Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_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: 2380696
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1904078 original size:21 final size:21
Alignment explanation
Indices: 1903991--1904082 Score: 76
Period size: 21 Copynumber: 4.4 Consensus size: 21
1903981 CTTGTCATCT
* * *
1903991 TTCAAGAGGCCCCTCCTATCG
1 TTCAAGAGGCCCCTCCCACCA
* ** *
1904012 TTCAAAAGGCCCCTTTCATCA
1 TTCAAGAGGCCCCTCCCACCA
* * *
1904033 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCCCACCA
* *
1904054 TTCAAGAGGCTCTTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
1904075 TTCAAGAG
1 TTCAAGAG
1904083 CCTGATTCAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:1906991 original size:24 final size:24
Alignment explanation
Indices: 1906964--1907017 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1906954 CTGAAACATC
*
1906964 ATCAAAATCCGAGTATTGACCTAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1906988 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1907012 ATCAAA
1 ATCAAA
1907018 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1907778 original size:16 final size:15
Alignment explanation
Indices: 1907756--1907794 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1907746 GAAATCATTG
1907756 AAAAATTATATATAAA
1 AAAAATTATATA-AAA
* *
1907772 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
1907787 AAAAATTA
1 AAAAATTA
1907795 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:1907790 original size:14 final size:15
Alignment explanation
Indices: 1907756--1907794 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1907746 GAAATCATTG
1907756 AAAAATTATATATAA
1 AAAAATTATATATAA
* *
1907771 ATAAAATTATGTAAAA
1 A-AAAATTATATATAA
1907787 AAAAATTA
1 AAAAATTA
1907795 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAAATTATATATAA
Found at i:1907976 original size:20 final size:20
Alignment explanation
Indices: 1907933--1908040 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
1907923 AAAACATTTG
* *
1907933 TGTTGCGAAAATAAAAGT--
1 TGTTGCGAAATTAAAATTCA
1907951 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAATTCA
1907971 TGTTGC-AAATTCGAAAA-TCGA
1 TGTTGCGAAATT--AAAATTC-A
** *
1907992 -GTTGCGAAAACAAAATTCG
1 TGTTGCGAAATTAAAATTCA
* * *
1908011 TGTTGCG-ATTTAGAAAATCT
1 TGTTGCGAAATTA-AAATTCA
1908031 TGTTGCGAAA
1 TGTTGCGAAA
1908041 AGGAAAATTG
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 16 0.23
19 11 0.16
20 33 0.48
21 9 0.13
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTTGCGAAATTAAAATTCA
Found at i:1907998 original size:40 final size:40
Alignment explanation
Indices: 1907952--1908041 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
1907942 AATAAAAGTT
** *
1907952 GTTGCGAAATTAAAATTCATGTTGCAAATTCGAAAATCGA
1 GTTGCGAAAACAAAATTCATGTTGCAAATTAGAAAATCGA
* * * **
1907992 GTTGCGAAAACAAAATTCGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAAACAAAATTCATGTTGCAAATTAGAAAATCGA
1908032 GTTGCGAAAA
1 GTTGCGAAAA
1908042 GGAAAATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCATGTTGCAAATTAGAAAATCGA
Found at i:1913998 original size:23 final size:25
Alignment explanation
Indices: 1913967--1914029 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
1913957 TATAAAAATT
* *
1913967 TAAAGATATAAATAAATT-ATTA-A
1 TAAAAATATAAAAAAATTAATTATA
1913990 TAAAAATATAAAAAAATTAAATTATA
1 TAAAAATATAAAAAAATT-AATTATA
*
1914016 TAAAAATTTAAAAA
1 TAAAAATATAAAAA
1914030 TTTTAGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.47
25 4 0.12
26 14 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
TAAAAATATAAAAAAATTAATTATA
Found at i:1916684 original size:340 final size:340
Alignment explanation
Indices: 1916064--1916745 Score: 1355
Period size: 340 Copynumber: 2.0 Consensus size: 340
1916054 ATTTTCAGTT
1916064 TCTTATTATTATCATTTTATTAAATTTAAAAAGAATAATTTAATCGCACACATTTTTAAGGGTTA
1 TCTTATTATTATCATTTTATTAAATTTAAAAAGAATAATTTAATCGCACACATTTTTAAGGGTTA
1916129 AATTTAATAATAATTTTATTAAAAAAATATAATATACATGAAAATTTTTATGACATAATGAAATT
66 AATTTAATAATAATTTTATTAAAAAAATATAATATACATGAAAATTTTTATGACATAATGAAATT
1916194 ATTTTTAATTATGAAACCAAAATGTAAAAATGTGGTCGTCCAATTGGGAGCGGGACAAGGAGCCA
131 ATTTTTAATTATGAAACCAAAATGTAAAAATGTGGTCGTCCAATTGGGAGCGGGACAAGGAGCCA
1916259 TGTTGGACTTAAGATGCAACAGCCTGTTATCCTTCCACCGTTAAGAGAGGGAAGTAGTCGCTGCT
196 TGTTGGACTTAAGATGCAACAGCCTGTTATCCTTCCACCGTTAAGAGAGGGAAGTAGTCGCTGCT
*
1916324 CTGTGAAACCAGCCTCACGCTGTGCCTTCCGCTCTAAGACTCGAGAGATCCATGCCTTCGCACTA
261 CTGTGAAACCAGCCTCACGCTGTGCCTTCCGCTATAAGACTCGAGAGATCCATGCCTTCGCACTA
1916389 ATCACTTGAACCAAC
326 ATCACTTGAACCAAC
1916404 TCTTATTATTATCATTTTATTAAATTTAAAAAGAATAATTTAATCGCACACATTTTTAAGGGTTA
1 TCTTATTATTATCATTTTATTAAATTTAAAAAGAATAATTTAATCGCACACATTTTTAAGGGTTA
1916469 AATTTAATAATAATTTTATTAAAAAAATATAATATACATGAAAATTTTTATGACATAATGAAATT
66 AATTTAATAATAATTTTATTAAAAAAATATAATATACATGAAAATTTTTATGACATAATGAAATT
1916534 ATTTTTAATTATGAAACCAAAATGTAAAAATGTGGTCGTCCAATTGGGAGCGGGACAAGGAGCCA
131 ATTTTTAATTATGAAACCAAAATGTAAAAATGTGGTCGTCCAATTGGGAGCGGGACAAGGAGCCA
1916599 TGTTGGACTTAAGATGCAACAGCCTGTTATCCTTCCACCGTTAAGAGAGGGAAGTAGTCGCTGCT
196 TGTTGGACTTAAGATGCAACAGCCTGTTATCCTTCCACCGTTAAGAGAGGGAAGTAGTCGCTGCT
1916664 CTGTGAAACCAGCCTCACGCTGTGCCTTCCGCTATAAGACTCGAGAGATCCATGCCTTCGCACTA
261 CTGTGAAACCAGCCTCACGCTGTGCCTTCCGCTATAAGACTCGAGAGATCCATGCCTTCGCACTA
1916729 ATCACTTGAACCAAC
326 ATCACTTGAACCAAC
1916744 TC
1 TC
1916746 CTAGCTTGGA
Statistics
Matches: 341, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 341 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (340 bp):
TCTTATTATTATCATTTTATTAAATTTAAAAAGAATAATTTAATCGCACACATTTTTAAGGGTTA
AATTTAATAATAATTTTATTAAAAAAATATAATATACATGAAAATTTTTATGACATAATGAAATT
ATTTTTAATTATGAAACCAAAATGTAAAAATGTGGTCGTCCAATTGGGAGCGGGACAAGGAGCCA
TGTTGGACTTAAGATGCAACAGCCTGTTATCCTTCCACCGTTAAGAGAGGGAAGTAGTCGCTGCT
CTGTGAAACCAGCCTCACGCTGTGCCTTCCGCTATAAGACTCGAGAGATCCATGCCTTCGCACTA
ATCACTTGAACCAAC
Found at i:1923038 original size:18 final size:17
Alignment explanation
Indices: 1923017--1923058 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1923007 ATATATACAT
*
1923017 ATAATAATAATAACATGA
1 ATAATAATAA-AAAATGA
1923035 ATAATAA-AAAAAATGA
1 ATAATAATAAAAAATGA
1923051 ATAA-AATA
1 ATAATAATA
1923059 TCCATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 2 0.09
18 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
ATAATAATAAAAAATGA
Found at i:1924354 original size:105 final size:105
Alignment explanation
Indices: 1924056--1925021 Score: 1424
Period size: 105 Copynumber: 9.3 Consensus size: 105
1924046 CATTGTTCCA
* * ** *
1924056 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * * *
1924120 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** *
1924162 AGTCCCATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1924222 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1924262 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1924327 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1924367 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1924427 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1924467 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1924532 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1924572 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1924632 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1924672 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1924737 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1924777 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1924842 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1924882 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT-GTTGACAAG
* * * * *
1924947 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1924988 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1925022 CGCGGATGGC
Statistics
Matches: 790, Mismatches: 50, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
100 261 0.33
101 12 0.02
102 9 0.01
103 2 0.00
104 15 0.02
105 384 0.49
106 82 0.10
107 3 0.00
109 22 0.03
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1924409 original size:205 final size:205
Alignment explanation
Indices: 1924056--1924977 Score: 1513
Period size: 205 Copynumber: 4.5 Consensus size: 205
1924046 CATTGTTCCA
* * ** *
1924056 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * ** * * *
1924120 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCCATATCCTTCGTTGTGAA
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAA
**
1924185 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
129 GTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1924250 TGCGTTGTCTGG
194 TGCGTTGTCTGG
* * *
1924262 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1924327 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
1924392 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1924457 CGTTGTCTGG
196 CGTTGTCTGG
* *
1924467 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1924532 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
1924597 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1924662 CGTTGTCTGG
196 CGTTGTCTGG
* *
1924672 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
1924737 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
* *
1924802 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
1924867 ACTTGCGTTGTCTGG
191 ACTTGCGTTGTCTGG
* *
1924882 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT-GTTGACAAC
* *
1924947 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1924978 TGTTATCTCG
Statistics
Matches: 680, Mismatches: 29, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
205 487 0.72
206 46 0.07
207 2 0.00
209 5 0.01
210 103 0.15
211 37 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:1924608 original size:310 final size:309
Alignment explanation
Indices: 1924056--1924977 Score: 1405
Period size: 310 Copynumber: 3.0 Consensus size: 309
1924046 CATTGTTCCA
* * * *
1924056 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGT-GTGAAGTTGAAATTGGCTCT-GAA-C-TGAAAGT-TTTGTTGACAAG
* * * * *
1924121 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCCATATCCTTCGTTGTGAAG
61 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
**
1924186 TTGAAATTGAATCTGA-A-T-GAAA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
126 TTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
*
1924246 AACTTGCGTTGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAA
191 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GGATT-GGAA
1924311 GTTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
254 GTTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
1924367 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-TTTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAACTGAAAGTTTTGTTGACAAGCAGC
1924430 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
1924495 AATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 AATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * *
1924560 TGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAT-GAAATT-TT
