Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_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: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:2120985 original size:17 final size:17
Alignment explanation
Indices: 2120963--2121009 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
2120953 GAAGACACGT
2120963 ATTACCATTACCA-TACC
1 ATTACCA-TACCAGTACC
2120980 ATTACCATACCAGTACC
1 ATTACCATACCAGTACC
*
2120997 AGTACCAGTACCA
1 ATTACCA-TACCA
2121010 CGACCACGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 17 0.63
18 5 0.19
ACGTcount: A:0.36, C:0.34, G:0.06, T:0.23
Consensus pattern (17 bp):
ATTACCATACCAGTACC
Found at i:2121015 original size:6 final size:6
Alignment explanation
Indices: 2121006--2121042 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
2120996 CAGTACCAGT
2121006 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
2121043 GACGAGACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2121015 original size:18 final size:18
Alignment explanation
Indices: 2120977--2121033 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
2120967 CCATTACCAT
*
2120977 ACCATTACCA-TACCA-G
1 ACCAGTACCAGTACCACG
2120993 TACCAGTACCAGTACCACG
1 -ACCAGTACCAGTACCACG
2121012 ACCACG-ACCACG-ACCACG
1 ACCA-GTACCA-GTACCACG
2121030 ACCA
1 ACCA
2121034 CGACCACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 9 0.26
18 23 0.66
19 3 0.09
ACGTcount: A:0.35, C:0.42, G:0.12, T:0.11
Consensus pattern (18 bp):
ACCAGTACCAGTACCACG
Found at i:2121537 original size:6 final size:6
Alignment explanation
Indices: 2121526--2121551 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2121516 CGCCGTCCGT
2121526 GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GT
2121552 AATACGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
GTCGTG
Found at i:2121677 original size:20 final size:20
Alignment explanation
Indices: 2121652--2121744 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
2121642 ACTGTAGACT
*
2121652 ATCGCAACGTGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
** ** *
2121672 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAACTGGAA-A
*
2121693 ACCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
* *
2121713 ATCGCAACGCCAAATGGAAA
1 ATCGCAACGCGAACTGGAAA
2121733 ATCGCAACGCGA
1 ATCGCAACGCGA
2121745 TTTTCAACTA
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
20 42 0.75
21 14 0.25
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAACTGGAAA
Found at i:2121804 original size:21 final size:21
Alignment explanation
Indices: 2121780--2121833 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
2121770 GAAATGGAAA
2121780 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
2121801 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
2121822 ATCGCAACGCGA
1 ATCGCAACGCGA
2121834 ATTTGCGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:2122164 original size:23 final size:24
Alignment explanation
Indices: 2122137--2122194 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
2122127 GAATCTATGT
2122137 TCTTGTGACACGC-TTTTCTCTT-C
1 TCTTGTGACACGCTTTTTCT-TTAC
*
2122160 TCTTGTAACACGCTTTTTCTTTAC
1 TCTTGTGACACGCTTTTTCTTTAC
*
2122184 TTTTGTGACAC
1 TCTTGTGACAC
2122195 ATTCCTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.14, C:0.26, G:0.12, T:0.48
Consensus pattern (24 bp):
TCTTGTGACACGCTTTTTCTTTAC
Found at i:2122189 original size:24 final size:23
Alignment explanation
Indices: 2122137--2122194 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
2122127 GAATCTATGT
2122137 TCTTGTGACACGCTTTTCTCTTC
1 TCTTGTGACACGCTTTTCTCTTC
*
2122160 TCTTGTAACACGCTTTT-TCTTTAC
1 TCTTGTGACACGCTTTTCTC-TT-C
*
2122184 TTTTGTGACAC
1 TCTTGTGACAC
2122195 ATTCCTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.07
23 18 0.60
24 10 0.33
ACGTcount: A:0.14, C:0.26, G:0.12, T:0.48
Consensus pattern (23 bp):
TCTTGTGACACGCTTTTCTCTTC
Found at i:2123146 original size:2 final size:2
Alignment explanation
Indices: 2123141--2123170 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2123131 CGAGTATCAA
2123141 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2123171 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2123175 original size:2 final size:2
Alignment explanation
Indices: 2123170--2123201 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2123160 TCTCTCTCTC
2123170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2123202 ATCTGTGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2124575 original size:3 final size:3
Alignment explanation
Indices: 2124567--2124661 Score: 133
Period size: 3 Copynumber: 31.7 Consensus size: 3
2124557 GGTCAAAAAA
*
2124567 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GT-T TAT GT-T TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT
2124612 TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2124657 TAT TA
1 TAT TA
2124662 CATTTTTGGG
Statistics
Matches: 85, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
2 4 0.05
3 77 0.91
4 4 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2126143 original size:60 final size:60
Alignment explanation
Indices: 2126079--2126231 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 60
2126069 TAAGTGTATG
*
2126079 TTTTTGTTATCTTAGACCCTTAATTTTCTATTTTTAATATTTTAGT-TTTTT-AATTATCTA
1 TTTTTGTTAT-TTAGAACCTTAATTTTCTATTTTTAATATTTTAGTATTTTTAAATT-TCTA
* * * * * *
2126139 TTTTTATTATTTTAGAACCGTAAGTTTT-TGTTTGTGATATTTTGGTATTTTTAAATTTCTA
1 TTTTTGTTA-TTTAGAACCTTAA-TTTTCTATTTTTAATATTTTAGTATTTTTAAATTTCTA
* * *
2126200 TTTTTGTTATTTA-ATCTTTAAGTTTCTATTTT
1 TTTTTGTTATTTAGAACCTTAATTTTCTATTTT
2126232 ACTATGTTGG
Statistics
Matches: 74, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
58 3 0.04
59 9 0.12
60 36 0.49
61 22 0.30
62 4 0.05
ACGTcount: A:0.22, C:0.07, G:0.08, T:0.62
Consensus pattern (60 bp):
TTTTTGTTATTTAGAACCTTAATTTTCTATTTTTAATATTTTAGTATTTTTAAATTTCTA
Found at i:2126517 original size:13 final size:13
Alignment explanation
Indices: 2126484--2126521 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
2126474 TTTGTCTTAA
2126484 AAAAGAT-TTTTT
1 AAAAGATGTTTTT
*
2126496 AAAA-TTGTTTTT
1 AAAAGATGTTTTT
2126508 AAAAGATGTTTTT
1 AAAAGATGTTTTT
2126521 A
1 A
2126522 GGTATTCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 1 0.05
12 13 0.59
13 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
AAAAGATGTTTTT
Found at i:2128736 original size:17 final size:18
Alignment explanation
Indices: 2128700--2128737 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2128690 TTGTTTGAAA
* *
2128700 TTATTTTTGTTATGTCTT
1 TTATATTTGTTATATCTT
2128718 TTATATTTGTT-TATCTT
1 TTATATTTGTTATATCTT
2128735 TTA
1 TTA
2128738 AACGACTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (18 bp):
TTATATTTGTTATATCTT
Found at i:2132814 original size:43 final size:43
Alignment explanation
Indices: 2132757--2133038 Score: 345
Period size: 43 Copynumber: 6.6 Consensus size: 43
2132747 GCATACTCTC
* * *
2132757 TTGTTGTGTGCAAGGGTAAGCCTTACAATTTCCCTAGTTTCCT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
* *
2132800 TTGTTGTGTACAAGGGTAAGCCTTACAG-TACCCCAGGTTCCT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
* * * *
2132842 TTATTGTGTACAAGGGTAAGCCTTGCAG-TTCCCCAAGTTCCT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
*
2132884 TTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
** * * *
2132927 TTACTGTGTGCAGGGGTAAGCCTTAGAGTTTCCCCAGGTTCTT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
* *
2132970 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTAGGCT-CT
1 TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
* * *
2133012 TTTTCTATGTGCAAGGATAAGACCTTA
1 TTGT-TGTGTGCAAGGGTAAG-CCTTA
2133039 TCATTTTTGC
Statistics
Matches: 208, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
42 77 0.37
43 126 0.61
44 5 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (43 bp):
TTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCT
Found at i:2132862 original size:85 final size:84
Alignment explanation
Indices: 2132760--2132998 Score: 334
Period size: 85 Copynumber: 2.8 Consensus size: 84
2132750 TACTCTCTTG
* * *
2132760 TTGTGTGCAAGGGTAAGCCTTACAATTTCCCTAGTTTCCTTTGTTGTGTACAAGGGTAAGCCTTA
1 TTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAAG-TTCCTTTGTTGTGTGCAAGGGTAAGCCTTA
2132825 CAGTACCCCAGGTTCCTTTA
65 CAGTACCCCAGGTTCCTTTA
* * * *
2132845 TTGTGTACAAGGGTAAGCCTTGCAGTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 TTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAAGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTAC
*
2132910 AGTTTCCCCAGGTTCCTTTA
66 AG-TACCCCAGGTTCCTTTA
* * * * *
2132930 CTGTGTGCAGGGGTAAGCCTTAGAGTTTCCCCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCCTTA
1 TTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCAAGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTA
2132995 CAGT
65 CAGT
2132999 TTCCCTAGGC
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
84 31 0.23
85 68 0.50
86 36 0.27
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (84 bp):
TTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAAGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTAC
AGTACCCCAGGTTCCTTTA
Found at i:2135647 original size:14 final size:15
Alignment explanation
Indices: 2135628--2135658 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2135618 ACACTTGAAG
2135628 AAGAAG-AAAAAGAA
1 AAGAAGCAAAAAGAA
2135642 AAGAAGCAAAAAGAA
1 AAGAAGCAAAAAGAA
2135657 AA
1 AA
2135659 TAAACAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AAGAAGCAAAAAGAA
Found at i:2136900 original size:19 final size:19
Alignment explanation
Indices: 2136876--2136981 Score: 203
Period size: 19 Copynumber: 5.6 Consensus size: 19
2136866 ATAAATTGAA
2136876 CATCGATGCACATACCATG
1 CATCGATGCACATACCATG
2136895 CATCGATGCACATACCATG
1 CATCGATGCACATACCATG
2136914 CATCGATGCACATACCATG
1 CATCGATGCACATACCATG
2136933 CATCGATGCACATACCATG
1 CATCGATGCACATACCATG
*
2136952 CATCGATGCACATATCATG
1 CATCGATGCACATACCATG
2136971 CATCGATGCAC
1 CATCGATGCAC
2136982 TCAGGGTTTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 86 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (19 bp):
CATCGATGCACATACCATG
Found at i:2137018 original size:65 final size:65
Alignment explanation
Indices: 2136949--2137117 Score: 195
Period size: 64 Copynumber: 2.6 Consensus size: 65
2136939 TGCACATACC
2136949 ATGCATCGATGCACATATCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCA-TT
