTTTCAACATATCATGTAGCTCTTTACCGA-TTTTGTCATAATGAAACT
*
953999 AGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
* ** * * *
954064 TTTCAACATATCAAGTAGCTCTTTTTCTGTTTTGTGATAACGAAACTGGTTTTGTCATATTTTTA
66 TTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTA
* * * *
954129 CCTATTATATTGTAAAGTATCGACACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAG
131 CATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAG
*
954194 CTCTTTACCGGTTTTGTCATAATGAAACT
196 CTCTTTACCGATTTTGTCATAATGAAACT
* * *
954223 GGTTTTGTTATATTTTTACCTATTATATTGTAAAGTATCGATACATTTTTATAAAATATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
954288 ATTTTTATAA
Statistics
Matches: 681, Mismatches: 52, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
223 166 0.24
224 308 0.45
226 2 0.00
228 2 0.00
231 1 0.00
236 1 0.00
239 2 0.00
241 2 0.00
243 38 0.06
244 159 0.23
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (224 bp):
GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAGTATCGATAC
TTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTA
CATGTTATATTGTAAAGTATCAATACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAG
CTCTTTACCGATTTTGTCATAATGAAACT
Found at i:953879 original size:20 final size:20
Alignment explanation
Indices: 953850--953898 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
953840 CTTTACCGGT
953850 TTTGTCATAATGAAAC-TGC
1 TTTGTCATAATGAAACTTGC
953869 TTTGTTCATAATGAAACTTGC
1 TTTG-TCATAATGAAACTTGC
953890 TTTGTCATA
1 TTTGTCATA
953899 TTTTTACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
21 7 0.25
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTGTCATAATGAAACTTGC
Found at i:953916 original size:132 final size:131
Alignment explanation
Indices: 953738--954010 Score: 404
Period size: 132 Copynumber: 2.1 Consensus size: 131
953728 CTTTACCGGT
* * *
953738 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTT
1 TTTGTCATAATGAAACTGACTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATACATTT
** *
953803 TTATAAAGTATCGATAATTTCAACATATCAGGTAGTTCTTTACCGGTTTTGTCATAATGAAACTG
66 TTATAAAGTATCGATAATTTCAACATATCAGGTACCTCTTTACCAGTTTTGTCATAATGAAACTG
953868 C
131 C
*
953869 TTTGTTCATAATGAAACTTG-CTTTGTCATATTTTTACATGTTATATTGTAAAGTATTAATACAT
1 TTTG-TCATAATGAAAC-TGACTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATACAT
* * * *
953933 TTTTATAAAGTATCGATACTTTCAACATATCATGTACCTCTTTACCAGTTTTTTCATAATGAAAT
64 TTTTATAAAGTATCGATAATTTCAACATATCAGGTACCTCTTTACCAGTTTTGTCATAATGAAAC
*
953998 TAGT
129 T-GC
954002 TTTGTCATA
1 TTTGTCATA
954011 TTTTTACCTG
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
131 4 0.03
132 116 0.91
133 7 0.06
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (131 bp):
TTTGTCATAATGAAACTGACTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATACATTT
TTATAAAGTATCGATAATTTCAACATATCAGGTACCTCTTTACCAGTTTTGTCATAATGAAACTG
C
Found at i:954070 original size:112 final size:112
Alignment explanation
Indices: 953869--954287 Score: 640
Period size: 112 Copynumber: 3.7 Consensus size: 112
953859 ATGAAACTGC
* * * * **
953869 TTTGTTCATAATGAAACTTGCTTTGTCATATTTTTACATGTTATATTGTAAAGTATTAATACATT
1 TTTG-TCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGATACATT
*
953934 TTTATAAAGTATCGATACTTTCAACATATCATGTACCTCTTTACCAGT
65 TTTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCAGT
* * * *
953982 TTTTTCATAATGAAATTAGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTT
1 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
* ** *
954047 TTATAAAGTATCGATACTTTCAACATATCAAGTAGCTCTTTTTCTGT
66 TTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCAGT
* * *
954094 TTTGTGATAACGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGACACATTT
1 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
*
954159 TTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
66 TTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCAGT
*
954206 TTTGTCATAATGAAACTGGTTTTGTTATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
1 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
*
954271 TTATAAAATATCGATAC
66 TTATAAAGTATCGATAC
954288 ATTTTTATAA
Statistics
Matches: 278, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
112 275 0.99
113 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (112 bp):
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
TTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCAGT
Found at i:954282 original size:21 final size:21
Alignment explanation
Indices: 954253--954332 Score: 135
Period size: 21 Copynumber: 3.9 Consensus size: 21
954243 TATTATATTG
954253 TAAAGTATCGATACATTTTTA
1 TAAAGTATCGATACATTTTTA
*
954274 TAAAATATCGATACATTTTTA
1 TAAAGTATCGATACATTTTTA
954295 TAAAGTATCGATACATTTTTA
1 TAAAGTATCGATACATTTTTA
*