195 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAGTTGTT
* *
1924622 GTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
260 GTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
*
1924672 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGA-ACT-GAAAGTT-TTGTTGACAAGC
*
1924737 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
62 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1924802 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
127 TGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1924867 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
192 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTG-GAAG
* * *
1924932 TTGTTGGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
255 TTGTT-GTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1924978 TGTTATCTCG
Statistics
Matches: 565, Mismatches: 29, Indels: 29
0.91 0.05 0.05
Matches are distributed among these distances:
305 174 0.31
306 8 0.01
307 6 0.01
308 11 0.02
309 4 0.01
310 280 0.50
311 35 0.06
312 3 0.01
314 5 0.01
315 2 0.00
316 37 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (309 bp):
AGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTTTTGTTGACAAGCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
ATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTGGAAGTTGTTG
TTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:1925716 original size:68 final size:65
Alignment explanation
Indices: 1925625--1925782 Score: 208
Period size: 68 Copynumber: 2.4 Consensus size: 65
1925615 AAGATATCTG
* * ** *
1925625 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAG-G
1925690 TT
64 TT
* * *
1925692 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGGT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGT
1925757 T
65 T
*
1925758 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
1925783 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 32 0.40
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGGTT
Found at i:1925798 original size:65 final size:67
Alignment explanation
Indices: 1925626--1925808 Score: 201
Period size: 65 Copynumber: 2.7 Consensus size: 67
1925616 AGATATCTGT
* * * * ** *
1925626 TGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGAGT
1925691 TTG
65 TTG
* * *
1925694 TGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
1925758 T-
66 TG
* * * *
1925759 TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTTAAGGGAAA
1925809 CTGTCTCAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
65 38 0.38
66 7 0.07
67 22 0.22
68 32 0.32
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTT
TG
Found at i:1925809 original size:36 final size:36
Alignment explanation
Indices: 1925758--1925880 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
1925748 TTCAAAGGTT
* *
1925758 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAA
1925794 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAA
* * * * *
1925829 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGGAAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAA
1925867 TTGTTTCAA-AGAAA
1 TTGTTTCAAGAGAAA
1925881 ACATATTCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
35 9 0.12
36 37 0.49
37 28 0.37
38 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAA
Found at i:1925854 original size:37 final size:36
Alignment explanation
Indices: 1925769--1925880 Score: 129
Period size: 37 Copynumber: 3.1 Consensus size: 36
1925759 TGTTTCAAGG
* * *
1925769 GAAACTGTCTCAAGATAGACGAAAATTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACGAAAATTGTTCCAAAA
1925805 GAAACTGTCTCAAGAGAGAC-AAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACGAAAA-TT-GTTCCAAAA
* * * *
1925842 GAAACTGTCTCAAGGGAGACGGAATTTGTTTC-AAA
1 GAAACTGTCTCAAGAGAGACGAAAATTGTTCCAAAA
1925877 GAAA
1 GAAA
1925881 ACATATTCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
35 11 0.17
36 25 0.38
37 28 0.42
38 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACGAAAATTGTTCCAAAA
Found at i:1926905 original size:29 final size:29
Alignment explanation
Indices: 1926863--1926925 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
1926853 TGGCATTTTG
1926863 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1926892 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1926921 ATGCT
1 ATGCT
1926926 TCTCTACTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
ATGCTCAAAGGATTGATGGGGTAGCTTGC
Found at i:1927495 original size:20 final size:21
Alignment explanation
Indices: 1927469--1927530 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1927459 CTTTTTGTTC
*
1927469 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
1927490 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
1927510 CCTTTTTTCCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
1927531 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:1931196 original size:15 final size:15
Alignment explanation
Indices: 1931176--1931214 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1931166 ATATACATAT
*
1931176 AATAATAATAACATG
1 AATAATAATAAAATG
*
1931191 AATAATAAAAAAATG
1 AATAATAATAAAATG
1931206 AATAA-AATA
1 AATAATAATA
1931215 TCCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:1931205 original size:61 final size:60
Alignment explanation
Indices: 1931099--1931213 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
1931089 TATTAAAGAA
* *
1931099 ATATATATATAATAATAATAATAAAATATAGTAAAAAAATCAAATGAAAAAAATTTAATAT
1 ATATATATATAATAATAATAATAAAACATAATAAAAAAA-CAAATGAAAAAAATTTAATAT
* *
1931160 ATATATATATACAT-ATAATAATAATAACATGAATAATAAAA-AAATGAATAAAAT
1 ATATATATATA-ATAATAATAATAA-AACAT-AATAAAAAAACAAATGAAAAAAAT
1931214 ATCCATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
61 33 0.70
62 6 0.13
63 8 0.17
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (60 bp):
ATATATATATAATAATAATAATAAAACATAATAAAAAAACAAATGAAAAAAATTTAATAT
Found at i:1936219 original size:21 final size:21
Alignment explanation
Indices: 1936194--1936233 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1936184 AGTTTATTTT
*
1936194 TAAACTTTTTTTCAATTATTG
1 TAAACTTTGTTTCAATTATTG
1936215 TAAACTTTGTTTCAATTAT
1 TAAACTTTGTTTCAATTAT
1936234 CGAACTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATTG
Found at i:1936324 original size:33 final size:33
Alignment explanation
Indices: 1936230--1936333 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
1936220 TTTGTTTCAA
*
1936230 TTATCGAACTTGAAAGTTTTTAAGTATTCGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
*
1936263 TTATCGAACTTGAAAATTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
* * *
1936296 TTATCGAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1936328 TTATCG
1 TTATCG
1936334 TAAACTTTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
32 6 0.09
33 59 0.91
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (33 bp):
TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
Found at i:1941542 original size:42 final size:40
Alignment explanation
Indices: 1941492--1941609 Score: 151
Period size: 34 Copynumber: 3.0 Consensus size: 40
1941482 TGTAAGTAAC
1941492 AGAAAGAATAAAGATAACATTTTATAAGAATCTATACCATT
1 AGAAAGAATAAAGATAACATTTTATAAGAATCTATACCA-T
*
1941533 ATATAAGAATAAAGATAACATTTTATAA-AGA--TA-A-C--
1 AGA-AAGAATAAAGATAACATTTTATAAGA-ATCTATACCAT
1941568 AGAAAGAATAAAGATAACATTTTATAAGAATCTATACCAT
1 AGAAAGAATAAAGATAACATTTTATAAGAATCTATACCAT
1941608 AG
1 AG
1941610 TTGCGTGATA
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
34 25 0.38
35 3 0.05
36 2 0.03
37 1 0.02
38 2 0.03
39 1 0.02
40 4 0.06
41 3 0.05
42 25 0.38
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.28
Consensus pattern (40 bp):
AGAAAGAATAAAGATAACATTTTATAAGAATCTATACCAT
Found at i:1941598 original size:22 final size:22
Alignment explanation
Indices: 1941495--1941560 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
1941485 AAGTAACAGA
1941495 AAGAATAAAGATAACATTTTAT
1 AAGAATAAAGATAACATTTTAT
** * *
1941517 AAGAAT--CTATACCATTATAT
1 AAGAATAAAGATAACATTTTAT
1941537 AAGAATAAAGATAACATTTTAT
1 AAGAATAAAGATAACATTTTAT
1941559 AA
1 AA
1941561 AGATAACAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (22 bp):
AAGAATAAAGATAACATTTTAT
Found at i:1944688 original size:3 final size:3
Alignment explanation
Indices: 1944680--1944713 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1944670 ATTATATGTT
1944680 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1944714 GTGATGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1956184 original size:105 final size:105
Alignment explanation
Indices: 1955990--1956188 Score: 265
Period size: 105 Copynumber: 1.9 Consensus size: 105
1955980 GACCACATAT
* * * *
1955990 AAATTCCTTAAGAACCATATACATATACTAATGATCAAGTAAGTGTCTCAAAAGGCCTCATACAT
1 AAATTCCTTAAGAACCATATACATATACTAAGGACCAAATAAGTGTCGCAAAAGGCCTCATACAT
1956055 GCTCTAAAGAATACATATACGTCCCGAAGAACCACGTAGA
66 GCTCTAAAGAATACATATACGTCCCGAAGAACCACGTAGA
* * * *
1956095 AAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATACGTGTCGC-AAAGGACCTCATAGA
1 AAATTCCTTAAGAACCATATACATATACTAAGGACCAAATAAGTGTCGCAAAAGG-CCTCATACA
* * * * *
1956159 TGTTCTATAGGATACCTATATGTCCCGAAG
65 TGCTCTAAAGAATACATATACGTCCCGAAG
1956189 GACCGCATAG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 5 0.06
105 75 0.94
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (105 bp):
AAATTCCTTAAGAACCATATACATATACTAAGGACCAAATAAGTGTCGCAAAAGGCCTCATACAT
GCTCTAAAGAATACATATACGTCCCGAAGAACCACGTAGA
Found at i:1957738 original size:21 final size:22
Alignment explanation
Indices: 1957674--1957753 Score: 126
Period size: 22 Copynumber: 3.7 Consensus size: 22
1957664 TCGGTTGAGG
*
1957674 GGGTATCGATTCCCCCTTGAAT
1 GGGTACCGATTCCCCCTTGAAT
*
1957696 GGGTACTGATTCCCCCTTGAAT
1 GGGTACCGATTCCCCCTTGAAT
*
1957718 GGGTACCGATT-CCCATTGAAT
1 GGGTACCGATTCCCCCTTGAAT
1957739 GGGTACCGATTCCCC
1 GGGTACCGATTCCCC
1957754 TAGCCCAGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 20 0.38
22 33 0.62
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (22 bp):
GGGTACCGATTCCCCCTTGAAT
Found at i:1962370 original size:54 final size:53
Alignment explanation
Indices: 1962268--1962372 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
1962258 GCCTTTTATA
*
1962268 TTATATTTTTTATTCTAAACTAATCTTACAACTTTTAATATTTTAATTTTAAG
1 TTATATTTTTTATTCTAAACTAATCTTACAACTTTTAATATTTAAATTTTAAG
* * * *
1962321 TTATATTTTTT-TATCTTAAATTAATTTTA-AATTTTTTATCATTTAAATTTTA
1 TTATATTTTTTAT-TC-TAAACTAATCTTACAACTTTTAAT-ATTTAAATTTTA
1962373 TTAAATTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
52 1 0.02
53 21 0.48
54 22 0.50
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (53 bp):
TTATATTTTTTATTCTAAACTAATCTTACAACTTTTAATATTTAAATTTTAAG
Found at i:1962376 original size:26 final size:24
Alignment explanation
Indices: 1962327--1962379 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
1962317 TAAGTTATAT
1962327 TTTTTTATCTTAAATTAATTTTAAA
1 TTTTTTATCTTAAATT-ATTTTAAA
1962352 TTTTTTATCATTTAAATT-TTATTAAA
1 TTTTTTATC--TTAAATTATT-TTAAA