1 ATGCATCGATGCACATATCATGCATCGATGCACTCAGGGTATTT-TG-AAACATCGAATGCATTT
2137012 TG
64 TG
** *
2137014 ATGCATCGATGCACCA-GCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CATATCATGCATCGATGCACTCAGGGTATTTTGAAACATCGAATGCATTTT
2137078 G
65 G
* * * * *
2137079 -TGCATCGTTGCAC-TCTTAGTGCACCGATGCACTAAGGGT
1 ATGCATCGATGCACATATCA-TGCATCGATGCACTCAGGGT
2137118 CCAACGGTCA
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
63 2 0.02
64 42 0.47
65 40 0.45
66 5 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACATATCATGCATCGATGCACTCAGGGTATTTTGAAACATCGAATGCATTTTG
Found at i:2137111 original size:64 final size:63
Alignment explanation
Indices: 2136949--2137091 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 63
2136939 TGCACATACC
* * *
2136949 ATGCATCGATGCACATATCATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCAC-CAGC-TGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTG
2137014 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
1 ATGCATCGATGCACCAG-C-TGCATCGATGCACTCAGGCT-TTTATGAAAACATCGAATGCA-TT
2137077 TG
62 TG
*
2137079 -TGCATCGTTGCAC
1 ATGCATCGATGCAC
2137092 TCTTAGTGCA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
64 27 0.38
65 41 0.58
66 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACCAGCTGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTG
Found at i:2145695 original size:65 final size:64
Alignment explanation
Indices: 2145623--2145803 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 64
2145613 GAATAAATTG
* *
2145623 AACATCGAATGCATTTCATGTATCGATGCACATACCATGCATCGATGCACTCAGGGT-TTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTATTT-TG-
2145687 A
64 A
* ** * *
2145688 AACATCGAATGCATTTGATGCATTAATGTACCA-ACCATGCATCGATGCACTAAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCATCGATGCACTCAGGCTATTTTGA
* * *
2145752 AACATTGAATGCATTTTATGCATCGATGCAC-T-CTTAGTGCATCGATGCACTC
1 AACATCGAATGCATTTCATGCATCGATGCACATAC-CA-TGCATCGATGCACTC
2145804 TTAGTGTACC
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 40 0.41
65 49 0.51
66 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:2145794 original size:19 final size:19
Alignment explanation
Indices: 2145770--2145821 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
2145760 ATGCATTTTA
2145770 TGCATCGATGCACTCTTAG
1 TGCATCGATGCACTCTTAG
2145789 TGCATCGATGCACTCTTAG
1 TGCATCGATGCACTCTTAG
* *
2145808 TGTACCGATGCACT
1 TGCATCGATGCACT
2145822 AAGGGCCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCTTAG
Found at i:2147204 original size:85 final size:86
Alignment explanation
Indices: 2147060--2147325 Score: 381
Period size: 86 Copynumber: 3.1 Consensus size: 86
2147050 TGCTATCCGA
* * ** * * *
2147060 CTGAGGAAAATACCACATGGTTTTCCCGTAAAGTGGAGTCATCTAAAGATCATCTCACTTGGTTC
1 CTGAGGAATATACCACATGGCTTTCCTATAAAGGGGAGTCATCCAAAAATCATCTCACTTGGTTC
2147125 AGACCCGCTAAGGGGAACCAC
66 AGACCCGCTAAGGGGAACCAC
*
2147146 CTGAGGAATATACCAC-TGGCTTTCCTATGAAGGGGAGTCATCCAAAAATCATCTCACTTGGTTC
1 CTGAGGAATATACCACATGGCTTTCCTATAAAGGGGAGTCATCCAAAAATCATCTCACTTGGTTC
**
2147210 AGACCCGCTAAGGGGAATAAC
66 AGACCCGCTAAGGGGAACCAC
* **
2147231 CTGAGGAATATACCACATGACTTTCCTATAAAGGAAAGTCATCCAAAAATCATCTCACTTGGTTC
1 CTGAGGAATATACCACATGGCTTTCCTATAAAGGGGAGTCATCCAAAAATCATCTCACTTGGTTC
* *
2147296 AGACCCGTTAAGAGGAACCAC
66 AGACCCGCTAAGGGGAACCAC
*
2147317 CTGAAGAAT
1 CTGAGGAAT
2147326 TATGACTGAC
Statistics
Matches: 160, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
85 76 0.47
86 84 0.52
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (86 bp):
CTGAGGAATATACCACATGGCTTTCCTATAAAGGGGAGTCATCCAAAAATCATCTCACTTGGTTC
AGACCCGCTAAGGGGAACCAC
Found at i:2147586 original size:85 final size:84
Alignment explanation
Indices: 2147383--2147618 Score: 280
Period size: 84 Copynumber: 2.8 Consensus size: 84
2147373 GAACTATTGG
* *
2147383 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-CAAAACCTTCGAGTTCGATTCCATTCAG
1 CAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACAC-AAACCTTCGAGTTCGATTCCATTCAA
*
2147447 CTCAAGGATAGCCAAATACA
65 CTCAAGGACAGCCAAATACA
* * * * *
2147467 AAACATAGCTCAAGGCG-TGAAGGGCTATCTGTCAACACAAACCTTCGAGTTCGATTACATTCAA
1 CAGCATAACTCAAGGCGAT-AAGGGTTATCTGTCAACACAAACCTTCGAGTTCGATTCCATTCAA
* * **
2147531 CTCCAGGACATGTCAAATTTA
65 CTCAAGGACA-GCCAAATACA
* * *
2147552 CAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACA-AACACTTTCGAGTTTGATTCCATTAAA
1 CAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACACAA-ACCTTCGAGTTCGATTCCATTCAA
2147616 CTC
65 CTC
2147619 GATGATATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
84 64 0.50
85 62 0.49
86 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (84 bp):
CAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACACAAACCTTCGAGTTCGATTCCATTCAAC
TCAAGGACAGCCAAATACA
Found at i:2147937 original size:43 final size:43
Alignment explanation
Indices: 2147889--2148212 Score: 195
Period size: 43 Copynumber: 7.5 Consensus size: 43
2147879 CGACCTGATC
* *
2147889 TCCTCATCACGTAGGAGCCATGTCAACCCCAGATAACTAGTCG
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACTAGTCG
* * ** * *
2147932 TCCTCATCACGTAGGAATCGTGTTATCATCCTTAGATGACCT-GACG
1 TCCTCATCACGTAGGAACCGTG---TCAACCCCAGAT-AACTAGTCG
* *
2147978 TCCTCATCACGTAGGAACCGTGTCATCACCC-G--ACCT-GATC-
1 TCCTCATCACGTAGGAACCGTGTCAAC-CCCAGATAACTAG-TCG
** * * *
2148018 TTTTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCA
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACTAGTCG
* * ** *
2148061 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGC-ATGCCG
1 TCCTCATCACGTAGGAACCGTGTCA--ACCC-CAGATAACTA-GTCG
* * * *
2148107 TCCTCATCACATAGGAACCGTATCATCACCC-G--ACCT-GATC-
1 TCCTCATCACGTAGGAACCGTGTCAAC-CCCAGATAACTAG-TCG
** * * *
2148147 TCCTCATCACGTAGGAGTCGTGTCAACCCTAGATAACCAGTCA
1 TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACTAGTCG
2148190 TCCTCATCACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAACCGTGT
2148213 TATCACCCGA
Statistics
Matches: 213, Mismatches: 45, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
39 5 0.02
40 53 0.25
41 3 0.01
42 8 0.04
43 70 0.33
44 2 0.01
45 7 0.03
46 62 0.29
47 3 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCCTCATCACGTAGGAACCGTGTCAACCCCAGATAACTAGTCG
Found at i:2148000 original size:46 final size:45
Alignment explanation
Indices: 2147930--2148217 Score: 162
Period size: 46 Copynumber: 6.7 Consensus size: 45
2147920 GATAACTAGT
* *
2147930 CGTCCTCATCACGTAGGAATCGTGTTATCATCCTTAGATGACCTGA
1 CGTCCTCATCACGTAGGAACCGTGTTATCAACC-TAGATGACCTGA
* *
2147976 CGTCCTCATCACGTAGGAACCGTGTCATC-ACC----CGACCTGA
1 CGTCCTCATCACGTAGGAACCGTGTTATCAACCTAGATGACCTGA
** * * * * *
2148016 TC-TTTTCATCACGTAGGAGCCGTG---TCAACCCCAGATAACCAGT
1 -CGTCCTCATCACGTAGGAACCGTGTTATCAA-CCTAGATGACCTGA
* * * * *
2148059 CATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCATGC
1 CGTCCTCATCACGTAGGAACCGTGTTATCAACC-TAGATGACCTGA
* * * *
2148105 CGTCCTCATCACATAGGAACCGTATCATC-ACC----CGACCTGA
1 CGTCCTCATCACGTAGGAACCGTGTTATCAACCTAGATGACCTGA
** * * *
2148145 TC-TCCTCATCACGTAGGAGTCGTG---TCAACCCTAGATAACCAGT
1 -CGTCCTCATCACGTAGGAACCGTGTTATCAA-CCTAGATGACCTGA
*
2148188 CATCCTCATCACGTAGGAACCGTGTTATCA
1 CGTCCTCATCACGTAGGAACCGTGTTATCA
2148218 CCCGACCTGA
Statistics
Matches: 179, Mismatches: 40, Indels: 46
0.68 0.15 0.17
Matches are distributed among these distances:
37 4 0.02
38 2 0.01
39 4 0.02
40 48 0.27
41 2 0.01
42 2 0.01
43 47 0.26
45 6 0.03
46 64 0.36
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (45 bp):
CGTCCTCATCACGTAGGAACCGTGTTATCAACCTAGATGACCTGA
Found at i:2148098 original size:129 final size:129
Alignment explanation
Indices: 2147868--2148220 Score: 580
Period size: 129 Copynumber: 2.7 Consensus size: 129
2147858 TTACAACAAT
* * *
2147868 GTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCAACCCCAGATAACTAGTCGT
1 GTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCAT
* * * *
2147933 CCTCATCACGTAGGAATCGTGTTATCATCCTTAGATGACCTGACGTCCTCATCACGTAGGAACC
66 CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACATGACGTCCTCATCACATAGGAACC
**
2147997 GTGTCATCACCCGACCTGATCTTTTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCAT
1 GTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCAT
* *
2148062 CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCATGCCGTCCTCATCACATAGGAACC
66 CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACATGACGTCCTCATCACATAGGAACC
* * *
2148126 GTATCATCACCCGACCTGATCTCCTCATCACGTAGGAGTCGTGTCAACCCTAGATAACCAGTCAT
1 GTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCAT
2148191 CCTCATCACGTAGGAACCGTGTTATCACCC
66 CCTCATCACGTAGGAACCGTGTTATCACCC
2148221 GACCTGATCT
Statistics
Matches: 208, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 208 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (129 bp):
GTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCAT
CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACATGACGTCCTCATCACATAGGAACC
Found at i:2148206 original size:83 final size:83
Alignment explanation
Indices: 2147871--2148375 Score: 277
Period size: 89 Copynumber: 6.0 Consensus size: 83
2147861 CAACAATGTG
* *
2147871 TCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCAACCCCAGATAACTAGTCGTCCT
1 TCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCGTCCT
*
2147936 CATCACGTAGGAATCGTGTTA
66 CATCACGTAGGAA-C-CG-TA
*** * * *
2147957 TCATCCTTAGATGACCTGA-CGTCCTCATCACGTAGGAACCGTGTCATCACCC-G---ACCTGAT
1 TCAT-C--ACCCGACCTGATC-TCCTCATCACGTAGGAGCCGTGTCAAC-CCCAGATAACCAG-T
** * *
2148017 C-TTTTCATCACGTAGGAGCCGTG
60 CGTCCTCATCACGTAGGAACCGTA
* * * * * **
2148040 TCAAC-CCCAGATAACCAG-TCATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGAT-GGCA
1 TCATCACCC-G---ACCTGATC-TCCTCATCACGTAGGAGCCGTGTCA--ACCC-CAGATAACCA
* *
2148102 TGCCGTCCTCATCACATAGGAACCGTA
58 -GTCGTCCTCATCACGTAGGAACCGTA
* * *
2148129 TCATCACCCGACCTGATCTCCTCATCACGTAGGAGTCGTGTCAACCCTAGATAACCAGTCATCCT
1 TCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCGTCCT
*
2148194 CATCACGTAGGAACCGTG
66 CATCACGTAGGAACCGTA
* * ** *
2148212 TTATCACCCGACCTGA-----TC-TCACGCAGGAGTTGTGTCAACCCCCAGATAACCAGTCTTCC
1 TCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAA-CCCCAGATAACCAGTCGTCC
* *
2148271 TCATCACGTAGTAACCGTG
65 TCATCACGTAGGAACCGTA
* * * ** * * *
2148290 TTATAACCCTTAGATGGTATACCGTCCTCATCACGTAGGAACTGTGTCAACCCTAGATAA-CATG
1 TCATCACCC-GACCT-G-AT--C-TCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCA-G
* *
2148354 TCGTCCTTATCACATAGGAACC
59 TCGTCCTCATCACGTAGGAACC