954316 TAAAGTATCAATA-ATTT
1 TAAAGTATCGATACATTT
954333 CAACGTATCT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 4 0.07
21 52 0.93
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (21 bp):
TAAAGTATCGATACATTTTTA
Found at i:954426 original size:154 final size:154
Alignment explanation
Indices: 954141--954441 Score: 498
Period size: 154 Copynumber: 2.0 Consensus size: 154
954131 TATTATATTG
* *
954141 TAAAGTATCGACACATTTTTATAAAGTATCGATACTTTCAACATATCATGTAGCTCTTTACCGGT
1 TAAAGTATCGACACATTTTTATAAAGTATCAATAATTTCAACATATCATGTAGCTCTTTACCGGT
* *
954206 TTTGTCATAATGAAACTGGTTTTGTTATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
66 TTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
954271 TTATAAAATATCGATACATTTTTA
131 TTATAAAATATCGATACATTTTTA
* * *
954295 TAAAGTATCGATACATTTTTATAAAGTATCAATAATTTCAACGTATC-TGGTAGCTCTTTACTGG
1 TAAAGTATCGACACATTTTTATAAAGTATCAATAATTTCAACATATCAT-GTAGCTCTTTACCGG
*
954359 TTTTGTCATAATGAAACTGGTTTTATCATA-TTTTACCTGTTATATTGTAAAGTATCGATACATT
65 TTTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTATTATATTGTAAAGTATCGATACA-T
954423 TTTTATAAAATATCGATAC
129 TTTTATAAAATATCGATAC
954442 TTTCAACATA
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
153 32 0.23
154 105 0.77
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (154 bp):
TAAAGTATCGACACATTTTTATAAAGTATCAATAATTTCAACATATCATGTAGCTCTTTACCGGT
TTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTATTATATTGTAAAGTATCGATACATTT
TTATAAAATATCGATACATTTTTA
Found at i:954500 original size:112 final size:111
Alignment explanation
Indices: 954295--954500 Score: 313
Period size: 112 Copynumber: 1.8 Consensus size: 111
954285 TACATTTTTA
* * * *
954295 TAAAGTATCGATACATTTTTATAAAGTATCAATAATTTCAACGTATCTGGTAGCTCTTTACTGGT
1 TAAAGTATCGATACATTTTTATAAAATATCAATAATTTCAACATATCCGGTAGCTCTTTACCGGT
* *
954360 TTTGTCATAATGAAACTGGTTTTATCATATTTTACCTGTTATATTG
66 TTTGTCATAATGAAACTGATTTCATCATATTTTACCTGTTATATTG
* *
954406 TAAAGTATCGATACATTTTTTATAAAATATCGATACTTTCAACATATCCGGTAGCTCTTTACCGG
1 TAAAGTATCGATACA-TTTTTATAAAATATCAATAATTTCAACATATCCGGTAGCTCTTTACCGG
* *
954471 TTTTGTCATAATGAAATTGATTTCGTCATA
65 TTTTGTCATAATGAAACTGATTTCATCATA
954501 ATGAAACTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
111 15 0.18
112 69 0.82
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (111 bp):
TAAAGTATCGATACATTTTTATAAAATATCAATAATTTCAACATATCCGGTAGCTCTTTACCGGT
TTTGTCATAATGAAACTGATTTCATCATATTTTACCTGTTATATTG
Found at i:954519 original size:20 final size:19
Alignment explanation
Indices: 954470--954520 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
954460 CTCTTTACCG
954470 GTTTTGTCATAATGAAATT
1 GTTTTGTCATAATGAAATT
*
954489 GATTTCGTCATAATGAAACTT
1 G-TTTTGTCATAATGAAA-TT
*
954510 GTTTTATCATA
1 GTTTTGTCATA
954521 TATTTACCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.85
21 3 0.11
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (19 bp):
GTTTTGTCATAATGAAATT
Found at i:954718 original size:23 final size:23
Alignment explanation
Indices: 954692--954765 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
954682 TAAGTAATTA
* *
954692 ACCTATTTTATTATATAAGCTCT
1 ACCTATTATATTATATAAGCGCT
* *
954715 ACCTATTATGTTATATAAGAGCT
1 ACCTATTATATTATATAAGCGCT
* * *
954738 ATCTATTACATTATATAAACGCT
1 ACCTATTATATTATATAAGCGCT
954761 ACCTA
1 ACCTA
954766 ATATGATATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.41
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:954723 original size:21 final size:21
Alignment explanation
Indices: 954699--954774 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
954689 TTAACCTATT
*
954699 TTATTATATAAGCTCTACCTA
1 TTATTATATAAGCGCTACCTA
* *
954720 TTATGTTATATAAGAGCTATCTA
1 TTA--TTATATAAGCGCTACCTA
*
954743 TTACATTATATAAACGCTACCTA
1 TT--ATTATATAAGCGCTACCTA
* *
954766 ATATGATAT
1 TTATTATAT
954775 TGTGTTTGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 9 0.21
23 33 0.77
25 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (21 bp):
TTATTATATAAGCGCTACCTA
Found at i:954980 original size:134 final size:135
Alignment explanation
Indices: 954747--955031 Score: 468
Period size: 134 Copynumber: 2.1 Consensus size: 135
954737 TATCTATTAC
*
954747 ATTATATAAACGCTACCTAATATGATATTGTGTTTGATAATATTTCTAATAATTAACCTGTTATC
1 ATTATATAAACGCTACCTAATATGATATTGTGCTTGATAATATTTCTAATAATTAACCTGTTATC
954812 TTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAAA-AAA-TAAATAATTAACC
66 TTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTGTAA-AAACAAATTAAATAATTAACC
954875 TATTTT
130 TATTTT
* * *
954881 ATTATATAAACGCTACTTAATATGTTATTGTGCTTGATAATATTTCTAGTAATTAACC-GATTAT
1 ATTATATAAACGCTACCTAATATGATATTGTGCTTGATAATATTTCTAATAATTAACCTG-TTAT
* *
954945 GTTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTGTAAAAACAAATTAAGTAATTAACC