1962378 TT
1 TT
1962380 ATCAGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.44
26 7 0.28
27 7 0.28
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTTATCTTAAATTATTTTAAA
Found at i:1962787 original size:17 final size:17
Alignment explanation
Indices: 1962765--1962806 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1962755 AAGTTGGGTG
1962765 CTTTGGATGAAATGGTT
1 CTTTGGATGAAATGGTT
1962782 CTTTGGATGAAATGGTT
1 CTTTGGATGAAATGGTT
1962799 CTTTGGAT
1 CTTTGGAT
1962807 TAGTGTGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (17 bp):
CTTTGGATGAAATGGTT
Found at i:1963352 original size:24 final size:24
Alignment explanation
Indices: 1963307--1963352 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1963297 AAATAAAATA
* *
1963307 AAAACAATTAAACTAGATTTAAGT
1 AAAACAATTAAACTACAATTAAGT
* *
1963331 AAAACATTTATACTACAATTAA
1 AAAACAATTAAACTACAATTAA
1963353 TTAGTTGTGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAACAATTAAACTACAATTAAGT
Found at i:1969793 original size:21 final size:21
Alignment explanation
Indices: 1969743--1969794 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1969733 GTGCAGCATG
*
1969743 AACTAGCTCGGTCACCATAAC
1 AACTAGCTTGGTCACCATAAC
1969764 AACTAGCTTGGTCACCATAAC
1 AACTAGCTTGGTCACCATAAC
1969785 AACTAGCTTG
1 AACTAGCTTG
1969795 AAAGCCAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (21 bp):
AACTAGCTTGGTCACCATAAC
Found at i:1972188 original size:34 final size:32
Alignment explanation
Indices: 1972116--1972196 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 32
1972106 CGTATGGCAT
*
1972116 TCGGGTCGGATTTTTTTTAAAAAAAATTGGGA
1 TCGGGTCGGATTTTTTTTAAAAAAAATCGGGA
*
1972148 T-TGGTCGGATTTTTTTATAAAAAAAAAATCGGG-
1 TCGGGTCGGATTTTTTT-T--AAAAAAAATCGGGA
*
1972181 TCGGGTCGGGTTTTTT
1 TCGGGTCGGATTTTTT
1972197 AAGTGTGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 14 0.34
32 2 0.05
33 1 0.02
34 24 0.59
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.40
Consensus pattern (32 bp):
TCGGGTCGGATTTTTTTTAAAAAAAATCGGGA
Found at i:1972246 original size:26 final size:27
Alignment explanation
Indices: 1972182--1972234 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1972172 AAAATCGGGT
1972182 CGGGTCGGGTTTTTTAAGTGTGATATG
1 CGGGTCGGGTTTTTTAAGTGTGATATG
*
1972209 CGGGTCGGGTTTTTTAAGTGTTATAT
1 CGGGTCGGGTTTTTTAAGTGTGATAT
1972235 TTGGGTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.08, G:0.34, T:0.43
Consensus pattern (27 bp):
CGGGTCGGGTTTTTTAAGTGTGATATG
Found at i:1975046 original size:210 final size:212
Alignment explanation
Indices: 1974449--1975262 Score: 1205
Period size: 210 Copynumber: 3.8 Consensus size: 212
1974439 ATTTAAGAAT
*
1974449 TAAATTTAACAAATATGAAATTACAAATAAAAA-TTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* *
1974513 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATTACTAAATTATAC
63 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
1974578 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
128 TCATTTAAAAAGTTATGGACCAATT--AAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAT
* *
1974643 ATGCAACTAAAATTTGGAGGAT
191 ATGCAAATAAAATTTGGAGGAC
*
1974665 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAATAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * *
1974730 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAATACGTACTAAATTATAC
63 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
1974795 ACATTTAAAAAGTTATGGATCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATA
128 TCATTTAAAAAGTTATGGACCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATA
1974860 TGCAAATAAAATTTGGAGGAC
192 TGCAAATAAAATTTGGAGGAC
* *
1974881 TAAATTGAATAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* * *
1974943 TCAAATCAAAATAATTTTAAATTTTGAGGTTGTAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCA
* * **
1975008 TTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGGTGC
131 TTTAAAAAGTTATGGACCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATGC
1975073 AAATAAAATTTGGAGGAC
195 AAATAAAATTTGGAGGAC
* *
1975091 TAAATTGAACAAATATGAAATTACAAATAAAATTTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
*
1975153 TCAAATCAAAATAATTTTAAAATT-TGAGGTTGAAATTAATA-AAAAATGTACTAAATTATACTC
66 TCAAATCAAAATAATTTT-AAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTC
*
1975216 ATTTAAAAAGTTATTGACCAATTAATAAATAGAAATAAGTAATAAGT
130 ATTTAAAAAGTTATGGACCAATTAA-AAATAGAAATAAGTAATAAGT
1975263 TGAGAAAAAA
Statistics
Matches: 558, Mismatches: 36, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
208 4 0.01
209 59 0.11
210 235 0.42
211 5 0.01
212 1 0.00
215 1 0.00
216 140 0.25
217 111 0.20
218 2 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (212 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCA
TTTAAAAAGTTATGGACCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATGCA
AATAAAATTTGGAGGAC
Found at i:1975291 original size:2 final size:2
Alignment explanation
Indices: 1975286--1975380 Score: 88
Period size: 2 Copynumber: 47.0 Consensus size: 2
1975276 AAAACAACTA
1975286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
1975328 A- AT TT AT AT AA AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
*
1975371 TT AT AT AT AT
1 AT AT AT AT AT
1975381 TATGTATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
1 3 0.04
2 69 0.91
3 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1975403 original size:27 final size:28
Alignment explanation
Indices: 1975372--1975432 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
1975362 CTATATAGTT
** *
1975372 TATATATATTATGTATAAAGTATAA-AC
1 TATATATACCATGTATAAACTATAATAC
1975399 TATATATACCATGTATAAACTATAATAC
1 TATATATACCATGTATAAACTATAATAC
1975427 TATATA
1 TATATA
1975433 GTTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (28 bp):
TATATATACCATGTATAAACTATAATAC
Found at i:1975488 original size:11 final size:11
Alignment explanation
Indices: 1975474--1975511 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1975464 ACTACATAGT
1975474 TTATATATAAA
1 TTATATATAAA
*
1975485 TTATATATGAA
1 TTATATATAAA
1975496 TTATATATAAA
1 TTATATATAAA
*
1975507 CTATA
1 TTATA
1975512 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:1975519 original size:42 final size:43
Alignment explanation
Indices: 1975450--1975548 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
1975440 TATGAACTAT
* * * *
1975450 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
* * *
1975492 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATAAATTATATA
*
1975536 T-AATTATAAATAA
1 TGAATTATATATAA
1975549 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
Found at i:1975537 original size:17 final size:17
Alignment explanation
Indices: 1975517--1975570 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1975507 CTATACAATT
* *
1975517 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
1975534 TATAATTATAAATAATA
1 TATATTTATAAATTATA
1975551 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
1975569 TA
1 TA
1975571 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:1975602 original size:20 final size:20
Alignment explanation
Indices: 1975281--1975603 Score: 127
Period size: 22 Copynumber: 16.0 Consensus size: 20
1975271 AAATTAAAAC
1975281 AACTAATATA-TATATATATA
1 AACT-ATATAGTATATATATA
*
1975301 TA-TATATA-TATATATATA
1 AACTATATAGTATATATATA
*
1975319 TAACTATATA--ATTTATATA
1 -AACTATATAGTATATATATA
* *
1975338 AAGTATATGTATTATATATATA
1 AACTATA--TAGTATATATATA
*
1975360 AACTATATAGTTTATATATATT
1 AACTATATAG--TATATATATA
** * *
1975382 ATGTATAAAGTATAAACTATA
1 AACTATATAGTATATA-TATA
* * *
1975403 TA-TACCAT-GTATAAACTATA
1 AACTA-TATAGTATATA-TATA
* *
1975423 ATACTATATAGTTTATATATG
1 A-ACTATATAGTATATATATA
* *
1975444 AACTAT-T-GAACTATATAGA
1 AACTATATAGTA-TATATATA
* *
1975463 AACTACATAGTTTATATATA
1 AACTATATAGTATATATATA
* *
1975483 AATTATATATGAATTATATATA
1 AACTATATA-GTA-TATATATA
* * * *
1975505 AACTATACAATTTATATTTA
1 AACTATATAGTATATATATA
*
1975525 TA-TAT-TATGTATA-ATTATA
1 AACTATATA-GTATATA-TATA
*
1975544 AA-TA-ATA-TATATTGTATA
1 AACTATATAGTATA-TATATA
* *
1975562 AATTATATAGTTTATTAATATA
1 AACTATATAGTATA-T-ATATA
1975584 AACTATATAGTATATATATA
1 AACTATATAGTATATATATA
1975604 TATTATATGG
Statistics
Matches: 225, Mismatches: 51, Indels: 54
0.68 0.15 0.16
Matches are distributed among these distances:
17 4 0.02
18 30 0.13
19 38 0.17
20 66 0.29
21 19 0.08
22 68 0.30
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
AACTATATAGTATATATATA
Found at i:1975610 original size:9 final size:9
Alignment explanation
Indices: 1975517--1975611 Score: 52
Period size: 9 Copynumber: 10.1 Consensus size: 9
1975507 CTATACAATT
1975517 TATATT-TA
1 TATATTATA
*
1975525 TATATTATG
1 TATATTATA
1975534 TATAATTATA
1 TAT-ATTATA
*
1975544 -A-ATAATA
1 TATATTATA
*
1975551 TATATTGTA
1 TATATTATA
*
1975560 TAAATTATA
1 TATATTATA
1975569 TAGTTTATTAATA
1 TA---TATT-ATA
* *
1975582 TAAACTATA
1 TATATTATA
1975591 TAGTATATATA
1 TA-TAT-TATA
1975602 TATATTATA
1 TATATTATA
1975611 T
1 T
1975612 GGTTTAGGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
7 5 0.08
8 7 0.11
9 28 0.43
10 11 0.17
11 6 0.09
12 3 0.05
13 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (9 bp):
TATATTATA
Found at i:1975610 original size:20 final size:20
Alignment explanation
Indices: 1975286--1975611 Score: 97
Period size: 20 Copynumber: 16.2 Consensus size: 20
1975276 AAAACAACTA
1975286 ATATA-TATATATATATA-T
1 ATATAGTATATATATATACT
1975304 ATATA-TATATATATATAACT
1 ATATAGTATATATATAT-ACT
* * *
1975324 ATATAATTTATATAAAGTA-T
1 ATATAGTATATATATA-TACT
* * *
1975344 ATGTATTATATATATAAACT
1 ATATAGTATATATATATACT
* *
1975364 ATATAGTTTATATATATTATGT
1 ATATAGTATATATATA-TA-CT
* *
1975386 ATAAAGTATAAACTATATA-T
1 ATATAGTATATA-TATATACT
* *
1975406 ACCAT-GTATAAACTATAATACT
1 A-TATAGTATATA-TAT-ATACT
*
1975428 ATATAGTTTATATATGA-ACT
1 ATATAGTATATATAT-ATACT
* * *
1975448 AT-T-GAACTATATAGAAACT
1 ATATAGTA-TATATATATACT
* * * *
1975467 ACATAGTTTATATATAAATT
1 ATATAGTATATATATATACT
* *
1975487 ATATATGAATTATATATAAACT
1 ATATA-GTA-TATATATATACT
* * * *
1975509 ATACAATTTATATTTATA-T
1 ATATAGTATATATATATACT
*
1975528 AT-TATGTATA-AT-TATA-A
1 ATATA-GTATATATATATACT
* * *
1975545 ATAATA-TATATTGTATAAATT
1 AT-ATAGTATA-TATATATACT
* *
1975566 ATATAGTTTATTAATATAAACT
1 ATATAGTATA-T-ATATATACT
*
1975588 ATATAGTATATATATATATT
1 ATATAGTATATATATATACT
1975608 ATAT
1 ATAT
1975612 GGTTTAGGGT
Statistics
Matches: 229, Mismatches: 52, Indels: 52
0.69 0.16 0.16
Matches are distributed among these distances:
17 10 0.04
18 21 0.09
19 22 0.10
20 91 0.40
21 30 0.13
22 51 0.22
23 4 0.02
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATAGTATATATATATACT
Found at i:1975628 original size:13 final size:13
Alignment explanation
Indices: 1975612--1975639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1975602 TATATTATAT
1975612 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
1975625 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
1975638 GG
1 GG
1975640 GATTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:1975630 original size:6 final size:7