2148376 ATGTTATTTC
Statistics
Matches: 323, Mismatches: 60, Indels: 69
0.71 0.13 0.15
Matches are distributed among these distances:
77 18 0.06
78 46 0.14
79 2 0.01
80 2 0.01
81 1 0.00
82 1 0.00
83 75 0.23
84 9 0.03
85 2 0.01
86 48 0.15
87 5 0.02
88 5 0.02
89 86 0.27
90 23 0.07
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (83 bp):
TCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGTCGTCCT
CATCACGTAGGAACCGTA
Found at i:2148287 original size:78 final size:79
Alignment explanation
Indices: 2148107--2148298 Score: 244
Period size: 78 Copynumber: 2.4 Consensus size: 79
2148097 TGGCATGCCG
* * * *
2148107 TCCTCATCACATAGGAACCGTATCATCACCCGACCTGATCTCCTCATCACGTAGGAGTCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTTATCACCCGACCTGA----CTCATCACGCAGGAGTCGTGTCA
*
2148172 ACCCTAGATAACCAGTCA
62 ACCCCAGATAACCAGTCA
*
2148190 TCCTCATCACGTAGGAACCGTGTTATCACCCGACCTGA-TC-TCACGCAGGAGTTGTGTCAACCC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCGACCTGACTCATCACGCAGGAGTCGTGTCAA-CC
*
2148253 CCAGATAACCAGTCT
65 CCAGATAACCAGTCA
* *
2148268 TCCTCATCACGTAGTAACCGTGTTATAACCC
1 TCCTCATCACGTAGGAACCGTGTTATCACCC
2148299 TTAGATGGTA
Statistics
Matches: 99, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
77 18 0.18
78 46 0.46
83 35 0.35
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (79 bp):
TCCTCATCACGTAGGAACCGTGTTATCACCCGACCTGACTCATCACGCAGGAGTCGTGTCAACCC
CAGATAACCAGTCA
Found at i:2148318 original size:46 final size:46
Alignment explanation
Indices: 2148268--2148425 Score: 153
Period size: 46 Copynumber: 3.5 Consensus size: 46
2148258 TAACCAGTCT
* *
2148268 TCCTCATCACGTAGTAACCGTGTTATAACCCTTAGATGGTATACCG
1 TCCTCATCACGTAGGAACCGTGTTATAACCCTTAGATGGCATACCG
* * ** **
2148314 TCCTCATCACGTAGGAACTGTG-T-CAACCC-TAGATAACATGTCG
1 TCCTCATCACGTAGGAACCGTGTTATAACCCTTAGATGGCATACCG
* * * ** *
2148357 TCCTTATCACATAGGAACCATGTTATTTCCCTTAGATGGCATACTG
1 TCCTCATCACGTAGGAACCGTGTTATAACCCTTAGATGGCATACCG
2148403 TTCCT-ATCACGTAGGAACCGTGT
1 -TCCTCATCACGTAGGAACCGTGT
2148426 CATCACCCGA
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
43 27 0.31
44 6 0.07
45 4 0.05
46 45 0.52
47 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (46 bp):
TCCTCATCACGTAGGAACCGTGTTATAACCCTTAGATGGCATACCG
Found at i:2148382 original size:89 final size:90
Alignment explanation
Indices: 2148242--2148427 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 90
2148232 ACGCAGGAGT
* * * *
2148242 TGTGTCAACCCCCAGATAACCAGTCTTCCTCATCACGTAGTAACCGTGTTATAACCCTTAGATGG
1 TGTGTCAACCCCCAGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATAACCCTTAGATGG
*
2148307 TATACCG-TCCTCATCACGTAGGAAC
66 CATACCGTTCCT-ATCACGTAGGAAC
* * **
2148332 TGTGTCAA-CCCTAGATAA-CATGTCGTCCTTATCACATAGGAACCATGTTATTTCCCTTAGATG
1 TGTGTCAACCCCCAGATAACCA-GTCGTCCTCATCACATAGGAACCATGTTATAACCCTTAGATG
*
2148395 GCATACTGTTCCTATCACGTAGGAAC
65 GCATACCGTTCCTATCACGTAGGAAC
*
2148421 CGTGTCA
1 TGTGTCA
2148428 TCACCCGACT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.02
89 69 0.83
90 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (90 bp):
TGTGTCAACCCCCAGATAACCAGTCGTCCTCATCACATAGGAACCATGTTATAACCCTTAGATGG
CATACCGTTCCTATCACGTAGGAAC
Found at i:2148801 original size:3 final size:3
Alignment explanation
Indices: 2148793--2148860 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
2148783 GGTCAAAAAA
* *
2148793 TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT GT-T TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
2148837 TAT TAAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TA
2148861 CATTTTTTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 3 0.05
3 52 0.88
4 4 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2150373 original size:60 final size:59
Alignment explanation
Indices: 2150309--2150460 Score: 150
Period size: 60 Copynumber: 2.5 Consensus size: 59
2150299 TAAGTGTATG
*
2150309 TTTTTGTTATCTTAGACCCTTAATTTTCTATTTTTAATATTTTAGT-TTTTT-AATTATCTA
1 TTTTT-TTAT-TTAGAACCTTAATTTTCTATTTTTAATATTTTAGTATTTTTAAATT-TCTA
* * * *
2150369 TTTTTATTATTTTAGAACCGTAAGTTTT-TGTTTGTGATATTTTAGTATTTTTAAATTTCTA
1 TTTTT-TTA-TTTAGAACCTTAA-TTTTCTATTTTTAATATTTTAGTATTTTTAAATTTCTA
* * *
2150430 TTTTTTTATTTA-ATCTTTAAGTTTCTATTTT
1 TTTTTTTATTTAGAACCTTAATTTTCTATTTT
2150461 ACTATGTTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
57 3 0.04
58 9 0.12
59 4 0.05
60 36 0.48
61 19 0.25
62 4 0.05
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (59 bp):
TTTTTTTATTTAGAACCTTAATTTTCTATTTTTAATATTTTAGTATTTTTAAATTTCTA
Found at i:2150440 original size:30 final size:30
Alignment explanation
Indices: 2150328--2150460 Score: 85
Period size: 30 Copynumber: 4.5 Consensus size: 30
2150318 TCTTAGACCC
* *
2150328 TTAATTTTCTATTTTTAATATTTTAG-TTT
1 TTAAATTTCTATTTTTAATATTTTAGATCT
* * * *
2150357 TTTAATTATCTATTTTTATTATTTTAGAACC
1 TTAAATT-TCTATTTTTAATATTTTAGATCT
* * * * * * *
2150388 GTAAGTTTTTGTTTGTGATATTTTAGTATTT
1 TTAAATTTCTATTTTTAATATTTTAG-ATCT
*
2150419 TTAAATTTCTATTTTT-TTA-TTTA-ATCT
1 TTAAATTTCTATTTTTAATATTTTAGATCT
*
2150446 TTAAGTTTCTATTTT
1 TTAAATTTCTATTTT
2150461 ACTATGTTGG
Statistics
Matches: 76, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
27 17 0.22
29 9 0.12
30 34 0.45
31 16 0.21
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (30 bp):
TTAAATTTCTATTTTTAATATTTTAGATCT
Found at i:2152644 original size:34 final size:33
Alignment explanation
Indices: 2152584--2152657 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
2152574 AATCCCTTCA
*
2152584 TTATTATTATTTTTTATATACATATTTGCTCATT
1 TTATTTTTATTTTTTATATACATATTT-CTCATT
* *
2152618 TTATTTTTATTTTATTACT-TAC-TATTTTTTATT
1 TTATTTTTATTTT-TTA-TATACATATTTCTCATT
2152651 TTATTTT
1 TTATTTT
2152658 AACTACACGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 11 0.31
34 17 0.49
35 6 0.17
36 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (33 bp):
TTATTTTTATTTTTTATATACATATTTCTCATT
Found at i:2153000 original size:5 final size:5
Alignment explanation
Indices: 2152992--2153114 Score: 78
Period size: 5 Copynumber: 24.4 Consensus size: 5
2152982 TTCTTTACTT
* * *
2152992 TTTTA TTTT- TTATT- TTTTA TTTTT TGTTTA TTATA TTATTA TATT-
1 TTTTA TTTTA TT-TTA TTTTA TTTTA T-TTTA TTTTA TT-TTA TTTTA
* * *
2153037 CTTTA TTTTA TTTATT TTTTA TTTTTA CTTTTA -TTTC TTTT- TTTTA
1 TTTTA TTTTA TTT-TA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA
*
2153083 TCATTA TTTTA TTTTA -TTTA TTTTA TTTTA TT
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
2153115 ATCTTTACTT
Statistics
Matches: 93, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
4 17 0.18
5 51 0.55
6 25 0.27
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:2153007 original size:50 final size:53
Alignment explanation
Indices: 2152941--2153061 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 53
2152931 CTTTCAGTGA
*
2152941 TTTTAGTTTTTTATTTTCTATTTCATT-TATATT-TATT-TTGT-TTCTTTACTT
1 TTTTA-TTTTTTATTTTCTATTT-ATTGTATATTATATTATTATATTCTTTACTT
* * * *
2152992 TTTTATTTTTTATTTTTTATTTTTTGTTTATTATATTATTATATTCTTTATTT
1 TTTTATTTTTTATTTTCTATTTATTGTATATTATATTATTATATTCTTTACTT
2153045 TATTTATTTTTTATTTT
1 T-TTTATTTTTTATTTT
2153062 TACTTTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 2 0.03
50 21 0.35
51 9 0.15
52 3 0.05
53 10 0.17
54 15 0.25
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (53 bp):
TTTTATTTTTTATTTTCTATTTATTGTATATTATATTATTATATTCTTTACTT
Found at i:2153079 original size:11 final size:10
Alignment explanation
Indices: 2152947--2153111 Score: 66
Period size: 12 Copynumber: 15.1 Consensus size: 10
2152937 GTGATTTTAG
2152947 TTTTTTATTT
1 TTTTTTATTT
*
2152957 TCTATTTCATTT
1 T-T-TTTTATTT
* *
2152969 ATATTTATTTT
1 TTTTTTA-TTT
2152980 GTTTCTTTACTTT
1 -TTT-TTTA-TTT
2152993 TTTATTT-TTT
1 TTT-TTTATTT
2153003 ATTTTTTATTT
1 -TTTTTTATTT
2153014 TTTGTTTATTAT
1 TTT-TTTATT-T
*
2153026 ATTATTATATTCT
1 -TT-TTTTATT-T
2153039 TTATTTTATTT
1 TT-TTTTATTT
2153050 ATTTTTTATTT
1 -TTTTTTATTT
2153061 TTACTTTTATTT
1 TT--TTTTATTT
*
2153073 CTTTTT-TTT
1 TTTTTTATTT
* **
2153082 ATCATTATTT
1 TTTTTTATTT
*
2153092 TATTTTA-TT
1 TTTTTTATTT
*
2153101 TATTTTATTT
1 TTTTTTATTT
2153111 T
1 T
2153112 ATTATCTTTA
Statistics
Matches: 120, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
9 15 0.12
10 28 0.23
11 26 0.22
12 35 0.29
13 15 0.12
14 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:2153079 original size:25 final size:24
Alignment explanation
Indices: 2153018--2153111 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
2153008 TTATTTTTTG
* * *
2153018 TTTATTATATTATTATATTCTTTAT
1 TTTATTTTATTTTTTTATT-TTTAT
2153043 TTTA-TTTA-TTTTTTATTTTTACT
1 TTTATTTTATTTTTTTATTTTTA-T
**
2153066 TTTATTTCT-TTTTTTTATCATTAT
1 TTTATTT-TATTTTTTTATTTTTAT
2153090 TTTATTTTATTTATTTTATTTT
1 TTTATTTTATTT-TTTTATTTT
2153112 ATTATCTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 4 0.07
23 13 0.23
24 16 0.29
25 23 0.41
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTATTTTATTTTTTTATTTTTAT
Found at i:2153108 original size:66 final size:64
Alignment explanation
Indices: 2152941--2153114 Score: 155
Period size: 64 Copynumber: 2.7 Consensus size: 64
2152931 CTTTCAGTGA
* * * *
2152941 TTTTAGTTTTTTATTT-TCTATTTCATTTATATTTATTTT-GTTTCTTTACTTTTTTATTTTTTA
1 TTTTA-TTTTTTGTTTAT-TATTTTATTT-TATTTATTTTATTTTATTTACTTTTTTATTTTTTA
2153004 TT
63 TT
* * *
2153006 TTTTATTTTTTGTTTATTATATTATTATA-TT-CTTTATTTTATTTA-TTTTTTA-TTTTTACTT
1 TTTTATTTTTTGTTTATTATTTTATTTTATTTATTTTATTTTATTTACTTTTTTATTTTTTA-TT
*
2153067 TTATT-TCTTTTTTTTATCATTATTTTATTTTATTTATTTTATTTTATT
1 TT-TTAT-TTTTTGTT-T-ATTATTTTATTTTATTTATTTTATTTTATT
2153115 ATCTTTACTT
Statistics
Matches: 89, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
60 6 0.07
61 15 0.17
62 18 0.20
63 3 0.03
64 28 0.31
65 8 0.09
66 11 0.12
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (64 bp):
TTTTATTTTTTGTTTATTATTTTATTTTATTTATTTTATTTTATTTACTTTTTTATTTTTTATT
Found at i:2153121 original size:9 final size:8
Alignment explanation
Indices: 2152990--2153146 Score: 67
Period size: 7 Copynumber: 20.4 Consensus size: 8
2152980 GTTTCTTTAC
2152990 TTTT-TTA
1 TTTTATTA
2152997 TTTT-TTA
1 TTTTATTA
2153004 TTTT-TTA
1 TTTTATTA
2153011 TTTT-TT-
1 TTTTATTA
*
2153017 GTTTATTA
1 TTTTATTA
*
2153025 TATTATTA
1 TTTTATTA
2153033 TATTCT-TTA
1 T-TT-TATTA
2153042 TTTTATTTA
1 TTTTA-TTA
2153051 TTTT-TTA
1 TTTTATTA
2153058 -TTT-TTA
1 TTTTATTA
2153064 CTTTTATT-
1 -TTTTATTA
*
2153072 TCTT-TT-
1 TTTTATTA
*
2153078 TTTTATCA
1 TTTTATTA
2153086 TTATT-TTA