65 CTTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTGTAAAAACAAATTAAATAATTAACC
955010 TATTTT
130 TATTTT
*
955016 ATTATATAAGCGCTAC
1 ATTATATAAACGCTAC
955032 ATATTACATT
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
133 4 0.03
134 104 0.74
135 33 0.23
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (135 bp):
ATTATATAAACGCTACCTAATATGATATTGTGCTTGATAATATTTCTAATAATTAACCTGTTATC
TTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTGTAAAAACAAATTAAATAATTAACCT
ATTTT
Found at i:955036 original size:23 final size:25
Alignment explanation
Indices: 955010--955071 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
955000 GTAATTAACC
955010 TATTTTATTATATAAGCGCTA-C-A
1 TATTTTATTATATAAGCGCTATCAA
** * *
955033 TATTACATTATATAAGTGTTATCTAA
1 TATTTTATTATATAAGCGCTATC-AA
955059 TATTTTATTATAT
1 TATTTTATTATAT
955072 TTAATAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 17 0.57
24 1 0.03
26 12 0.40
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (25 bp):
TATTTTATTATATAAGCGCTATCAA
Found at i:959738 original size:23 final size:23
Alignment explanation
Indices: 959671--959757 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 23
959661 TCGTATAAAT
*
959671 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
959694 TTTTGTC-CCGAAG-GACCGCGTAGAGA
1 --TTG-CACCGAAGTG-CCACGTAGA-A
959720 -TGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
959742 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
959758 TATAATATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
22 2 0.04
23 30 0.58
24 2 0.04
25 16 0.31
26 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:968469 original size:16 final size:17
Alignment explanation
Indices: 968443--968475 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
968433 GGTTGGTGAT
*
968443 GAATATGAATATTTATG
1 GAATATGAATAGTTATG
968460 GAAT-TGAATAGTTATG
1 GAATATGAATAGTTATG
968476 TTTGTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (17 bp):
GAATATGAATAGTTATG
Found at i:975719 original size:30 final size:30
Alignment explanation
Indices: 975510--975702 Score: 359
Period size: 30 Copynumber: 6.4 Consensus size: 30
975500 TCCGAAGGAC
975510 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
975540 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
975570 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
975600 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
975630 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
975660 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
975690 CTATCCATAGGTC
1 CTATCCAGAGGTC
975703 CCGAAGAACC
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 159 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:975719 original size:90 final size:89
Alignment explanation
Indices: 975510--975727 Score: 337
Period size: 90 Copynumber: 2.4 Consensus size: 89
975500 TCCGAAGGAC
*
975510 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCA-GAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
975575 CAGAGGTCATAAAGATCCTCGGTAA
65 CAGAGGTCATAAAGATCCTCGGTAA
*
975600 CTATCCAGAGGTCATACAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCAGA-AGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
*
975665 CAGAGGTCATACAGATCCTCGGTAA
65 CAGAGGTCATAAAGATCCTCGGTAA
* * * *
975690 CTATCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCCAGAGGT-CAGAAGATCCTCGGT-AACTATCCA
975728 TATGTTCCTT
Statistics
Matches: 118, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
89 1 0.01
90 106 0.90
91 11 0.09
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (89 bp):
CTATCCAGAGGTCAGAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
AGAGGTCATAAAGATCCTCGGTAA
Found at i:975742 original size:31 final size:31
Alignment explanation
Indices: 975688--975780 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
975678 GATCCTCGGT
* *
975688 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
975719 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
975750 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
975781 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:976139 original size:2 final size:2
Alignment explanation
Indices: 976127--976169 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
976117 TACACAACTC
976127 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
976168 AT
1 AT
976170 GTAACATGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:980298 original size:30 final size:30
Alignment explanation
Indices: 980029--980281 Score: 470
Period size: 30 Copynumber: 8.4 Consensus size: 30
980019 TCCGAAGGAC
980029 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
980059 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
980089 CTATCCAGAGGTTATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
980119 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
980149 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
980179 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
980209 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
980239 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
980269 CTATCCATAGGTC
1 CTATCCAGAGGTC
980282 CCGAAGAACC
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 217 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:980321 original size:31 final size:31
Alignment explanation
Indices: 980267--980359 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
980257 GATCCTCGGT
* *
980267 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
980298 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
980329 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
980360 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:980704 original size:20 final size:20
Alignment explanation
Indices: 980668--980705 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
980658 ATTTTAACTA
980668 TTTCACATATTTAACACATT
1 TTTCACATATTTAACACATT
980688 TTTCTACATATTT-ACACA
1 TTTC-ACATATTTAACACA
980706 ACTCATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCACATATTTAACACATT
Found at i:980722 original size:2 final size:2
Alignment explanation
Indices: 980710--980742 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
980700 TACACAACTC
980710 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
980743 TGTAACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:984865 original size:30 final size:30
Alignment explanation
Indices: 984597--984848 Score: 470
Period size: 30 Copynumber: 8.4 Consensus size: 30
984587 TTCGAAGGAC
984597 CTATCCAGAGGTCATAAAGATCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
984626 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
984656 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
984686 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
984716 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
984746 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
984776 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
984806 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
984836 CTATCCATAGGTC
1 CTATCCAGAGGTC
984849 CCGAAGAACC
Statistics
Matches: 218, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
29 25 0.11
30 193 0.89
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:984888 original size:31 final size:31
Alignment explanation
Indices: 984834--984926 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
984824 GATCCTCGGT
* *
984834 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
984865 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
984896 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
984927 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:985271 original size:20 final size:20
Alignment explanation
Indices: 985235--985272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
985225 ATTTTAACTA
985235 TTTCACATATTTAACACATT
1 TTTCACATATTTAACACATT
985255 TTTCTACATATTT-ACACA
1 TTTC-ACATATTTAACACA
985273 ACTCATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCACATATTTAACACATT
Found at i:985289 original size:2 final size:2
Alignment explanation
Indices: 985277--985307 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
985267 TACACAACTC
985277 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
985308 GTAACATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:989748 original size:21 final size:20
Alignment explanation
Indices: 989713--989751 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
989703 TAATGGATGG
989713 TTGTTTTTGTATGATGTTAT
1 TTGTTTTTGTATGATGTTAT
*
989733 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
989752 TAATGCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.67
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:999922 original size:21 final size:20
Alignment explanation
Indices: 999884--999922 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
999874 TAATGGATGG
*
999884 TTGTTTTTGTATGTTGTTAT
1 TTGTTTTTGTATGATGTTAT
*
999904 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
999923 TAATTCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:1001482 original size:20 final size:20
Alignment explanation
Indices: 1001459--1001496 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1001449 ATCAAGGTCT
1001459 TTGTTGAAGCCATAAATCTA
1 TTGTTGAAGCCATAAATCTA
*
1001479 TTGTTGAGGCCATAAATC
1 TTGTTGAAGCCATAAATC
1001497 CATGCAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTTGAAGCCATAAATCTA
Done.