Alignment explanation
Indices: 1975612--1975640 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1975602 TATATTATAT
1975612 GGTTTAG
1 GGTTTAG
1975619 GGTTTA-
1 GGTTTAG
1975625 GGTTTAG
1 GGTTTAG
1975632 GGTTTAG
1 GGTTTAG
1975639 GG
1 GG
1975641 ATTATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:1975650 original size:20 final size:20
Alignment explanation
Indices: 1975602--1975650 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
1975592 AGTATATATA
* *
1975602 TATATTATATGGTTTAGGGTT
1 TATATT-TAGGGTTTAGGGAT
**
1975623 TAGGTTTAGGGTTTAGGGAT
1 TATATTTAGGGTTTAGGGAT
1975643 TATATTTA
1 TATATTTA
1975651 TATTTATATA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (20 bp):
TATATTTAGGGTTTAGGGAT
Found at i:1975692 original size:20 final size:20
Alignment explanation
Indices: 1975667--1975739 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
1975657 TATAAACTAC
1975667 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
1975687 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
**
1975710 ATAAACTATGGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
1975732 ATACTATA
1 ATACTATA
1975740 TATATGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 11 0.25
23 11 0.25
24 2 0.05
25 5 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:1975703 original size:12 final size:13
Alignment explanation
Indices: 1975678--1975718 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1975668 TACTATAATT
1975678 TATATTTATATAC
1 TATATTTATATAC
1975691 TATATTT-TATAC
1 TATATTTATATAC
*
1975703 TAT-TTATATAAAC
1 TATATT-TATATAC
1975716 TAT
1 TAT
1975719 GGTTTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:1975724 original size:25 final size:23
Alignment explanation
Indices: 1975680--1975739 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
1975670 CTATAATTTA
*
1975680 TATTTATATACTATATTTTATAC
1 TATTTATATACTATAGTTTATAC
*
1975703 TATTTATATAAACTAT-GGTT-TA-
1 TATTTATAT--ACTATAGTTTATAC
1975725 TATTTATATACTATA
1 TATTTATATACTATA
1975740 TATATGAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.16
22 9 0.28
23 11 0.34
24 2 0.06
25 5 0.16
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (23 bp):
TATTTATATACTATAGTTTATAC
Found at i:1975738 original size:33 final size:32
Alignment explanation
Indices: 1975691--1975778 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 32
1975681 ATTTATATAC
* *
1975691 TATATTTTATACTATTTATATAAACTATGGTT
1 TATATTTTATACTATATATATAAACTATAGTT
*
1975723 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTT-TATACTATATATATAAACTATAGTT
* * *
1975756 TACATATGA-ACTATATATATAAA
1 TATATTTTATACTATATATATAAA
1975779 TATGTATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 13 0.27
32 8 0.17
33 27 0.56
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (32 bp):
TATATTTTATACTATATATATAAACTATAGTT
Found at i:1975822 original size:18 final size:18
Alignment explanation
Indices: 1975801--1975915 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
1975791 AAGGTTGATA
*
1975801 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
*
1975819 TTTACATATAAACTATATAG
1 TTTACATATGAAC--TATAG
*
1975839 TTTATATACT-AACTATAG
1 TTTACATA-TGAACTATAG
*
1975857 TTTACATATAAACTATAG
1 TTTACATATGAACTATAG
1975875 TTACTATTTACATATGAACTATAG
1 ------TTTACATATGAACTATAG
1975899 TTTACATATGAACTATA
1 TTTACATATGAACTATA
1975916 TATATAAACT
Statistics
Matches: 82, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
17 1 0.01
18 48 0.59
20 15 0.18
21 1 0.01
24 17 0.21
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:1975843 original size:38 final size:39
Alignment explanation
Indices: 1975800--1975917 Score: 159
Period size: 38 Copynumber: 3.0 Consensus size: 39
1975790 TAAGGTTGAT
1975800 ATTTATATATGAACTATAGTTTACATATAAACTATATA-
1 ATTTATATATGAACTATAGTTTACATATAAACTATATAC
*
1975838 GTTTATATACT-AACTATAGTTTACATATAAACTATAGTTAC
1 ATTTATATA-TGAACTATAGTTTACATATAAACTATA--TAC
* *
1975879 TATTTACATATGAACTATAGTTTACATATGAACTATATA
1 -ATTTATATATGAACTATAGTTTACATATAAACTATATA
1975918 TATAAACTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
38 33 0.47
39 1 0.01
40 4 0.06
41 1 0.01
42 31 0.44
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (39 bp):
ATTTATATATGAACTATAGTTTACATATAAACTATATAC
Found at i:1975926 original size:31 final size:31
Alignment explanation
Indices: 1975886--1975964 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 31
1975876 TACTATTTAC
*
1975886 ATATGAACTATAGTTTACATATGAACTATAT
1 ATATAAACTATAGTTTACATATGAACTATAT
*
1975917 ATATAAACTATATAGTTTACATATGACCTATAT
1 ATATAAAC--TATAGTTTACATATGAACTATAT
*
1975950 ATATATACTATAGTT
1 ATATAAACTATAGTT
1975965 GATATTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 14 0.33
33 29 0.67
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (31 bp):
ATATAAACTATAGTTTACATATGAACTATAT
Found at i:1975931 original size:33 final size:33
Alignment explanation
Indices: 1975894--1975961 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
1975884 ACATATGAAC
1975894 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGAACTATATATATAAACTA
* *
1975927 TATAGTTTACATATGACCTATATATATATACTA
1 TATAGTTTACATATGAACTATATATATAAACTA
1975960 TA
1 TA
1975962 GTTGATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (33 bp):
TATAGTTTACATATGAACTATATATATAAACTA
Found at i:1975947 original size:20 final size:20
Alignment explanation
Indices: 1975801--1975950 Score: 103
Period size: 18 Copynumber: 8.0 Consensus size: 20
1975791 AAGGTTGATA
*
1975801 TTTATATATGAAC--TATAG
1 TTTACATATGAACTATATAG
*
1975819 TTTACATATAAACTATATAG
1 TTTACATATGAACTATATAG
*
1975839 TTTATATACT-AAC--TATAG
1 TTTACATA-TGAACTATATAG
* *
1975857 TTTACATATAAACTATAGTTACTA
1 TTTACATATGAACTATA--TA--G
1975881 TTTACATATGAAC--TATAG
1 TTTACATATGAACTATATAG
1975899 TTTACATATGAACTATATA-
1 TTTACATATGAACTATATAG
1975918 --T--ATA--AACTATATAG
1 TTTACATATGAACTATATAG
*
1975932 TTTACATATGACCTATATA
1 TTTACATATGAACTATATA
1975951 TATATACTAT
Statistics
Matches: 105, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
13 9 0.09
15 3 0.03
16 1 0.01
17 2 0.02
18 42 0.40
20 31 0.30
21 1 0.01
22 4 0.04
24 12 0.11
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTACATATGAACTATATAG
Found at i:1975991 original size:53 final size:53
Alignment explanation
Indices: 1975913--1976035 Score: 201
Period size: 53 Copynumber: 2.3 Consensus size: 53
1975903 CATATGAACT
* *
1975913 ATATATATAAACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
1 ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
* *
1975966 ATATTTATATACTATATAGTTTACATATGACCTATATATGTATACTATAGTTT
1 ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
*
1976019 ATATTCATATACTATAT
1 ATATTTATATACTATAT
1976036 TATATATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.45
Consensus pattern (53 bp):
ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
Found at i:1976021 original size:20 final size:20
Alignment explanation
Indices: 1975998--1976066 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
1975988 ACATATGACC
*
1975998 TATATATGTATACTATAGTT-
1 TATATATATATACTATA-TTA
1976018 TATAT-TCATATACTATATTA
1 TATATAT-ATATACTATATTA
*
1976038 TATATATATAAACTATA-TA
1 TATATATATATACTATATTA
1976057 TACTATATAT
1 TA-TATATAT
1976067 TGTAATTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.16
20 35 0.81
21 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATATATATACTATATTA
Found at i:1976054 original size:53 final size:53
Alignment explanation
Indices: 1975923--1976063 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 53
1975913 ATATATATAA
* * * *
1975923 ACTATATAGTTTACATATGACCTATATATATATACTATAGTTGATATTTATAT
1 ACTATATAGTATACATATAAACTATATATATATACTATAGTTGATATTCATAT
* * * * *
1975976 ACTATATAGTTTACATATGACCTATATATGTATACTATAGTTTATATTCATAT
1 ACTATATAGTATACATATAAACTATATATATATACTATAGTTGATATTCATAT
*
1976029 ACTATATTA-TATATATATAAACTATATATACTATA
1 ACTATA-TAGTATACATATAAACTATATATA-TATA
1976064 TATTGTAATT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 72 0.92
54 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (53 bp):
ACTATATAGTATACATATAAACTATATATATATACTATAGTTGATATTCATAT
Found at i:1976066 original size:9 final size:9
Alignment explanation
Indices: 1976025--1976066 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
1976015 GTTTATATTC
1976025 ATATACTAT
1 ATATACTAT
1976034 ATTATA-TAT
1 A-TATACTAT
1976043 ATATAAACTAT
1 ATAT--ACTAT
1976054 ATATACTAT
1 ATATACTAT
1976063 ATAT
1 ATAT
1976067 TGTAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.10
9 14 0.48
10 5 0.17
11 7 0.24
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATACTAT
Found at i:1977019 original size:64 final size:64
Alignment explanation
Indices: 1976951--1977106 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 64
1976941 TTGAAGGTGT
** *
1976951 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAAGATCGAATGC-AATTAGTG
1 ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAAT-AAAACATCGAATGCGAATTA-TG
1977014 C
64 C
* * * **
1977015 ATCGATGCATAAGGCA-TGCATCGATGCATTCCATTAATAATAAAACATCGAATGCGTTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCGAATTATGC
* * *
1977079 ACCGATGCACAAGTAGTGCACCGATGCA
1 ATCGATGCACAGGTAGTGCATCGATGCA
1977107 TACCTTCATT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 3 0.04
64 62 0.83
65 10 0.13
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCGAATTATGC
Found at i:1977660 original size:15 final size:15
Alignment explanation
Indices: 1977628--1977661 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1977618 GAGGGTATAA
*
1977628 TAGTCCTTCGGGACG
1 TAGTCCTTCGAGACG
*
1977643 TAGTCCTTCGAGATG
1 TAGTCCTTCGAGACG
1977658 TAGT
1 TAGT
1977662 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGAGACG
Found at i:1978383 original size:35 final size:34
Alignment explanation
Indices: 1978343--1978536 Score: 148
Period size: 33 Copynumber: 5.6 Consensus size: 34
1978333 AGACTATATC
* *
1978343 GTATATATAAACTATACATTATATATAGTTCATTA
1 GTATATATAAACTATATA-TATATATAGTTCAGTA
1978378 GTATATATAAACTATATAT-TATATAGTTCAGTA
1 GTATATATAAACTATATATATATATAGTTCAGTA
* *
1978411 GTATATATGAACTATATAGTATATATAAACTAT-A-TA
1 GTATATATAAACTATATA-TATATAT--AGT-TCAGTA
* ** * *
1978447 TTATATAGTTCATTAATATATAACCTATATAGTAT-A-TG
1 GTATATA-TAAACT-ATATAT-A--TATATAGT-TCAGTA
* *
1978485 GTATATACAAACTATATAT-TATATAGTTCATTA
1 GTATATATAAACTATATATATATATAGTTCAGTA
1978518 GTATATATAAACTATATAT
1 GTATATATAAACTATATAT
1978537 TAATTTATTA
Statistics
Matches: 130, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
31 1 0.01
32 9 0.07
33 49 0.38
34 2 0.02
35 22 0.17
36 14 0.11
37 9 0.07
38 19 0.15
40 5 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (34 bp):
GTATATATAAACTATATATATATATAGTTCAGTA
Found at i:1978402 original size:18 final size:18
Alignment explanation
Indices: 1978329--1978453 Score: 93
Period size: 18 Copynumber: 7.2 Consensus size: 18
1978319 GGTGTTACAC
* *
1978329 ATATAGACTATATCGTAT
1 ATATAAACTATATAGTAT
* *
1978347 ATATAAACTATACATTAT
1 ATATAAACTATATAGTAT