1 TT-TTATTA
2153094 TTTTATT-
1 TTTTATTA
*
2153101 TATT-TTA
1 TTTTATTA
2153108 TTTTATTA
1 TTTTATTA
2153116 TCTTTACTT-
1 T-TTTA-TTA
2153125 TTTTATCTCA
1 TTTTAT-T-A
2153135 TTTTAGTTA
1 TTTTA-TTA
2153144 TTT
1 TTT
2153147 ATTTTTTCCC
Statistics
Matches: 119, Mismatches: 10, Indels: 40
0.70 0.06 0.24
Matches are distributed among these distances:
6 16 0.13
7 39 0.33
8 29 0.24
9 25 0.21
10 9 0.08
11 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTATTA
Found at i:2153174 original size:28 final size:30
Alignment explanation
Indices: 2153141--2153197 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
2153131 CTCATTTTAG
*
2153141 TTATTTATTTT-TTCCCTTTTT-CTCTATT
1 TTATTTATTTTATTACCTTTTTCCTCTATT
2153169 TTATTTATTTTCATTACCTTTTTCCTCTA
1 TTATTTATTTT-ATTACCTTTTTCCTCTA
2153198 ACGTGTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (30 bp):
TTATTTATTTTATTACCTTTTTCCTCTATT
Found at i:2155733 original size:95 final size:95
Alignment explanation
Indices: 2155614--2155814 Score: 289
Period size: 95 Copynumber: 2.1 Consensus size: 95
2155604 ATATTATAAT
*
2155614 ATTATATATATACAAAAAAGCTTGAGCTGTCCCTCTAAAACAATTGGTTAAATGCCCTGGCTTTA
1 ATTATA-ATATACAAAAAAGCTTGAGCTGTCCCTCTAAAACAATTGGTTAAACGCCCTGGCTTTA
* *
2155679 TGGATAAGATTCAGCTAGCC-TGATAAAGGTG
65 TGGATAAGATTAAGCTAGCCAT-ATAAAGATG
* * * *
2155710 ATTATAATATACAATAAAA-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTTGGCTTTA
1 ATTATAATATACAA-AAAAGCTTGAGCTGTCCCTCTAAAACAATTGGTTAAACGCCCTGGCTTTA
*
2155774 TGGATAATATTAAGCTAGCCATATAAAGATG
65 TGGATAAGATTAAGCTAGCCATATAAAGATG
2155805 ATTATAATAT
1 ATTATAATAT
2155815 CTATACAATG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
95 84 0.88
96 11 0.12
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAAAAAAGCTTGAGCTGTCCCTCTAAAACAATTGGTTAAACGCCCTGGCTTTAT
GGATAAGATTAAGCTAGCCATATAAAGATG
Found at i:2155875 original size:98 final size:95
Alignment explanation
Indices: 2155614--2155876 Score: 262
Period size: 95 Copynumber: 2.7 Consensus size: 95
2155604 ATATTATAAT
* * * * * ** *
2155614 ATTATATATATACAA-AAAAGCTTGAGCTGTCCCTCTAAAACAATTGGTTAAATGCCCTGGCTTT
1 ATTATA-ATATACAATAAAA-ATTAAGATGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTT
* *
2155678 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
64 ATGGATAAGATTAAGCTAGCCTGATAAAGATG
* * * * **
2155710 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTTGGCTTTAT
1 ATTATAATATACAATAAAAATTAAGATGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTAT
*
2155775 GGATAATATTAAGCTAGCCAT-ATAAAGATG
66 GGATAAGATTAAGCTAGCC-TGATAAAGATG
* * *
2155805 ATTATAATAT-CTATACAATGATATTAAGATGTCCCTCTAGAGTAATTGGTTAACCACCCCGGCT
1 ATTATAATATACAATA-AA--A-ATTAAGATGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCT
2155869 TTATGGAT
62 TTATGGAT
2155877 TCAACTAGCC
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
94 4 0.03
95 86 0.60
96 11 0.08
97 1 0.01
98 42 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAAATTAAGATGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTAT
GGATAAGATTAAGCTAGCCTGATAAAGATG
Found at i:2157142 original size:84 final size:84
Alignment explanation
Indices: 2156990--2158370 Score: 1512
Period size: 84 Copynumber: 16.5 Consensus size: 84
2156980 GAAACTATTG
* * * *
2156990 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTTA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
2157055 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * **
2157074 GCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCCCCAAAAGACCTTCGAGTTTAACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2157139 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * *
2157158 GCAACATAACTCAAGGTTATAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCTC
*
2157222 AGCTCCAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * * * * * * * * *
2157242 GCAACATAGCTCAAGGCAAAAAGGGTTATTTGCCA-AAAAATACATTCGAGCTCAATTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2157306 ACTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * *
2157325 GCAGCATAGCTCAATGCGAGAAGGGCTGTCAGCCACCAAAAGACCTTCGAGTT-GACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
* *
2157389 GTTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
*
2157408 GTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCTC
*
2157472 AGCTCAAAGGCATATCATTT
65 AGCTCAAAGGCACATCATTT
* * * * *
2157492 ACAACATAACTCAAGGCAAGAAGGGTTATTTGCCAGCAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2157557 GCTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* * **
2157576 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAATACCTTCAAGTTCGACTATACTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
2157640 AGATCCAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * * * * *
2157660 GCAACATAGCTCAAGGCAAGAAGGGTTATTTGTCAACAAAAAACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
* *
2157725 GCTCCAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
2157744 GCAACATAACTTAAGGCTAGAAGGGTAATCTGCCAACC-AAAGAACTTCGAGTTTGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
2157808 AACTCCAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * * * *
2157828 GCAACATAACTCAAGGCAATAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGAATACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2157893 GCTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
2157912 GCAGAATAACTCAAGGCTAAAAGGGTTATCTGTCAACC-AAAGATCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTG-CCACCAAAAGACCTTCGAGTTCGACTACGCTC
*
2157976 AGCTCAAAGGCATATCATTT
65 AGCTCAAAGGCACATCATTT
* ** * * *
2157996 GCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAATAAAAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2158061 GCTCAAAGGCACATAATTT
66 GCTCAAAGGCACATCATTT
* * * * ** * * *
2158080 ACAGAATAGCTCAAGGCGAGAAGGGTTA--TGCCAATAAAAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2158143 GCTCAAAGGCACATAATTT
66 GCTCAAAGGCACATCATTT
* * * * * * **
2158162 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTCCATTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
2158227 GCTCAAAGGCATATCCAATTT
66 GCTCAAAGGCACAT-C-ATTT
* * * *** * *
2158248 ACA-CATAACTTAAGGCGAGAAGGGTTATCTATTAGCC--AATACCTTCGAGTTCGATTCTA--T
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CCAAAAGACCTTCGAGTTCGA--CTACGC
2158308 TCAGCTCAAAGGCACATCATTT
63 TCAGCTCAAAGGCACATCATTT
* * * * * *
2158330 ACAGTATAACTCAAGGCAAGAAGGGCTATCTGTCAACAAAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAA
2158371 TTGTCGAGTT
Statistics
Matches: 1103, Mismatches: 172, Indels: 44
0.84 0.13 0.03
Matches are distributed among these distances:
82 86 0.08
83 167 0.15
84 809 0.73
85 33 0.03
86 8 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCAAAGGCACATCATTT
Found at i:2157726 original size:252 final size:252
Alignment explanation
Indices: 2156994--2158370 Score: 1676
Period size: 252 Copynumber: 5.5 Consensus size: 252
2156984 CTATTGGCAG
* * *
2156994 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTTAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* **
2157059 AAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCCCCAAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
** ** *
2157124 GTTTAACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGTTATAAGGGTTATCT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCT
* *
2157189 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAA
196 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
* * * * * * * * * *
2157246 CATAGCTCAAGGCAAAAAGGGTTATTTGCCAA-AAAATACATTCGAGCTCAATTACGCTCAACTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * * *
2157310 AAAGGCACATCATTTGCAGCATAGCTCAATGCGAGAAGGGCTGTCAGCCACCAAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
* * * * *
2157375 GTT-GACTATGCTCAGTTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCT
*
2157439 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTACAA
196 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
* * *
2157496 CATAACTCAAGGCAAGAAGGGTTATTTGCCAGCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * * * *
2157561 AAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATACCTTCAA
66 AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
** * * *
2157626 GTTCGACTATACTCAGATCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCT
* * * *
2157691 GTCAACAAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAA
196 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
* * * * * *
2157748 CATAACTTAAGGCTAGAAGGGTAATCTGCCAACCAAAGAACTTCGAGTTTGACTACGCTCAACTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * * * *
2157813 CAAGGCACATCATTTGCAACATAACTCAAGGCAATAAGGGTTATTTGCCAACAAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
* * *
2157878 GTTCGAATACGCTCAGCTCAAAGGCATATCATTTGCAGA-ATAACTCAAGGCTAA-AAGGGTTAT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA-ACATAACTCAAGGC-AAGAAGGGTTAT
* *
2157941 CTGTCAACCAAAGATCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
194 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
* * * *
2158000 CATAACTCAAGGCTAGAAGGGTTATCTGCCAATAAAAGACCTTCGAGTTTGATTACACTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * * * *
2158065 AAAGGCACATAATTTACAGAATAGCTCAAGGCGAGAAGGG-T-TATGCCAATAAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
* * * * * * * *
2158128 GTTTGATTACACTCAGCTCAAAGGCACATAATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCT
* * * ** *
2158193 GCCAACAAAAGACCTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCCAATTTAC-A
196 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATAT-C-ATTTGCAA
* * *** * * * *
2158251 CATAACTTAAGGCGAGAAGGGTTATCTATTAGC-CAATACCTTCGAGTTCGATTCTA--TTCAGC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGA--CTACGCTCAGC
* * * *
2158313 TCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGAAGGGCTATCTGTCAACAAAA
64 TCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAA
2158371 TTGTCGAGTT
Statistics
Matches: 973, Mismatches: 140, Indels: 24
0.86 0.12 0.02
Matches are distributed among these distances:
249 2 0.00
250 309 0.32
251 202 0.21
252 457 0.47
253 3 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (252 bp):
CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
AAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCT
GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAA
Found at i:2158936 original size:22 final size:21
Alignment explanation
Indices: 2158905--2158966 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