**
1978365 ATAT-AGTTCAT-TAGTAT
1 ATATAAACT-ATATAGTAT
1978382 ATATAAACTATATA-T-T
1 ATATAAACTATATAGTAT
*
1978398 ATAT--AGT-TCAGTAGTAT
1 ATATAAACTAT-A-TAGTAT
*
1978415 ATATGAACTATATAGTAT
1 ATATAAACTATATAGTAT
*
1978433 ATATAAACTATATATTAT
1 ATATAAACTATATAGTAT
1978451 ATA
1 ATA
1978454 GTTCATTAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
13 1 0.01
14 3 0.04
15 2 0.02
16 6 0.07
17 18 0.22
18 49 0.59
19 3 0.04
20 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
ATATAAACTATATAGTAT
Found at i:1978431 original size:51 final size:51
Alignment explanation
Indices: 1978376--1978535 Score: 221
Period size: 51 Copynumber: 3.0 Consensus size: 51
1978366 TATAGTTCAT
* *
1978376 TAGTATATATAAACTATATATTATATAGTTCAGTAGTATATATGAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
* *
1978427 TAGTATATATAAACTATATATTATATAGTTCATTAATATATAACCTATATAGTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATAT-A--TA-A-ACTATA
* *
1978483 TGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1978534 TA
1 TA
1978536 TTAATTTATT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
51 45 0.47
52 2 0.02
53 2 0.02
54 1 0.01
55 2 0.02
56 43 0.45
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
Found at i:1978692 original size:29 final size:31
Alignment explanation
Indices: 1978642--1978699 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
1978632 AAAAAGTAAC
*
1978642 ATTAAATTTGATAGACTATATTTAATATTAT
1 ATTAAATTTGATAAACTATATTTAATATTAT
*
1978673 ATTAAA-TT-ATAAACTATATTTTATATT
1 ATTAAATTTGATAAACTATATTTAATATT
1978700 CTTAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.68
30 2 0.08
31 6 0.24
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
ATTAAATTTGATAAACTATATTTAATATTAT
Found at i:1981770 original size:13 final size:13
Alignment explanation
Indices: 1981751--1981788 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
1981741 TAATTTAGTG
1981751 ATTATAAATAA-A
1 ATTATAAATAAGA
1981763 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
1981778 ATTATAAATAA
1 ATTATAAATAA
1981789 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:1981798 original size:19 final size:19
Alignment explanation
Indices: 1981767--1981813 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1981757 AATAAAATTT
1981767 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTATAA
1981785 ATAATATAAAGAATTATAA
1 ATAATATAAAGAATTATAA
*
1981804 TTAATATAAA
1 ATAATATAAA
1981814 AATCAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
ATAATATAAAGAATTATAA
Found at i:1981844 original size:38 final size:39
Alignment explanation
Indices: 1981785--1981861 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
1981775 AGAATTATAA
*
1981785 ATAATATAAAGAATTATAATTAATATAAAAA-TCAAATTT
1 ATAATATAAAGAATTAGAATTAATATAAAAACT-AAATTT
*
1981824 ATAATATACA-AATTAGAATTAATATAAAAACTAAATTT
1 ATAATATAAAGAATTAGAATTAATATAAAAACTAAATTT
1981862 CAAAAAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 25 0.71
39 10 0.29
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (39 bp):
ATAATATAAAGAATTAGAATTAATATAAAAACTAAATTT
Found at i:1999379 original size:2 final size:2
Alignment explanation
Indices: 1999372--1999397 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1999362 CAAAGCATGA
1999372 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
1999398 TGATTTCCAG
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):
AT
Found at i:2007395 original size:3 final size:3
Alignment explanation
Indices: 2007387--2007416 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2007377 CCTTTTAATT
2007387 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2007417 CTCCATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2010967 original size:25 final size:23
Alignment explanation
Indices: 2010935--2010981 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
2010925 TTTATATGAA
2010935 TTATATCCCCTAAGATTTTATAATC
1 TTATATCCCCTAA-ATTTT-TAATC
*
2010960 TTATATCCTCTAAATTTTTAAT
1 TTATATCCCCTAAATTTTTAAT
2010982 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATATCCCCTAAATTTTTAATC
Found at i:2012865 original size:15 final size:15
Alignment explanation
Indices: 2012845--2012898 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2012835 GATGTTACGA
2012845 GTACCCGGTAACCGG
1 GTACCCGGTAACCGG
***
2012860 GTACCCGGATTTTGCGG
1 GTACCCGG--TAACCGG
*
2012877 GTACCCGGTAATCGG
1 GTACCCGGTAACCGG
2012892 GTACCCG
1 GTACCCG
2012899 ATATCCGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 19 0.61
17 12 0.39
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (15 bp):
GTACCCGGTAACCGG
Found at i:2012866 original size:32 final size:32
Alignment explanation
Indices: 2012830--2012898 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
2012820 CCGTGTCCCG
2012830 ACCCGGATGTTACGAGTACCCGGTAACCGGGT
1 ACCCGGATGTTACGAGTACCCGGTAACCGGGT
* * * *
2012862 ACCCGGATTTTGCGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGAGTACCCGGTAACCGGGT
2012894 ACCCG
1 ACCCG
2012899 ATATCCGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.20
Consensus pattern (32 bp):
ACCCGGATGTTACGAGTACCCGGTAACCGGGT
Found at i:2015115 original size:31 final size:32
Alignment explanation
Indices: 2015074--2015137 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
2015064 AATTAATAAG
* *
2015074 TGTAAAAGTTTGACAA-ACTTAATGATCATTT
1 TGTAAAAGTTTGAAAATACTTAATGATAATTT
* *
2015105 TGTAATAGTTTGAAAATATTTAATGATAATTT
1 TGTAAAAGTTTGAAAATACTTAATGATAATTT
2015137 T
1 T
2015138 ATAACGATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (32 bp):
TGTAAAAGTTTGAAAATACTTAATGATAATTT
Found at i:2015839 original size:24 final size:24
Alignment explanation
Indices: 2015812--2015859 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2015802 TCATGTAGGT
*
2015812 TAAAATTTAAAATACCACTTTAAA
1 TAAAATTTAAAAAACCACTTTAAA
* *
2015836 TAAATTTTAAAAAACTACTTTAAA
1 TAAAATTTAAAAAACCACTTTAAA
2015860 AGGCAAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAATTTAAAAAACCACTTTAAA
Found at i:2019858 original size:15 final size:17
Alignment explanation
Indices: 2019827--2019859 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2019817 TCAAAACTTC
2019827 ATCTCGATCTCGATATA
1 ATCTCGATCTCGATATA
2019844 ATCT-GATCT-GATATA
1 ATCTCGATCTCGATATA
2019859 A
1 A
2019860 CGAAAGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (17 bp):
ATCTCGATCTCGATATA
Found at i:2023597 original size:30 final size:31
Alignment explanation
Indices: 2023563--2023623 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
2023553 AAAAATTTGA
* *
2023563 GGACC-ATTTTGTAATTTTTGAAAAGTTGGG
1 GGACCAATTTGGTAATTTTAGAAAAGTTGGG
2023593 GGACCAATTTGGTAATTTTAGAAAAGTTGGG
1 GGACCAATTTGGTAATTTTAGAAAAGTTGGG
2023624 AATGGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (31 bp):
GGACCAATTTGGTAATTTTAGAAAAGTTGGG
Found at i:2024802 original size:21 final size:21
Alignment explanation
Indices: 2024745--2024806 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
2024735 AGGGTTACAT
* *
2024745 ATGTCCTTCGGGACACAAATG
1 ATGTCCTTCGGGACATAGATG
* *
2024766 ACGTCATTCGGGACATAGATG
1 ATGTCCTTCGGGACATAGATG
2024787 ATGTCCTTCGGGACATAGAT
1 ATGTCCTTCGGGACATAGAT
2024807 TTCACGTGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
ATGTCCTTCGGGACATAGATG
Found at i:2033245 original size:25 final size:25
Alignment explanation
Indices: 2033216--2033269 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
2033206 TCTCCTTTAG
2033216 TTTCCTTAGAGTCTCCTCTTTAAGC
1 TTTCCTTAGAGTCTCCTCTTTAAGC
2033241 TTTCCTTAGAGTCTCCTCTTTAAGC
1 TTTCCTTAGAGTCTCCTCTTTAAGC
2033266 TTTC
1 TTTC
2033270 TGTCTTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.28, G:0.11, T:0.46
Consensus pattern (25 bp):
TTTCCTTAGAGTCTCCTCTTTAAGC
Found at i:2037693 original size:23 final size:24
Alignment explanation
Indices: 2037650--2037703 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
2037640 CAATGATTAA
*
2037650 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGCTTAATTT
2037674 ATGTAAATT-ATATAGCTTAATTT
1 ATGTAAATTAATATAGCTTAATTT
2037697 ATGTAAA
1 ATGTAAA
2037704 GAAAAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (24 bp):
ATGTAAATTAATATAGCTTAATTT
Found at i:2039146 original size:17 final size:20
Alignment explanation
Indices: 2039114--2039158 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
2039104 TGATGAGGAC
2039114 ATTAATATAAACTATTTAT-
1 ATTAATATAAACTATTTATA
2039133 ATTAATA-AAA-TATTTATA
1 ATTAATATAAACTATTTATA
2039151 ATTAATAT
1 ATTAATAT
2039159 TAATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.29
18 10 0.42
19 7 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAATATAAACTATTTATA
Found at i:2039570 original size:21 final size:21
Alignment explanation
Indices: 2039455--2039570 Score: 58
Period size: 21 Copynumber: 5.6 Consensus size: 21
2039445 GCGAAATAAA
*
2039455 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
2039475 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* * **
2039495 AACCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* * ** *
2039516 AATTGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
2039536 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
2039558 AATCGCAACGCGA
1 AATCGCAACGCGA
2039571 ATATGAAAAT
Statistics
Matches: 66, Mismatches: 26, Indels: 7
0.67 0.26 0.07
Matches are distributed among these distances:
19 1 0.02
20 24 0.36
21 39 0.59
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:2039583 original size:20 final size:20
Alignment explanation
Indices: 2039558--2039793 Score: 226
Period size: 20 Copynumber: 11.7 Consensus size: 20
2039548 GATTTTCCAG
* *
2039558 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
2039578 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* * * *
2039598 AATCGCGACGAGTATCCGTAA
1 AATCGCAACGCGAATACGT-A
* *
2039619 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2039639 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
*
2039660 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
2039680 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
2039700 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
2039720 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2039740 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
2039761 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2039781 AATCGCAACGCGA
1 AATCGCAACGCGA
2039794 TTTTTAAAGC
Statistics
Matches: 178, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.01
20 122 0.69
21 55 0.31
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:2039621 original size:41 final size:40
Alignment explanation
Indices: 2039558--2039793 Score: 235
Period size: 41 Copynumber: 5.8 Consensus size: 40
2039548 GATTTTCCAG
* ** * **
2039558 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
* * *
2039598 AATCGCGACGAGTATCCGTAAAATCGCAACGCGTATC-CGTA
1 AATCGCAACGCGTATCCGT-AAATCGCAACGCG-AACACGTA
* * * *
2039639 AATCGCAACGAC-AATACGTAAAATCGCAACGAGAATACGTA
1 AATCGCAACG-CGTATCCGT-AAATCGCAACGCGAACACGTA
* * *
2039680 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
* *
2039720 AATCGCAATGCGTATCCGTAAATCGCAACGAC-AATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAACACGT-A
2039761 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
2039794 TTTTTAAAGC
Statistics
Matches: 165, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
40 72 0.44
41 91 0.55
42 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
Found at i:2039764 original size:61 final size:60
Alignment explanation
Indices: 2039558--2039790 Score: 245
Period size: 61 Copynumber: 3.8 Consensus size: 60
2039548 GATTTTCCAG
* * * * ** *
2039558 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCGACGAGTATCCGTAA
1 AATCGCAACGCGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGAGTATCCGT-A
* * * * *
2039619 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTAAATCGCAACGAGAATACGT-AAATCGCAACGAGTATCCGTA
* * *
2039680 AATCGCAACGCGTAT-CTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATAC-GTAAATCGCAACGAGAATACGTAAATCGCAACGAGTATCCGTA
* * *
2039740 AATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 AATCGCAACG-CGAATACGT-AAATCGCAACGAGAATACGTAAATCGCAACG
2039791 CGATTTTTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
60 32 0.22
61 96 0.66
62 17 0.12
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (60 bp):
AATCGCAACGCGAATACGTAAATCGCAACGAGAATACGTAAATCGCAACGAGTATCCGTA
Found at i:2040389 original size:21 final size:20
Alignment explanation
Indices: 2040328--2040398 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
2040318 TTCTAAACTC
*
2040328 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
2040348 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
2040368 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
2040389 AAAATCGCAA
1 AAAATCGCAA
2040399 TAAGAGAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2040496 original size:15 final size:15
Alignment explanation
Indices: 2040456--2040500 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
2040446 TGCGATTTTA
2040456 ATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
* *
2040471 -TCTCTCGTTGCGAT
1 ATTTCGCGTTGCGAT
2040485 ATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
2040500 A
1 A
2040501 GTCATTTCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (15 bp):
ATTTCGCGTTGCGAT
Found at i:2040498 original size:29 final size:31
Alignment explanation
Indices: 2040426--2040499 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 31
2040416 GAAACCAAAA
*
2040426 TCGCATTGCGATTCTCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTCTCTCGTTGCGA--TTAATT
2040459 TCGCGTTGCGATTCTCTCGTTGCGA-T-ATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTAATT
2040488 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2040500 AGTCATTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 15 0.38
30 1 0.03
33 24 0.60
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (31 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTAATT
Found at i:2040536 original size:20 final size:18
Alignment explanation
Indices: 2040485--2040539 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 18
2040475 TCGTTGCGAT
2040485 ATTTCGCGTTGCGATAGTC
1 ATTTC-CGTTGCGATAGTC
2040504 ATTTCCGTATTGCGATAGTC
1 ATTTCCG--TTGCGATAGTC
2040524 ATTCTCTCGTTGCGAT
1 ATT-TC-CGTTGCGAT
2040540 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.06
19 5 0.16
20 21 0.66
21 2 0.06
22 2 0.06
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (18 bp):
ATTTCCGTTGCGATAGTC
Found at i:2042347 original size:82 final size:83
Alignment explanation
Indices: 2042210--2042554 Score: 386
Period size: 94 Copynumber: 3.9 Consensus size: 83
2042200 TAGATTGCTT
* * *
2042210 AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2042275 ATTTGTCTTTTGGTTG-A
66 ATTTGTCTTTTGGTTGAA
2042292 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAG-T--T
2042357 ATTTGTCTTTGATTTGTCTTTTGGTTGAA
63 A---G----T-ATTTGTCTTTTGGTTGAA
* * * *
2042386 AGTAAATTTGTACGGTTTCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2042451 ATTTGTCTTTGTTTTTTCTTTTGGTTGAA
66 A------TTTG-----TCTTTTGGTTGAA
* * * *
2042480 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2042545 ATTTGTCTTT
66 ATTTGTCTTT
2042555 GTTTTGTCTT
Statistics
Matches: 227, Mismatches: 13, Indels: 45
0.80 0.05 0.16
Matches are distributed among these distances:
82 57 0.25
83 7 0.03
84 1 0.00
85 2 0.01
88 6 0.03
89 4 0.02
91 2 0.01
92 1 0.00
93 17 0.07
94 130 0.57
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (83 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTTGGTTGAA
Found at i:2042435 original size:94 final size:93
Alignment explanation
Indices: 2042275--2042577 Score: 498
Period size: 94 Copynumber: 3.2 Consensus size: 93
2042265 TGAAGTTAGT
*
2042275 ATTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 ATTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
2042340 AACACTGTGAAGTTAGTATTTGTCTTTG
66 AACACTGTGAAGTTAGTATTTGTCTTTG
* *
2042368 ATTTGTCTTTTGGTTGAAAGTAAATTTGTACGGTTTCTGCCAATTCTGCTAAACTGTGTATTCTT
1 ATTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
*
2042433 TAACATTGTGAAGTTAGTATTTGTCTTTG
65 TAACACTGTGAAGTTAGTATTTGTCTTTG
* * *
2042462 TTTTTTCTTTTGGTTGAAAGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
1 ATTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTT
* *
2042527 TAATACTCTGAAGTTAGTATTTGTCTTTG
65 TAACACTGTGAAGTTAGTATTTGTCTTTG
*
2042556 TTTTGTCTTTTGGTTGAAGTAA
1 ATTTGTCTTTTGGTTGAAGTAA
2042578 TGCAATCCAT
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 22 0.11
94 174 0.89
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
ATTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
AACACTGTGAAGTTAGTATTTGTCTTTG
Found at i:2042725 original size:33 final size:33
Alignment explanation
Indices: 2042663--2042754 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
2042653 AAAAATGACT
*
2042663 ATCGCAACGCGAAATG--AATCGCAAAGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
2042694 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* **
2042727 ATCGCAATGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
2042755 CGAAACTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.28
33 38 0.72
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:2042829 original size:20 final size:20
Alignment explanation
Indices: 2042804--2042890 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
2042794 GATTATCTCG
**
2042804 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
2042824 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
2042844 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
2042864 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
2042884 TTGCGAT
1 TTGCGAT
2042891 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:2042900 original size:20 final size:20
Alignment explanation
Indices: 2042802--2042900 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
2042792 GCGATTATCT
*
2042802 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
2042822 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* * *
2042842 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
2042862 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
2042882 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
2042901 AGATTCTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 69 0.99
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:2044779 original size:14 final size:14
Alignment explanation
Indices: 2044760--2044795 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2044750 ATTGTTTAAT
2044760 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2044774 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2044788 TGATTTGT
1 TGATTTGT
2044796 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2044947 original size:33 final size:33
Alignment explanation
Indices: 2044897--2044991 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
2044887 AAAACAGACT
* **
2044897 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
2044931 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2044964 ATCGCAATGCAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2044992 CGTGCGATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 47 0.84
34 9 0.16
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2044954 original size:19 final size:19
Alignment explanation
Indices: 2044930--2044989 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
2044920 GCAACGAGAG
2044930 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2044949 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
2044963 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
2044982 AATCGCAA
1 AATCGCAA
2044990 CGCGTGCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 8 0.24
16 4 0.12
17 5 0.15
19 16 0.48
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2045049 original size:20 final size:20
Alignment explanation
Indices: 2045024--2045112 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
2045014 GCGATTCTCT
2045024 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
2045044 CGTTGCGATAGTCAATTCTG
1 CGTTGCGATAGTCATTTCCG
* *
2045064 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
2045084 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
2045104 CGTTGCGAT
1 CGTTGCGAT
2045113 TTTCGCGTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2045073 original size:40 final size:40
Alignment explanation
Indices: 2045026--2045112 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
2045016 GATTCTCTCG
2045026 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCTGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTC-GCA
* * *
2045066 TTGCGATAGTCATTTTCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
2045106 TTGCGAT
1 TTGCGAT
2045113 TTTCGCGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:2045731 original size:20 final size:20
Alignment explanation
Indices: 2045711--2046249 Score: 200
Period size: 20 Copynumber: 26.8 Consensus size: 20
2045701 CGATAGTCAG
*
2045711 AATCTCGTTGCGATTTACAG-
1 AATCGCGTTGCGATTTAC-GT
* *
2045731 ATTCGCATTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
* *
2045751 ATTCGCATTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
** *
2045771 AATCGTATTACGATTTACGT
1 AATCGCGTTGCGATTTACGT
*
2045791 ATTCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
2045811 AATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
2045831 AATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
* * * * *
2045851 ATTCGCGTTACGAATTAGGAA
1 AATCGCGTTGCGATTTACG-T
*** ** *
2045872 AATCGCAACGCGAATTTGGGA
1 AATCGCGTTGCG-ATTTACGT
** *
2045893 AATCGCAATGCGATAGT-CAG-
1 AATCGCGTTGCGAT-TTAC-GT
* * *
2045913 AATCGCGTTACG-TAT-CTGG
1 AATCGCGTTGCGATTTAC-GT
* ** *
2045932 AAACTGATTTGCGA--TACCGG
1 AATC-GCGTTGCGATTTA-CGT
* *
2045952 AGACCGCGTTGCGAATTATCG-
1 A-ATCGCGTTGCGATTTA-CGT
2045973 -ATCGCGTTGCGATTTACG-
1 AATCGCGTTGCGATTTACGT
* * *
2045991 GATACACATTGCGATTTTACGT
1 AAT-CGCGTTGCGA-TTTACGT
*
2046013 -ATTGTCGTTGCGATTTACG-
1 AATCG-CGTTGCGATTTACGT
* * *