2158895 TTCGTCCGAT
*
2158905 TATACATTTATAATATTTATA
1 TATATATTTATAATATTTATA
**
2158926 TACTATATTTA-ACATATAAATA
1 TA-TATATTTATA-ATATTTATA
*
2158948 TATATATTTATTAT-TTTAT
1 TATATATTTATAATATTTAT
2158967 TTATTTACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.09
21 13 0.41
22 16 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATATTTATAATATTTATA
Found at i:2160089 original size:34 final size:33
Alignment explanation
Indices: 2160029--2160102 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
2160019 AATCCATACA
*
2160029 TTATTATTATTTTTTATATACATATTTGGTCATT
1 TTATTTTTATTTTTTATATACATATTT-GTCATT
* *
2160063 TTATTTTTATTTTATTACT-TAC-TATTTTTTATT
1 TTATTTTTATTTT-TTA-TATACATATTTGTCATT
2160096 TTATTTT
1 TTATTTT
2160103 ATCTACACGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 11 0.31
34 17 0.49
35 6 0.17
36 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (33 bp):
TTATTTTTATTTTTTATATACATATTTGTCATT
Found at i:2160177 original size:18 final size:18
Alignment explanation
Indices: 2160156--2160219 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
2160146 TTTCATTTTC
2160156 ATTTTTATTATTACTATT
1 ATTTTTATTATTACTATT
2160174 ATTTTTATTATTACTATT
1 ATTTTTATTATTACTATT
2160192 -TTCTTT-TTATT-CTACTT
1 ATT-TTTATTATTACTA-TT
*
2160209 ATTTATATTAT
1 ATTTTTATTAT
2160220 ATATGTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
16 3 0.07
17 11 0.27
18 27 0.66
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATTATTACTATT
Found at i:2160339 original size:2 final size:2
Alignment explanation
Indices: 2160327--2160368 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2160317 TTTTTACCTA
*
2160327 AT AT TT 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
2160369 TTTTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2160564 original size:5 final size:5
Alignment explanation
Indices: 2160554--2160727 Score: 65
Period size: 4 Copynumber: 36.4 Consensus size: 5
2160544 GTTTCTTTAC
* * *
2160554 TTATT TTATT TT-TT GT-TT TTATA TTATT ATTATG TTA-T TTATT TTA-T
1 TTATT TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTATT
* * * *
2160601 TTGTT TTCTT TGTTTT TTATTT TTACTT TTA-T TT-TT TTATCA TTATT
1 TTATT TTATT T-TATT TTA-TT TTA-TT TTATT TTATT TTAT-T TTATT
* * * *
2160648 TTA-T TTATT TCA-T TT-TT TTATCT TTA-C TT-TT TTATC TCATT TTA-T
1 TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT
2160693 TTATT TT-TT TT-TT TT-TT CTCTATT TTA-T TTATT TT
1 TTATT TTATT TTATT TTATT -T-TATT TTATT TTATT TT
2160728 CATTACCTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 40
0.68 0.11 0.21
Matches are distributed among these distances:
4 49 0.38
5 49 0.38
6 28 0.22
7 2 0.02
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:2160636 original size:20 final size:19
Alignment explanation
Indices: 2160511--2160727 Score: 81
Period size: 20 Copynumber: 10.6 Consensus size: 19
2160501 TGATTTGAGT
*
2160511 TTTTTTTATTTTCTATTTCA
1 TTTTTTTATTTT-TATTTTA
2160531 TTTATATTTATTTGTT-TCTTTA
1 TTT-T-TTTATTT-TTAT-TTTA
*
2160553 CTTATTTTATTTTT-TGTTT-
1 -TTTTTTTATTTTTAT-TTTA
* * * *
2160572 TTATATTATTATTATGTTA
1 TTTTTTTATTTTTATTTTA
2160591 TTTATTTTATTTGTT-TTCTT-
1 TTT-TTTTATTT-TTATT-TTA
2160611 TGTTTTTTATTTTTACTTTTA
1 T-TTTTTTATTTTTA-TTTTA
**
2160632 TTTTTTTATCATTATTTTA
1 TTTTTTTATTTTTATTTTA
*
2160651 TTTATTTCATTTTTTTATCTTTA
1 TTT-TTT--TATTTTTAT-TTTA
*
2160674 CTTTTTTATCTCATTT-TATTTA
1 TTTTTTTAT-T--TTTAT-TTTA
2160696 TTTTTTT-TTTTT-TTCTCTA
1 TTTTTTTATTTTTATT-T-TA
2160715 TTTTATTTATTTT
1 TTTT-TTTATTTT
2160728 CATTACCTTT
Statistics
Matches: 153, Mismatches: 19, Indels: 49
0.69 0.09 0.22
Matches are distributed among these distances:
17 1 0.01
18 18 0.12
19 19 0.12
20 47 0.31
21 24 0.16
22 32 0.21
23 12 0.08
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTTATTTTTATTTTA
Found at i:2160637 original size:14 final size:13
Alignment explanation
Indices: 2160554--2160727 Score: 104
Period size: 14 Copynumber: 12.5 Consensus size: 13
2160544 GTTTCTTTAC
2160554 TTATTTTATTTTT
1 TTATTTTATTTTT
2160567 TGT-TTTTATATTATT
1 T-TATTTTAT-TT-TT
*
2160582 ATTATGTTATTTATT
1 -TTATTTTATTT-TT
*
2160597 TTATTTGT-TTTCT
1 TTATTT-TATTTTT
*
2160610 TTGTTTT-TTATTT
1 TTATTTTATT-TTT
2160623 TTACTTTTATTTTT
1 TTA-TTTTATTTTT
*
2160637 TTATCATTATTTTAT
1 TTAT-TTTATTTT-T
*
2160652 TTATTTCATTTTT
1 TTATTTTATTTTT
*
2160665 TTATCTTTACTTTT
1 TTAT-TTTATTTTT
* *
2160679 TTATCTCATTTTAT
1 TTATTTTATTTT-T
2160693 TTATTTT-TTTTT
1 TTATTTTATTTTT
*
2160705 TTTTTCTCTATTTTAT
1 TTATT-T-TATTTT-T
2160721 TTATTTT
1 TTATTTT
2160728 CATTACCTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
12 8 0.06
13 33 0.26
14 53 0.42
15 21 0.17
16 11 0.09
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:2160646 original size:60 final size:59
Alignment explanation
Indices: 2160530--2160682 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 59
2160520 TTTCTATTTC
*
2160530 ATTTATATTTATTTG-TTTCTTTACTTATTTTATTTTTTGTTTTTATATTATTATTATGTT
1 ATTTAT-TTTATTTGTTTTCTTTACTT-TTTTATTTTTTGTTTTTATATTATCATTATGTT
* * * *
2160590 ATTTATTTTATTTGTTTTCTTT-GTTTTTTATTTTTACT-TTTATTTTTTTATCATTATTTT
1 ATTTATTTTATTTGTTTTCTTTACTTTTTTATTTTT--TGTTT-TTATATTATCATTATGTT
* *
2160650 ATTTATTTCATTTTTTTATCTTTACTTTTTTAT
1 ATTTATTTTATTTGTTT-TCTTTACTTTTTTAT
2160683 CTCATTTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
58 10 0.13
59 13 0.16
60 43 0.54
61 5 0.06
62 8 0.10
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (59 bp):
ATTTATTTTATTTGTTTTCTTTACTTTTTTATTTTTTGTTTTTATATTATCATTATGTT
Found at i:2160665 original size:41 final size:41
Alignment explanation
Indices: 2160620--2160707 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
2160610 TTGTTTTTTA
* *
2160620 TTTTTA-CTTTTATTTTTTTATCATTATTTTATTTATTTCATT
1 TTTTTATC-TTTACTTTTTTATC-TCATTTTATTTATTTCATT
**
2160662 TTTTTATCTTTACTTTTTTATCTCATTTTATTTATTTTTTT
1 TTTTTATCTTTACTTTTTTATCTCATTTTATTTATTTCATT
2160703 TTTTT
1 TTTTT
2160708 TTCTCTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 21 0.51
42 19 0.46
43 1 0.02
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (41 bp):
TTTTTATCTTTACTTTTTTATCTCATTTTATTTATTTCATT
Found at i:2160691 original size:60 final size:61
Alignment explanation
Indices: 2160571--2160699 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 61
2160561 ATTTTTTGTT
* * * * * *
2160571 TTTATATTATTATTATGTTATTTATTTTATTTGTTTTCTTTGTTTTTTATTTTTACTTTTA
1 TTTATTTTATCATTATGTTATTTATTTCATTTGTTTTCTTTCTTTTTTATTCTCACTTTTA
* *
2160632 TTT-TTTTATCATTATTTTATTTATTTCATTTTTTTATCTTTACTTTTTTA-TCTCA-TTTTA
1 TTTATTTTATCATTATGTTATTTATTTCATTTGTTT-TCTTT-CTTTTTTATTCTCACTTTTA
2160692 TTTATTTT
1 TTTATTTT
2160700 TTTTTTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
60 35 0.61
61 15 0.26
62 7 0.12
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (61 bp):
TTTATTTTATCATTATGTTATTTATTTCATTTGTTTTCTTTCTTTTTTATTCTCACTTTTA
Found at i:2160705 original size:27 final size:27
Alignment explanation
Indices: 2160646--2160727 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
2160636 TTTATCATTA
* *
2160646 TTTTATTTATTTCATTTT-TTTATCTTT
1 TTTTTTTTATCTCATTTTATTTAT-TTT
**
2160673 ACTTTTTTATCTCATTTTATTTATTTT
1 TTTTTTTTATCTCATTTTATTTATTTT
*
2160700 TTTTTTTTTTCTCTATTTTATTTATTTT
1 TTTTTTTTATCTC-ATTTTATTTATTTT
2160728 CATTACCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
27 27 0.59
28 19 0.41
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTTTTATCTCATTTTATTTATTTT
Found at i:2160708 original size:42 final size:42
Alignment explanation
Indices: 2160604--2160707 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
2160594 ATTTTATTTG
* * * * *
2160604 TTTTCTTTGTTTTTTATTTTTACTTTTATTTTTTTATCATTA
1 TTTTATTTATTTTTTTTTTTTACTTTTACTTTTTTATCATCA
**
2160646 TTTTATTTATTTCATTTTTTTA-TCTTTACTTTTTTATC-TCA
1 TTTTATTTATTTTTTTTTTTTACT-TTTACTTTTTTATCATCA
2160687 TTTTATTTATTTTTTTTTTTT
1 TTTTATTTATTTTTTTTTTTT
2160708 TTCTCTATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 22 0.42
42 30 0.58
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (42 bp):
TTTTATTTATTTTTTTTTTTTACTTTTACTTTTTTATCATCA
Found at i:2164237 original size:3 final size:3
Alignment explanation
Indices: 2164218--2164273 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
2164208 TATCCCGGTT
* * * * *
2164218 TTA TTA TTT TTA GTA TTA TTA TAA TAA TTA TAA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2164265 TTA TTA TTA
1 TTA TTA TTA
2164274 AATAATTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2172085 original size:19 final size:19
Alignment explanation
Indices: 2172061--2172100 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2172051 ACACTTCTCC
2172061 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
2172080 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
2172099 CA
1 CA
2172101 CTTAAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
CATTTATCATTTTAAAACA
Found at i:2178265 original size:22 final size:21
Alignment explanation
Indices: 2178223--2178262 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2178213 GAGTTTGTTT
*
2178223 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2178244 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2178263 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2181745 original size:18 final size:19
Alignment explanation
Indices: 2181722--2181775 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
2181712 CCTAGATCCG
2181722 ACCTCA-ATTCATTGAGAA
1 ACCTCAGATTCATTGAGAA
* *
2181740 ACCTCATGGTTCATTGTGAA
1 ACCTCA-GATTCATTGAGAA
*
2181760 ACCTCATGGTTCATTG
1 ACCTCA-GATTCATTG
2181776 TAGATCTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.19
20 26 0.81
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (19 bp):
ACCTCAGATTCATTGAGAA
Found at i:2181776 original size:20 final size:20
Alignment explanation
Indices: 2181729--2181776 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2181719 CCGACCTCAA
*
2181729 TTCATTGAGAAACCTCATGG
1 TTCATTGTGAAACCTCATGG
2181749 TTCATTGTGAAACCTCATGG
1 TTCATTGTGAAACCTCATGG
2181769 TTCATTGT
1 TTCATTGT
2181777 AGATCTACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
TTCATTGTGAAACCTCATGG
Found at i:2204932 original size:18 final size:19
Alignment explanation
Indices: 2204897--2204934 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2204887 CACAGAATGT
2204897 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2204917 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
2204935 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2204947 original size:15 final size:16
Alignment explanation
Indices: 2204896--2204940 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
2204886 TCACAGAATG
2204896 TAAGATTACCAGTGGGAA
1 TAAGATTACCA--GGGAA
2204914 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
2204932 TAAGATTAC
1 TAAGATTAC
2204941 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 7 0.28
20 10 0.40
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:2208448 original size:25 final size:25
Alignment explanation
Indices: 2208419--2208468 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2208409 TCAATTTTCT
2208419 TTTGATGATCATCATTGACCTTTGA
1 TTTGATGATCATCATTGACCTTTGA
2208444 TTTGATGATCATCATTGACCTTTGA
1 TTTGATGATCATCATTGACCTTTGA
2208469 AAGTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (25 bp):
TTTGATGATCATCATTGACCTTTGA
Found at i:2215341 original size:15 final size:16
Alignment explanation
Indices: 2215321--2215353 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2215311 TGACACCAAC
*
2215321 TAAAAAATA-TAAAAA
1 TAAAAAAGATTAAAAA
2215336 TAAAAAAGATTAAAAA
1 TAAAAAAGATTAAAAA
2215352 TA
1 TA
2215354 GATAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAAAAGATTAAAAA
Found at i:2215356 original size:11 final size:11
Alignment explanation
Indices: 2215336--2215385 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
2215326 AATATAAAAA
2215336 TAAAAA-AGAT
1 TAAAAATAGAT
2215346 TAAAAATAGA-
1 TAAAAATAGAT
*
2215356 TAAAAATATAT
1 TAAAAATAGAT
2215367 TAAAGAATTAG-T
1 TAAA-AA-TAGAT
2215379 TAAAAAT
1 TAAAAAT
2215386 TACCTTGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 16 0.47
11 9 0.26
12 7 0.21
13 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (11 bp):
TAAAAATAGAT
Found at i:2215723 original size:15 final size:15
Alignment explanation
Indices: 2215700--2215732 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2215690 AATAACCTCC
2215700 TCCTCGGTAGAATCG
1 TCCTCGGTAGAATCG
*
2215715 TCCTTGGTAGAATCG
1 TCCTCGGTAGAATCG
2215730 TCC
1 TCC
2215733 GTTACTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.30
Consensus pattern (15 bp):
TCCTCGGTAGAATCG
Found at i:2220563 original size:17 final size:19
Alignment explanation
Indices: 2220541--2220576 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2220531 TGAAATCGTT
2220541 TAGG-TTTGA-AAAATATA
1 TAGGTTTTGATAAAATATA
2220558 TAGGTTTTGATAAAATATA
1 TAGGTTTTGATAAAATATA
2220577 ATTGTTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (19 bp):
TAGGTTTTGATAAAATATA
Found at i:2221496 original size:21 final size:21
Alignment explanation
Indices: 2221470--2221512 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2221460 CCCCAGATTT
2221470 TTAGCCTGATGTTGGAGGTAG
1 TTAGCCTGATGTTGGAGGTAG
2221491 TTAGCCTGATGTTGGAGGTAG
1 TTAGCCTGATGTTGGAGGTAG
2221512 T
1 T
2221513 GGGAGCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAGCCTGATGTTGGAGGTAG
Found at i:2221539 original size:2 final size:2
Alignment explanation
Indices: 2221532--2221570 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2221522 GATCTTGCAG
* * *
2221532 AT AT AT AT AT GT GT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2221571 CATACATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2221622 original size:2 final size:2
Alignment explanation
Indices: 2221615--2221658 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2221605 AATGCATGCA
2221615 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2221657 TG
1 TG
2221659 GTTATACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2222100 original size:2 final size:2
Alignment explanation
Indices: 2222093--2222118 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2222083 CCACAAAAAT
2222093 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2222119 AAGTTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2224677 original size:13 final size:13
Alignment explanation
Indices: 2224659--2224683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2224649 AGCCTCCATC
2224659 AAAACAAAATCTA
1 AAAACAAAATCTA
2224672 AAAACAAAATCT
1 AAAACAAAATCT
2224684 TTACCTTAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAACAAAATCTA
Found at i:2230403 original size:16 final size:16
Alignment explanation
Indices: 2230370--2230410 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2230360 GTTTATTTCA
2230370 GAATGA-TCAAACGCT
1 GAATGATTCAAACGCT
* *
2230385 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
2230401 GAATGATTCA
1 GAATGATTCA
2230411 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:2234832 original size:24 final size:24
Alignment explanation
Indices: 2234788--2234833 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2234778 CTGTTCAACT
*
2234788 ATGTATTTATTTATTTATTTATAC
1 ATGTATTTATTTATATATTTATAC
*
2234812 ATGTATTGTATTT-TATCTTTAT
1 ATGTATT-TATTTATATATTTAT
2234834 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (24 bp):
ATGTATTTATTTATATATTTATAC
Found at i:2236682 original size:20 final size:20
Alignment explanation
Indices: 2236657--2236731 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
2236647 GCGAAATAAA
2236657 AATCGCAATGCGATCTCCAG
1 AATCGCAATGCGATCTCCAG
*
2236677 AATCGCAAAT-CAGTTC-CCAG
1 AATCGC-AATGC-GATCTCCAG
* * **
2236697 AATCGCAACGCGATTATGAAG
1 AATCGCAATGCGA-TCTCCAG
2236718 AATCGCAATGCGAT
1 AATCGCAATGCGAT
2236732 AGTACAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 20 0.47
21 20 0.47
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAATGCGATCTCCAG
Found at i:2236822 original size:40 final size:40
Alignment explanation
Indices: 2236760--2236947 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 40
2236750 GATTTTCCAT
* * **
2236760 AATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTG-A
1 AATCGCAACGAGAATACGTAAATCGCAACGCGTA-TCTGTA
*
2236799 CTATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
1 -AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
* * *
2236840 AATCGCAACGAGAATACGTAAATCGTAATGCGTATCCGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
* * * * *
2236880 AATCGCAATGCGAACACGTAAATCGCAACGCG-AACACGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGTATC-TGTA
* *
2236920 AATCGCAATGCGAAT-CTGTAAATCGCAA
1 AATCGCAACGAGAATAC-GTAAATCGCAA
2236948 TGAGATTCTG
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 123 0.96
41 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
Found at i:2236948 original size:60 final size:60
Alignment explanation
Indices: 2236801--2236949 Score: 183
Period size: 60 Copynumber: 2.5 Consensus size: 60
2236791 GATTCTGACT
* * * * * * *
2236801 ATCGCAACGAGAATACGTAAATCGCAACGCGTATC-TGTAAATCGCAACGAGAATACGTAA
1 ATCGCAATGCGAATCCGTAAATCGCAATGCG-AACACGTAAATCGCAACGAGAACACGTAA
* * *
2236861 ATCGTAATGCGTATCCGTAAATCGCAATGCGAACACGTAAATCGCAACGCGAACACGTAA
1 ATCGCAATGCGAATCCGTAAATCGCAATGCGAACACGTAAATCGCAACGAGAACACGTAA
*
2236921 ATCGCAATGCGAATCTGTAAATCGCAATG
1 ATCGCAATGCGAATCCGTAAATCGCAATG
2236950 AGATTCTGTC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
59 2 0.03
60 73 0.97
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (60 bp):
ATCGCAATGCGAATCCGTAAATCGCAATGCGAACACGTAAATCGCAACGAGAACACGTAA
Found at i:2236949 original size:20 final size:20
Alignment explanation
Indices: 2236760--2236947 Score: 154
Period size: 20 Copynumber: 9.4 Consensus size: 20
2236750 GATTTTCCAT
*
2236760 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-TGTA
*
2236780 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCTGTA
* *
2236799 CTATCGCAACGAGAATAC-GTA
1 -AATCGCAACGCGAAT-CTGTA
*
2236820 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCTGTA
*
2236840 AATCGCAACGAGAATAC-GTA
1 AATCGCAACGCGAAT-CTGTA
* * * *
2236860 AATCGTAATGCGTATCCGTA
1 AATCGCAACGCGAATCTGTA
* *
2236880 AATCGCAATGCGAA-CACGTA
1 AATCGCAACGCGAATC-TGTA
*
2236900 AATCGCAACGCGAA-CACGTA
1 AATCGCAACGCGAATC-TGTA
*
2236920 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCTGTA
2236940 AATCGCAA
1 AATCGCAA
2236948 TGAGATTCTG
Statistics
Matches: 140, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
19 4 0.03
20 131 0.94
21 5 0.04
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCTGTA
Found at i:2236957 original size:20 final size:20
Alignment explanation
Indices: 2236801--2236968 Score: 110
Period size: 20 Copynumber: 8.4 Consensus size: 20
2236791 GATTCTGACT
*
2236801 ATCGCAACGAGAATAC-GTAA
1 ATCGCAATGAGAAT-CTGTAA
* * *
2236821 ATCGCAACGCGTATCTGTAA
1 ATCGCAATGAGAATCTGTAA
*
2236841 ATCGCAACGAGAATAC-GTAA
1 ATCGCAATGAGAAT-CTGTAA
* * * *
2236861 ATCGTAATGCGTATCCGTAA
1 ATCGCAATGAGAATCTGTAA
* *
2236881 ATCGCAATGCGAA-CACGTAA
1 ATCGCAATGAGAATC-TGTAA
* * *
2236901 ATCGCAACGCGAA-CACGTAA
1 ATCGCAATGAGAATC-TGTAA
*
2236921 ATCGCAATGCGAATCTGTAA
1 ATCGCAATGAGAATCTGTAA
* **
2236941 ATCGCAATGAGATTCTGTCT
1 ATCGCAATGAGAATCTGTAA
2236961 ATCGCAAT
1 ATCGCAAT
2236969 ACTGAATTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.02
20 121 0.96
21 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGAGAATCTGTAA
Found at i:2237014 original size:19 final size:17
Alignment explanation
Indices: 2236980--2237028 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2236970 CTGAATTTCA
*
2236980 AATTCGCAACTCGTTTCT
1 AATTCGCAACACGTTT-T
*
2236998 GAATTCGCAACAGGTTTT
1 -AATTCGCAACACGTTTT
2237016 AATTTCGCAACAC
1 AA-TTCGCAACAC
2237029 AAATGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.08
18 10 0.38
19 14 0.54
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (17 bp):
AATTCGCAACACGTTTT
Found at i:2237826 original size:24 final size:24
Alignment explanation
Indices: 2237799--2237852 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2237789 GTATTCAAAA
2237799 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
2237823 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
2237847 TTTGAT
1 TTTGAT
2237853 AATTTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:2240404 original size:19 final size:19
Alignment explanation
Indices: 2240380--2240518 Score: 118
Period size: 19 Copynumber: 7.8 Consensus size: 19
2240370 GCAACGAGAG
2240380 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2240399 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
** *
2240413 AATCGCAACACGGAAATGAC
1 AATCGCAATGC-GAAATGAA
* *
2240433 TATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2240452 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
2240471 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