2046032 GATACGCATTGCTATTTACGT
1 AAT-CGCGTTGCGATTTACGT
* *
2046053 ATTCTCGTTGCGATTTAC--
1 AATCGCGTTGCGATTTACGT
2046071 AGATACGCGTTGCGATTTACGT
1 A-AT-CGCGTTGCGATTTACGT
* **
2046093 ATTCTTGTTGCGATTTACG-
1 AATCGCGTTGCGATTTACGT
*
2046112 GATACGCGTTGCGATTTTACGT
1 AAT-CGCGTTGCGA-TTTACGT
*
2046134 -ATTGTCGTTGCGATTTACG-
1 AATCG-CGTTGCGATTTACGT
*
2046153 GATACGCGTTGCGATTTTACG-
1 AAT-CGCGTTGCGA-TTTACGT
* * *
2046174 GATACTCGTTGCGA-TAATCAG-
1 AAT-CGCGTTGCGATTTA-C-GT
* **
2046195 AATCACGTTGCGATTTATAT
1 AATCGCGTTGCGATTTACGT
** * *
2046215 GTTCGCGTTGCGATTTTCAT
1 AATCGCGTTGCGATTTACGT
*
2046235 ATTCGCGTTGCGATT
1 AATCGCGTTGCGATT
2046250 CTGGAAAATC
Statistics
Matches: 405, Mismatches: 78, Indels: 72
0.73 0.14 0.13
Matches are distributed among these distances:
18 6 0.01
19 26 0.06
20 280 0.69
21 83 0.20
22 10 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (20 bp):
AATCGCGTTGCGATTTACGT
Found at i:2045857 original size:40 final size:39
Alignment explanation
Indices: 2045710--2046249 Score: 251
Period size: 40 Copynumber: 13.4 Consensus size: 39
2045700 GCGATAGTCA
* *
2045710 GAATCTCGTTGCGATTTACAG-ATTCGCATTGCGATTTAC
1 GAATCGCGTTGCGATTTAC-GTATTCGCGTTGCGATTTAC
* * * ** *
2045749 GTATTCGCATTGCGATTTACGTAATCGTATTACGATTTAC
1 G-AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
* *
2045789 GTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
* * *
2045829 GTAATCGCGTTGCGATTTACGTATTCGCGTTACGAATTAG
1 G-AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
*** ** * * ** *
2045869 GAAAATCGCAACGCGAATTTGGGAAATCGCAATGCGATAGT-C
1 G--AATCGCGTTGCG-ATTTACGTATTCGCGTTGCGAT-TTAC
* * * ** **
2045911 AGAATCGCGTTACG-TAT-CTGGAAACTGATTTGCGA--TACC
1 -GAATCGCGTTGCGATTTAC-GTATTC-GCGTTGCGATTTA-C
* *
2045950 GGAGACCGCGTTGCGAATTATCG-A-TCGCGTTGCGATTTAC
1 -GA-ATCGCGTTGCGATTTA-CGTATTCGCGTTGCGATTTAC
* * *
2045990 GGATACACATTGCGATTTTACGTATT-GTCGTTGCGATTTAC
1 GAAT-CGCGTTGCGA-TTTACGTATTCG-CGTTGCGATTTAC
* * * *
2046031 GGATACGCATTGCTATTTACGTATTCTCGTTGCGATTTAC
1 GAAT-CGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
**
2046071 -AGATACGCGTTGCGATTTACGTATTCTTGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
*
2046111 GGATACGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTAC
1 GAAT-CGCGTTGCGA-TTTACGTATTCG-CGTTGCGATTTAC
* * * * *
2046152 GGATACGCGTTGCGATTTTACGGATACTCGTTGCGA-TAATC
1 GAAT-CGCGTTGCGA-TTTACGTATTCGCGTTGCGATTTA-C
* ** * *
2046193 AGAATCACGTTGCGATTTATATGTTCGCGTTGCGATTTTC
1 -GAATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
2046233 -ATATTCGCGTTGCGATT
1 GA-A-TCGCGTTGCGATT
2046250 CTGGAAAATC
Statistics
Matches: 391, Mismatches: 78, Indels: 63
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 2 0.01
39 30 0.08
40 224 0.57
41 113 0.29
42 18 0.05
43 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (39 bp):
GAATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTAC
Found at i:2045857 original size:60 final size:60
Alignment explanation
Indices: 2045711--2046249 Score: 250
Period size: 60 Copynumber: 8.9 Consensus size: 60
2045701 CGATAGTCAG
* * * *
2045711 AATCTCGTTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 AATCGCGTTGCGATTTAC-GTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
** *
2045771 AATCGTATTACGATTTACGTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
* * * * *** ** *
2045831 AATCGCGTTGCGATTTACGTATTCGCGTTACGAATTAGGAAAATCGCAACGCGAATTTGGGA
1 AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACG-TAATCGCGTTGCG-ATTTACGT
** * * * * * * ** *
2045893 AATCGCAATGCGATAGT-CAG-AATCGCGTTACG-TAT-CTGGAAACTGATTTGCGA--TACCGG
1 AATCGCGTTGCGAT-TTAC-GTATTCGCGTTGCGATTTAC-GTAATC-GCGTTGCGATTTA-CGT
* * * * *
2045952 AGACCGCGTTGCGAATTATCG-A-TCGCGTTGCGATTTACG-GATACACATTGCGATTTTACGT
1 A-ATCGCGTTGCGATTTA-CGTATTCGCGTTGCGATTTACGTAAT-CGCGTTGCGA-TTTACGT
* * * * * * *
2046013 -ATTGTCGTTGCGATTTACGGATACGCATTGCTATTTACGTATTCTCGTTGCGATTTAC--
1 AATCG-CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
** *
2046071 AGATACGCGTTGCGATTTACGTATTCTTGTTGCGATTTACG-GATACGCGTTGCGATTTTACGT
1 A-AT-CGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAAT-CGCGTTGCGA-TTTACGT
* * * * * *
2046134 -ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACG-GATACTCGTTGCGA-TAATCAG-
1 AATCG-CGTTGCGATTTACGTATTCGCGTTGCGA-TTTACGTAAT-CGCGTTGCGATTTA-C-GT
* ** * * * *
2046195 AATCACGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATT
2046250 CTGGAAAATC
Statistics
Matches: 356, Mismatches: 88, Indels: 69
0.69 0.17 0.13
Matches are distributed among these distances:
58 1 0.00
59 25 0.07
60 175 0.49
61 99 0.28
62 54 0.15
63 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (60 bp):
AATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
Found at i:2045885 original size:21 final size:21
Alignment explanation
Indices: 2045861--2045905 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2045851 ATTCGCGTTA
2045861 CGAATTAGGAAAATCGCAACG
1 CGAATTAGGAAAATCGCAACG
* * *
2045882 CGAATTTGGGAAATCGCAATG
1 CGAATTAGGAAAATCGCAACG
2045903 CGA
1 CGA
2045906 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACG
Found at i:2046024 original size:41 final size:41
Alignment explanation
Indices: 2045977--2046188 Score: 320
Period size: 41 Copynumber: 5.2 Consensus size: 41
2045967 TTATCGATCG
* * *
2045977 CGTTGCGATTTACGGATACACATTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2046018 CGTTGCGATTTACGGATACGCATTGCTA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
2046058 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2046098 TGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2046139 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
2046180 CGTTGCGAT
1 CGTTGCGAT
2046189 AATCAGAATC
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 74 0.47
41 83 0.53
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:2046224 original size:81 final size:80
Alignment explanation
Indices: 2045974--2046249 Score: 272
Period size: 81 Copynumber: 3.4 Consensus size: 80
2045964 GAATTATCGA
* * * *
2045974 TCGCGTTGCGATTTACGGATACACATTGCGATTTTACGTATTGTCGTTGCGATTTACGGAT-ACG
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATCACG
* ** *
2046038 CATTGCTATTTACGTAT
66 --TTGCGATTTATATGT
* * *
2046055 TCTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTTGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGAT-CAC
*
2046119 GTTGCGATTT-TACGT
65 GTTGCGATTTATATGT
* * * * * *
2046134 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGA-TAATCAGAAT
1 -TCG-CGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTA-C-GGAT
2046198 CACGTTGCGATTTATATGT
62 CACGTTGCGATTTATATGT
* * *
2046217 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATT
2046250 CTGGAAAATC
Statistics
Matches: 160, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 36 0.22
81 82 0.51
82 34 0.21
83 7 0.04
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (80 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATCACG
TTGCGATTTATATGT
Found at i:2046313 original size:20 final size:19
Alignment explanation
Indices: 2046264--2046317 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2046254 AAAATCGCAA
2046264 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
2046283 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
2046304 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2046318 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:2046475 original size:15 final size:15
Alignment explanation
Indices: 2046457--2046507 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
2046447 AACTATATAC
2046457 TATATTAATATAAAT
1 TATATTAATATAAAT
*
2046472 TATAGTTAAGAT-AAT
1 TATA-TTAATATAAAT
* *
2046487 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
2046503 TATAT
1 TATAT
2046508 AGTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:2046514 original size:22 final size:22
Alignment explanation
Indices: 2046489--2046591 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
2046479 AAGATAATTA
2046489 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
2046511 ACATTAATATAAAC--TATAGT
1 ACATTAATATAAACTATATAGT
** * * *
2046531 TTATAAATTATATACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* *
2046553 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
*
2046575 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
2046592 TGTTTATAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 10 0.15
21 22 0.34
22 28 0.43
23 5 0.08
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:2046547 original size:21 final size:21
Alignment explanation
Indices: 2046518--2046570 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2046508 AGTACATTAA
* *
2046518 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
2046539 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
2046560 TATAAACTATA
1 TATAAACTATA
2046571 TAGTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:2046606 original size:21 final size:20
Alignment explanation
Indices: 2046516--2046606 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 20
2046506 ATAGTACATT
2046516 AATATAAACTATAGTTTATA
1 AATATAAACTATAGTTTATA
* *
2046536 AATTATATACTATAGGTTATA
1 AA-TATAAACTATAGTTTATA
* *
2046557 AAGTATAAACTATA-TAGTACA
1 AA-TATAAACTATAGT-TTATA
*
2046578 CTAATATAAACTATTGTTTATA
1 --AATATAAACTATAGTTTATA
2046600 AACTATA
1 AA-TATA
2046607 CGTTATATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
20 4 0.07
21 35 0.64
22 13 0.24
23 3 0.05
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATAAACTATAGTTTATA
Found at i:2046621 original size:6 final size:6
Alignment explanation
Indices: 2046610--2047980 Score: 490
Period size: 6 Copynumber: 228.3 Consensus size: 6
2046600 AACTATACGT
* * * * *
2046610 TATATA TATATA TATATA -ATTTA TATA-A CATATA AATAGA T-TGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * *
2046655 TATATA CATATA CTATAGA T-TATA TATATA TATAGTT TATATA TACTATA
1 TATATA TATATA -TATATA TATATA TATATA TATA-TA TATATA TA-TATA
* * * * * * *
2046705 CATAGTT TATATA TACATG TACTATA -AGT-TA CATATA TAGTTTA TACATA
1 TATA-TA TATATA TATATA TA-TATA TA-TATA TATATA TA-TATA TATATA
* * * * * * **
2046755 TACATA TACATA TACATA TACATA TACATA TA-ATA TATACA TATGCA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
2046802 TACATA TACTATA -ATATA AATATA TA-ATA TACATA TACATA T-TATCA
1 TATATA TA-TATA TATATA TATATA TATATA TATATA TATATA TATAT-A
* * * *
2046849 TATACTA TACATA TACTATCA T-TATG TATATT TATATA AATATA CTATATA
1 TATA-TA TATATA TA-TAT-A TATATA TATATA TATATA TATATA -TATATA
* * * * * * *
2046900 TATATA TACTATA GATACA TATACA TATACA TATACA TATACA TATACA
1 TATATA TA-TATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
2046949 TATACA TA-ATA TA-AT- TATACA -ACATA TACATA TACATA TACA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2046992 TACATA TACATA TACATA TACATA TACATA TACATA TATATA CATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2047040 CATACA TATACA TATACA TATACA TATACTA TACA-A TACATA TACATA
1 TATATA TATATA TATATA TATATA TATA-TA TATATA TATATA TATATA
* * * * * * * *