2240485 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2240504 AATCGAAACGCGAAA
1 AATCGCAATGCGAAA
2240519 CTAAATTCGC
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
14 22 0.23
15 1 0.01
16 2 0.02
17 4 0.04
18 1 0.01
19 55 0.58
20 10 0.11
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2240406 original size:33 final size:33
Alignment explanation
Indices: 2240367--2240518 Score: 142
Period size: 33 Copynumber: 4.4 Consensus size: 33
2240357 CTTAATGTCT
*
2240367 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
* ** **
2240400 ATCGCAACGTGAAAATCGCAACACGGAAATGACT
1 ATCGCAACGAGAAAATCGCAATGC-GAAATGAAA
* *
2240434 ATCGCAATGTGAAATGAAAATCGCAATGCGAAATAAAA
1 ATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAA
* *
2240472 ATCGCAATGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
* *
2240505 ATCGAAACGCGAAA
1 ATCGCAACGAGAAA
2240519 CTAAATTCGC
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
33 51 0.54
34 15 0.16
36 3 0.03
38 13 0.14
39 12 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:2240414 original size:14 final size:14
Alignment explanation
Indices: 2240395--2240421 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2240385 CAATGCGAAA
2240395 TGAAAATCGCAACG
1 TGAAAATCGCAACG
2240409 TGAAAATCGCAAC
1 TGAAAATCGCAAC
2240422 ACGGAAATGA
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:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:2240546 original size:19 final size:19
Alignment explanation
Indices: 2240524--2240621 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
2240514 CGAAACTAAA
2240524 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
2240543 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* * *
2240558 -CCTCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2240576 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2240591 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2240609 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
2240622 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
16 6 0.10
17 6 0.10
19 29 0.50
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2240572 original size:33 final size:33
Alignment explanation
Indices: 2240528--2240621 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
2240518 ACTAAATTCG
*
2240528 CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
2240561 CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
2240594 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2240622 AGTCATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:2240629 original size:19 final size:17
Alignment explanation
Indices: 2240571--2240621 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2240561 CGTTGCAATT
2240571 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
2240588 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
2240602 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
2240621 T
1 T
2240622 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.22
16 7 0.26
17 8 0.30
19 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:2240747 original size:14 final size:14
Alignment explanation
Indices: 2240728--2240764 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2240718 CATCAATTAA
2240728 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2240742 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2240756 ACAAATCAA
1 ACAAATCAA
2240765 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2244170 original size:20 final size:19
Alignment explanation
Indices: 2244145--2244240 Score: 80
Period size: 20 Copynumber: 5.2 Consensus size: 19
2244135 TTTTGGTTGA
2244145 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACG-GAG
2244165 AATGAAAATCGCAACTCGGA-
1 AATGAAAATCGCAA--CGGAG
**
2244185 AATGACTATCGCAAC-GAG
1 AATGAAAATCGCAACGGAG
2244203 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACG-GAG
2244218 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACG-GAG
2244238 AAT
1 AAT
2244241 CGCAATGCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 8 0.13
16 4 0.06
17 4 0.06
18 1 0.02
19 12 0.19
20 29 0.47
21 2 0.03
22 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
AATGAAAATCGCAACGGAG
Found at i:2244211 original size:14 final size:14
Alignment explanation
Indices: 2244192--2244245 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
2244182 GGAAATGACT
2244192 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2244206 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2244225 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2244239 ATCGCAA
1 ATCGCAA
2244246 TGCGATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2244229 original size:33 final size:33
Alignment explanation
Indices: 2244143--2244250 Score: 117
Period size: 33 Copynumber: 3.1 Consensus size: 33
2244133 TCTTTTGGTT
*
2244143 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACTC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
2244182 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2244216 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2244249 GA
1 GA
2244251 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
33 32 0.52
34 10 0.16
36 1 0.02
37 1 0.02
38 3 0.05
40 15 0.24
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2244278 original size:14 final size:14
Alignment explanation
Indices: 2244259--2244285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2244249 GATTTTGGTT
2244259 TCTCGTTGCGATTC
1 TCTCGTTGCGATTC
2244273 TCTCGTTGCGATT
1 TCTCGTTGCGATT
2244286 TTCATTTCTC
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:0.07, C:0.26, G:0.22, T:0.44
Consensus pattern (14 bp):
TCTCGTTGCGATTC
Found at i:2244296 original size:21 final size:21
Alignment explanation
Indices: 2244270--2244333 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
2244260 CTCGTTGCGA
2244270 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
2244291 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
2244312 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
2244332 TT
1 TT
2244334 TCAATATTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2244323 original size:20 final size:20
Alignment explanation
Indices: 2244298--2244335 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2244288 CATTTCTCTC
2244298 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
2244318 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
2244336 AATATTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:2244822 original size:20 final size:20
Alignment explanation
Indices: 2244797--2244969 Score: 204
Period size: 20 Copynumber: 8.6 Consensus size: 20
2244787 CTTTAAAAAT
2244797 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2244817 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2244837 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
2244858 CGCATTGCGATTTATGTATT
1 CGCGTTGCGATTTACGGATA
* *
2244878 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
2244898 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
2244918 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
2244938 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
2244959 CTCGTTGCGAT
1 CGCGTTGCGAT
2244970 AGTCAGAATC
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
20 90 0.71
21 36 0.29
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2244888 original size:40 final size:41
Alignment explanation
Indices: 2244799--2244969 Score: 274
Period size: 40 Copynumber: 4.2 Consensus size: 41
2244789 TTAAAAATCG
*
2244799 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2244840 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
2244880 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2244920 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
2244961 CGTTGCGAT
1 CGTTGCGAT
2244970 AGTCAGAATC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 74 0.62
41 46 0.38
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:2245001 original size:20 final size:20
Alignment explanation
Indices: 2244978--2245030 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2244968 ATAGTCAGAA
*
2244978 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
2244998 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
2245018 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2245031 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:2245022 original size:40 final size:40
Alignment explanation
Indices: 2244796--2245030 Score: 208
Period size: 40 Copynumber: 5.8 Consensus size: 40
2244786 GCTTTAAAAA
* *
2244796 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* * * * *
2244835 ATTGTCGTTGCGATTTACGGATACGCATTGCGATTTATGTAT
1 -TCG-CGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* ** *
2244877 TCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* * *
2244917 TCTCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGGAT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATA-TG-T
* * *
2244958 ACTCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGT
1 TCGCGTTGCGAT-TTACAGATA-CGCGTTGCGATTTATATGT
* * *
2244998 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATT
2245031 ATGGAAAATC
Statistics
Matches: 162, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 96 0.59
41 60 0.37
42 5 0.03
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
Found at i:2245023 original size:121 final size:121
Alignment explanation
Indices: 2244799--2245030 Score: 324
Period size: 121 Copynumber: 1.9 Consensus size: 121
2244789 TTAAAAATCG
* ** * *
2244799 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCATT
* *
2244864 GCGATTTATGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
66 GCGATTTATATATTCGCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
*
2244920 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAT--TCACGAATACGCA
* * * *
2244983 TTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
64 TTGCGATTTATATATTCGCGTTGCGATTTACAGATACGCGTTGCGATT
2245031 ATGGAAAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
121 92 0.95
122 3 0.03
123 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (121 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCATT
GCGATTTATATATTCGCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
Found at i:2245133 original size:20 final size:19
Alignment explanation
Indices: 2245080--2245133 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
2245070 ATTCTTCATA
2245080 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* ** *
2245099 AACTGATTTGTGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
2245120 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2245134 TTTATTTCGC
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:2249235 original size:17 final size:17
Alignment explanation
Indices: 2249208--2249241 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2249198 AATGACTAAA
2249208 TGCATATGTGA-AAAAT
1 TGCATATGTGAGAAAAT
2249224 TGCATGATGTGAGAAAAT
1 TGCAT-ATGTGAGAAAAT
2249242 AACATTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
TGCATATGTGAGAAAAT
Found at i:2253580 original size:14 final size:15
Alignment explanation
Indices: 2253561--2253603 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
2253551 TTAGTAACAA
2253561 ATAAAT-AAAATATC
1 ATAAATCAAAATATC
2253575 ATAAATGCATAAATATC
1 ATAAAT-CA-AAATATC
2253592 A-AAATCAAAATA
1 ATAAATCAAAATA
2253604 AATAGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 5 0.19
17 8 0.31
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAATCAAAATATC
Found at i:2257401 original size:201 final size:201
Alignment explanation
Indices: 2257128--2257611 Score: 641
Period size: 201 Copynumber: 2.4 Consensus size: 201
2257118 GTGCGATCAA
* * * *
2257128 TGTGCTCTCGAGTTGAGTGGGATC-AAACTTGAAAGCTTTAGTTGACAGATAGCTCTTCTCGACT
1 TGTGCTCTCGAGTTGAGT-GGAACGAAACTTGAAAGCTTTACTCGATAGATAGCTCTTCTCGACT
* *
2257192 TAAGCTATGTCGAAGTCTGGGCTGGAAAGTAGTTCCTTGTTGTTAAATTGCAACCGATTTGGGTA
65 TAAGCTATGTCGAAATCTGAGCTGGAAAGTAGTTCCTTGTTGTTAAATTGCAACCGATTTGGGTA
* * * ** *
2257257 TTCTTCTAGACTTGAAGACCTTGGTTTGAATTTTGA-CTGAAAGGTAATTCCTTGTTGTTACCAT
130 TTCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATC-GAAAGGTAATTCCTCATTGCTACCAT
*
2257321 ACGATAAT
194 ACGATAAG
* * * *
2257329 TGTGCTCTTGAGTTGAGTGGAACGAAACTTGAAAGCTTTACCCGATAGATAGTTCTTCTCGATTT
1 TGTGCTCTCGAGTTGAGTGGAACGAAACTTGAAAGCTTTACTCGATAGATAGCTCTTCTCGACTT
* * * * * ** *
2257394 AAGCTATGTCAAAATCTGAGTTGGGAAGTAGTTCGTTGTTGTTAAATTTCAGTCGATTTGGGTCT
66 AAGCTATGTCGAAATCTGAGCTGGAAAGTAGTTCCTTGTTGTTAAATTGCAACCGATTTGGGTAT
* * * *
2257459 TCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGGAAGGTAGTTCCTCATTGCTACTATGC
131 TCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGAAAGGTAATTCCTCATTGCTACCATAC
*
2257524 GATCAG
196 GATAAG
*
2257530 TGTGCTCTCGAGTTGAGTGGAATCG-AACTTGAAAGCTTTACTCGATAGATAACTCTTCTCGACT
1 TGTGCTCTCGAGTTGAGTGGAA-CGAAACTTGAAAGCTTTACTCGATAGATAGCTCTTCTCGACT
2257594 TAAGCTATGTCGAAATCT
65 TAAGCTATGTCGAAATCT
2257612 AGACTGAGCG
Statistics
Matches: 244, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
200 4 0.02
201 237 0.97
202 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (201 bp):
TGTGCTCTCGAGTTGAGTGGAACGAAACTTGAAAGCTTTACTCGATAGATAGCTCTTCTCGACTT
AAGCTATGTCGAAATCTGAGCTGGAAAGTAGTTCCTTGTTGTTAAATTGCAACCGATTTGGGTAT
TCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGAAAGGTAATTCCTCATTGCTACCATAC
GATAAG
Found at i:2257772 original size:184 final size:183
Alignment explanation
Indices: 2257446--2257786 Score: 506
Period size: 184 Copynumber: 1.9 Consensus size: 183
2257436 TAAATTTCAG
*
2257446 TCGATTTGGGTCTTCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGGAAGGTAGTTCCTC
1 TCGATTTGGGTATTCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGGAAGGTAGTTCCTC
* * * * * *
2257511 ATTGCTACTATGCGATCAGTGTGCTCTCGAGTTGAGTGGAATCGAACTTGAAAGCTTTACTCGAT
66 ATTGCTAATATGCGATCAATATGCTCTCAAGTTAAGTGGAATCGAACTTGAAAGCTTTACTCGAC
*
2257576 AGATAACTCTTCTCGACTTAAGCTATGTCGAAATCTAGACTGAGCGATCGCAA
131 AAATAACTCTTCTCGACTTAAGCTATGTCGAAATCTAGACTGAGCGATCGCAA
*
2257629 TCGATTTTGGTATTCTTCTAA-ACTTGAAGACCTTAGTTTGAATTTTAA-CTGGAAGGGTAGTTC
1 TCGATTTGGGTATTCTTC-AAGACTTGAAGACCTTAGTTTGAATTTTAATC-GGAA-GGTAGTTC
* * ** *
2257692 CTCGTTGCTAATATGCGGTCAATATGCTCTCAAGTTAAGTGGAATCGAACTTGAAAGCTTTGGTT
63 CTCATTGCTAATATGCGATCAATATGCTCTCAAGTTAAGTGGAATCGAACTTGAAAGCTTTACTC
*
2257757 GACAAATAGCTCTTCTCGACTTAAGCTATG
128 GACAAATAACTCTTCTCGACTTAAGCTATG
2257787 ATGTAAATGA
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
182 1 0.01
183 47 0.34
184 92 0.66
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (183 bp):
TCGATTTGGGTATTCTTCAAGACTTGAAGACCTTAGTTTGAATTTTAATCGGAAGGTAGTTCCTC
ATTGCTAATATGCGATCAATATGCTCTCAAGTTAAGTGGAATCGAACTTGAAAGCTTTACTCGAC
AAATAACTCTTCTCGACTTAAGCTATGTCGAAATCTAGACTGAGCGATCGCAA
Found at i:2259080 original size:22 final size:22
Alignment explanation
Indices: 2259052--2259094 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2259042 TGGTTTGGTT
*
2259052 TTATTAGGGTTTCATCGTTTTA
1 TTATTAGGATTTCATCGTTTTA
*
2259074 TTATTAGGATTTCATGGTTTT
1 TTATTAGGATTTCATCGTTTT
2259095 TGAATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (22 bp):
TTATTAGGATTTCATCGTTTTA
Found at i:2262911 original size:23 final size:23
Alignment explanation
Indices: 2262885--2262986 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
2262875 CACCGAAGAG
2262885 CCACGTAGAAATGTCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
* * *
2262908 CCACATAGATATGTCCCGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
*
2262931 CCGCGTAGAAATGT-CTCGAAGGA
1 CCACGTAGAAATGTCCT-GAAGGA
* * * *
2262954 CCATGGAGAATTTTCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
**
2262977 CTGCGTAGAA
1 CCACGTAGAA
2262987 CCCTCGACTC
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
22 1 0.02
23 58 0.95
24 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (23 bp):
CCACGTAGAAATGTCCTGAAGGA
Found at i:2263085 original size:16 final size:16
Alignment explanation
Indices: 2263064--2263113 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 16
2263054 TATACCATTT
2263064 CACATAGATCATGTAA
1 CACATAGATCATGTAA
*
2263080 CACATAGGATGAAATGTAA
1 CACATA-GAT--CATGTAA
2263099 CACATAGATCATGTA
1 CACATAGATCATGTA
2263114 GAACAGTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 3 0.10
19 12 0.41
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (16 bp):
CACATAGATCATGTAA
Found at i:2268007 original size:12 final size:12
Alignment explanation
Indices: 2267990--2268015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2267980 AGACTGGTTC
2267990 CTTCCTCTACCT
1 CTTCCTCTACCT
2268002 CTTCCTCTACCT
1 CTTCCTCTACCT
2268014 CT
1 CT
2268016 CTGGGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (12 bp):
CTTCCTCTACCT
Found at i:2269947 original size:23 final size:23
Alignment explanation
Indices: 2269921--2269968 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2269911 CACCAAAGTG
2269921 CCACATAGAAATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
** *
2269944 CCACATAGATGTTTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
2269967 CC
1 CC
2269969 GCGTAGAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGGA
Found at i:2270087 original size:16 final size:15
Alignment explanation
Indices: 2270053--2270106 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
2270043 TTATACCATT
*
2270053 TCACATAG-CTTATA
1 TCACATAGACATATA
2270067 TCACATAGACATATGA
1 TCACATAGACATAT-A
*
2270083 TCACATAGATCATGTA
1 TCACATAGA-CATATA
*
2270099 ACACATAG
1 TCACATAG
2270107 GATGAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 18 0.53
17 4 0.12
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (15 bp):
TCACATAGACATATA
Found at i:2272468 original size:2 final size:2
Alignment explanation
Indices: 2272446--2272544 Score: 64
Period size: 2 Copynumber: 49.0 Consensus size: 2
2272436 TTTTATTACA
*
2272446 AT AT TT AT AT -T AT AT AGT AT AT AT GAT AT GAT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT -AT AT -AT AT AT AT AT AT
* * * *
2272487 CAA AT AT A- AT AT AT AT AGT TT TT GA- AA AT A- AT AT AT AT AT
1 -AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT
2272527 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2272545 TTTTTTTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
1 5 0.06
2 66 0.84
3 8 0.10
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2272551 original size:42 final size:41
Alignment explanation
Indices: 2272479--2272567 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
2272469 TGATATGATA
2272479 ATATATATCAAATATAATATATATAGTTTTTGAAAATA-ATAT
1 ATATATATCAAATATAATATATATAGTTTTT-AAAA-ACATAT
* **
2272521 ATATATAT-ATATATATATATATATTTTTTTTAAAAACATAT
1 ATATATATCAAATATA-ATATATATAGTTTTTAAAAACATAT
2272562 -TATATA
1 ATATATA
2272568 ATTTTTGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 7 0.17
41 14 0.33
42 21 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (41 bp):
ATATATATCAAATATAATATATATAGTTTTTAAAAACATAT
Found at i:2272572 original size:22 final size:22
Alignment explanation
Indices: 2272547--2272589 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2272537 ATATATATTT
*
2272547 TTTTTAAAAACATATTATATAA
1 TTTTTAAAAACATAATATATAA
* *
2272569 TTTTTGAAAATATAATATATA
1 TTTTTAAAAACATAATATATA
2272590 TATATATAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTTAAAAACATAATATATAA
Found at i:2278519 original size:16 final size:16
Alignment explanation
Indices: 2278498--2278529 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2278488 ACTATTCACA
*
2278498 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
2278514 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
2278530 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:2279298 original size:15 final size:16
Alignment explanation
Indices: 2279280--2279312 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2279270 GTGGCAGATC
2279280 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
2279295 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
2279311 AA
1 AA
2279313 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:2282170 original size:20 final size:20
Alignment explanation
Indices: 2282147--2282189 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2282137 AATCCACCAC
*
2282147 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2282167 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2282187 ATG
1 ATG
2282190 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2284813 original size:13 final size:13
Alignment explanation
Indices: 2284797--2284836 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2284787 AGGAAACTAG
2284797 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
2284810 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
2284823 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
2284837 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Done.