2047088 TACATA CATATA CATATA CATATA CATATA CATATA CATATA CAT-TA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2047135 CATA-A CATATA CATATA CATATA CATACA TACATA TACA-A TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2047181 TACATA TCATATA CATATA CATATA CATATA CATATA CATATA TACATA
1 TATATA T-ATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2047230 TACATA TACATA TACATA TACA-A TACATA TACATA TACATA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2047277 TACATA TACATA TACATA TATACA TATACA TATACA TATACA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
2047325 TACATA TACATA TACATA TACATA TATACA TAGACA TATACA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2047373 TATATA TACATA TACA-A TATACA TATACA TATACA TATACA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2047420 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
2047468 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2047516 TATACTA TACATA TACATA TACATA TACATA TACATA TACAT- TACATA
1 TATA-TA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * ** * * *
2047564 TACATA TACATA TACATA TCTACA TATACC TATACA TATCACA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA TAT-ATA TATATA
* * * * * * *
2047613 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TCATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA T-ATATA
* * * * * * * *
2047662 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2047710 CATACTA TCTATA CATATA CATATCA TA-ATA TACATA TACATA CATATA
1 TATA-TA TATATA TATATA TATAT-A TATATA TATATA TATATA TATATA
* * * * * * * *
2047759 CATATA TACATA TACATA TACATA TACATA TACATA TACATGA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATAT-A TATATA
* * * * * * * *
2047808 TACA-A TACATA TACATA TACATA TACATA CATATA CTATACA TATACA
1 TATATA TATATA TATATA TATATA TATATA TATATA -TATATA TATATA
* * * * * * *
2047856 TATCATA TACATA TA-ATA CATATA CATACA TATACA TACATA TACATA
1 TAT-ATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
2047904 TACATA TACATA TACATA TACATA TCATATA CATATA CATATA CATATA
1 TATATA TATATA TATATA TATATA T-ATATA TATATA TATATA TATATA
* * *
2047953 CATATCA TATACA TATACTA TACATA TA
1 TATAT-A TATATA TATA-TA TATATA TA
2047981 GGTTACATAT
Statistics
Matches: 1195, Mismatches: 119, Indels: 102
0.84 0.08 0.07
Matches are distributed among these distances:
4 2 0.00
5 96 0.08
6 994 0.83
7 100 0.08
8 3 0.00
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (6 bp):
TATATA
Found at i:2046623 original size:24 final size:22
Alignment explanation
Indices: 2046596--2046688 Score: 66
Period size: 24 Copynumber: 4.2 Consensus size: 22
2046586 AACTATTGTT
2046596 TATAAACTATACGTTATATATATA
1 TATAAA-TATA-GTTATATATATA
* * *
2046620 TATATATA-ATTTATATA-ACA
1 TATAAATATAGTTATATATATA
* *
2046640 TATAAATAGA-TTGTATATATA
1 TATAAATATAGTTATATATATA
* *
2046661 CATATACTATAGATTATATATATA
1 TATA-AATATAG-TTATATATATA
2046685 TATA
1 TATA
2046689 GTTTATATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
20 15 0.28
21 13 0.25
22 5 0.09
23 2 0.04
24 18 0.34
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (22 bp):
TATAAATATAGTTATATATATA
Found at i:2046680 original size:37 final size:37
Alignment explanation
Indices: 2046639--2046719 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 37
2046629 TTTATATAAC
*
2046639 ATATAAATAGA-TTGTATATATACATATACTATAGATTAT
1 ATATATATAGAGTT-TATATATAC-TATAC-ATAGATTAT
* *
2046678 ATATATATATAGTTTATATATACTATACATAGTTTAT
1 ATATATATAGAGTTTATATATACTATACATAGATTAT
2046715 ATATA
1 ATATA
2046720 CATGTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 13 0.34
38 5 0.13
39 18 0.47
40 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATATAGAGTTTATATATACTATACATAGATTAT
Found at i:2046756 original size:59 final size:58
Alignment explanation
Indices: 2046617--2047978 Score: 427
Period size: 61 Copynumber: 23.5 Consensus size: 58
2046607 CGTTATATAT
* ** * *
2046617 ATATATATATAATTTATATAACATATAAATAGATTGTATATATACATATACTATAGATTAT
1 ATATATATATAGTACATAT-ACATATACATAG-TT-TATATATACATATACTATAGATTAC
* *
2046678 ATATATATATAGTTTATATATAC-TATACATAGTTTATATATACATGTACTATA-AGTTAC
1 ATATATATATAG--TACATATACATATACATAGTTTATATATACATATACTATAGA-TTAC
* * *
2046737 ATATATAGTTTA-TACATATACATATACATA---TACATATACATATACATATAATATATAC
1 ATATATA-TATAGTACATATACATATACATAGTTTATATATACATATAC-TAT-AGAT-TAC
* * *
2046795 ATATGCATACATA-TAC-TATA-ATATAAATA-TATA-ATATACATATAC-AT--ATTATC
1 ATAT--ATATATAGTACATATACATATACATAGTTTATATATACATATACTATAGATTA-C
** *
2046848 ATATACTATACATA-TAC-TAT-CATTATGTATA-TTTATATA-A-ATATACTAT--A-TAT
1 ATATA-TAT--ATAGTACATATACA-TATACATAGTTTATATATACATATACTATAGATTAC
* *
2046901 ATATATACTATAGATACATATACATATACATA---TACATATACATATACATATACA-TA-
1 ATATATA-TATAG-TACATATACATATACATAGTTTATATATACATATAC-TATAGATTAC
** * * *
2046957 ATATA-ATTATACAACATATACATATACATA-TACAATACATATACATATACATATACATATAC
1 ATATATA-TATAGTACATATACATATACATAGT---TTATATATACATATAC-TATAGAT-TAC
* * * * * * *
2047019 ATATACATATATA-TACATATACATACATATACATATACATATACATATACTATACAATAC
1 ATAT--ATATATAGTACATATACATATACATA-GTTTATATATACATATACTATAGATTAC
* * * *
2047079 ATATACATATACATACATATACATATACATA---TACATATACATATACATATACATTAC
1 ATATATATATA-GTACATATACATATACATAGTTTATATATACATATAC-TATAGATTAC
* ** *
2047136 --ATA-ACATA-TACATATACATATACATA-CATACATATACA-ATAC-AT--A-TAC
1 ATATATATATAGTACATATACATATACATAGTTTATATATACATATACTATAGATTAC
** *
2047184 ATATCATATACATA-TACATATACATATACATA-TACATATATACATATACATATACATATAC
1 ATAT-ATAT--ATAGTACATATACATATACATAGTTTATATATACATATAC-TATAGAT-TAC
* * *
2047245 ATATACAATACATA-TACATATACATATACATA---TACATATACATATACATATATACATATAC
1 ATAT---ATATATAGTACATATACATATACATAGTTTATATATACATATAC---TATAGAT-TAC
* * ** * *
2047306 ATATACATATACATACATATACATATACATA-TACATATACATATATAC-ATAGACATATAC
1 ATATATATATA-GTACATATACATATACATAGTTTATATATACATATACTATAG--AT-TAC
* *
2047366 ATATACATATATA-TACATATACAATATACATA---TACATATACATATACATATACATATAC
1 ATAT--ATATATAGTACATATAC-ATATACATAGTTTATATATACATATAC-TATAGAT-TAC
* * * *
2047425 --ATATACATA-TACATATACATATACATA-TACATATACATACATATACATATACATATAC
1 ATATATATATAGTACATATACATATACATAGT--TTATATATACATATAC-TATAGAT-TAC
* *
2047483 --ATATACATA-TACATATACATATACATA-TATACATATACTATACATATACATATACATATAC
1 ATATATATATAGTACATATACATATACATAGT-T---TATA-TATACATATAC-TATAGAT-TAC
* * ** * *
2047544 ATATACATATACATTACATATACATATACATA-TACATATCTACATATACCTATACATATCAC
1 ATAT--ATATATAGTACATATACATATACATAGTTTATATATACATATA-CTATAGAT-T-AC
* * *
2047606 ATATACATACATA-TACATATACATATACATA---TACATATACATATAC-ATATCATATAC
1 ATAT--ATATATAGTACATATACATATACATAGTTTATATATACATATACTATA-GAT-TAC
* **
2047663 ATATACATATACATA-TACATATACATATACATA---TACATATACATATACATACTATCTATAC
1 ATAT--ATAT--ATAGTACATATACATATACATAGTTTATATATACATATAC-TA-TAGAT-TAC
* * * *
2047724 ATATACATATCA-TA-ATATACATATACATACATATACATATATACATATACATATACATATAC
1 ATATATATAT-AGTACATATACATATACATA-GT-T-TATATATACATATAC-TATAGAT-TAC
* *
2047786 --ATATACATA-TACATGATACATATACA-A---TACATATACATATAC-AT--A-TAC
1 ATATATATATAGTACAT-ATACATATACATAGTTTATATATACATATACTATAGATTAC
* ** *
2047834 ATACATATACTA-TACATATACATAT-CATA-TACATATAATACATATAC-ATACATATAC
1 ATATATATA-TAGTACATATACATATACATAGTTTATAT-ATACATATACTATAGAT-TAC
* * *
2047891 ATACATATACATA-TACATATACATATACATA---TACATAT-CATATACATATACATATAC
1 AT--ATATATATAGTACATATACATATACATAGTTTATATATACATATAC-TATAGAT-TAC
2047948 ATATACATATCATA-TACATATAC-TATACATA
1 ATAT--ATAT-ATAGTACATATACATATACATA
2047979 TAGGTTACAT
Statistics
Matches: 1085, Mismatches: 90, Indels: 256
0.76 0.06 0.18
Matches are distributed among these distances:
48 6 0.01
49 3 0.00
50 17 0.02
51 14 0.01
52 35 0.03
53 33 0.03
54 116 0.11
55 68 0.06
56 30 0.03
57 96 0.09
58 136 0.13
59 150 0.14
60 81 0.07
61 162 0.15
62 65 0.06
63 42 0.04
64 5 0.00
65 7 0.01
66 19 0.02
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (58 bp):
ATATATATATAGTACATATACATATACATAGTTTATATATACATATACTATAGATTAC
Found at i:2046770 original size:18 final size:18
Alignment explanation
Indices: 2046747--2047980 Score: 1667
Period size: 18 Copynumber: 69.9 Consensus size: 18
2046737 ATATATAGTT
2046747 TATACATATACATATACA
1 TATACATATACATATACA
2046765 TATACATATACATATACA
1 TATACATATACATATACA
* *
2046783 TATAATATATACATATGC-
1 TAT-ACATATACATATACA
2046801 -ATACATATAC-TATA-A
1 TATACATATACATATACA
* *
2046816 TATAAATATATAATATACA
1 TATACATATA-CATATACA
2046835 TATACATATTATCATATAC-
1 TATACATA-TA-CATATACA
2046854 TATACATATAC-TAT-CA
1 TATACATATACATATACA
** ** *
2046870 TTATGTATATTTATATAAA
1 -TATACATATACATATACA
* *
2046889 TATAC-TATATATATATA
1 TATACATATACATATACA
* *
2046906 TACTATAGATACATATACA
1 TA-TACATATACATATACA
2046925 TATACATATACATATACA
1 TATACATATACATATACA
*
2046943 TATACATATACATAATATAA
1 TATACATATACAT-ATA-CA
2046963 TTATAC--A-ACATATACA
1 -TATACATATACATATACA
2046979 TATACATATACA-ATACA
1 TATACATATACATATACA
2046996 TATACATATACATATACA
1 TATACATATACATATACA
2047014 TATACATATACATAT--A
1 TATACATATACATATACA
2047030 TATACATATAC--ATACA
1 TATACATATACATATACA
2047046 TATACATATACATATACA
1 TATACATATACATATACA
2047064 TATAC-TATACA-ATACA
1 TATACATATACATATACA
2047080 TATACATATAC--ATACA
1 TATACATATACATATACA
2047096 TATACATATACATATACA
1 TATACATATACATATACA
2047114 TATACATATACATATACA
1 TATACATATACATATACA
2047132 T-TACATA-ACATATACA
1 TATACATATACATATACA
2047148 TATACATATACATACATACA
1 TATACATATACAT--ATACA
2047168 TATACA-ATACATATACA
1 TATACATATACATATACA
2047185 TAT-CATATACATATACA
1 TATACATATACATATACA
2047202 TATACATATACATATACATA
1 TATACATATACATATAC--A
2047222 TATACATATACATATACA
1 TATACATATACATATACA
2047240 TATACATATACA-ATACA
1 TATACATATACATATACA
2047257 TATACATATACATATACA
1 TATACATATACATATACA
2047275 TATACATATACATATACATA
1 TATACATATACATATAC--A
2047295 TATACATATACATATACA
1 TATACATATACATATACA
2047313 TATAC--ATACATATACA
1 TATACATATACATATACA
2047329 TATACATATACATATACATA
1 TATACATATACATATAC--A
*
2047349 TATACATAGACATATACA
1 TATACATATACATATACA
2047367 TATACATAT--ATATACA
1 TATACATATACATATACA
2047383 TATACAATATACATATACA
1 TATAC-ATATACATATACA
2047402 TATACATATACATATACA
1 TATACATATACATATACA
2047420 TATACATATACATATACA
1 TATACATATACATATACA
2047438 TATACATATACATATACA
1 TATACATATACATATACA
2047456 TATAC--ATACATATACA
1 TATACATATACATATACA
2047472 TATACATATACATATACA
1 TATACATATACATATACA
2047490 TATACATATACATATACATA
1 TATACATATACATATAC--A
2047510 TATACATATAC-TATACA
1 TATACATATACATATACA
2047527 TATACATATACATATACA
1 TATACATATACATATACA
2047545 TATACATATACAT-TACA
1 TATACATATACATATACA
2047562 TATACATATACATATACA
1 TATACATATACATATACA
*
2047580 TATCTACATATACCTATACA
1 TA--TACATATACATATACA
2047600 TATCACATATAC--ATACA
1 TAT-ACATATACATATACA
2047617 TATACATATACATATACA
1 TATACATATACATATACA
2047635 TATACATATACATATACA
1 TATACATATACATATACA
2047653 TAT-CATATACATATACA
1 TATACATATACATATACA
2047670 TATACATATACATATACA
1 TATACATATACATATACA
2047688 TATACATATACATATACA
1 TATACATATACATATACA
2047706 TATACATACTATC-TATACA
1 TATACATA-TA-CATATACA
*
2047725 TATACATATCATAATATACA
1 TATACATAT-A-CATATACA
2047745 TATAC--ATACATATACATA
1 TATACATATACATATAC--A
2047763 TATACATATACATATACA
1 TATACATATACATATACA
2047781 TATACATATACATATACA
1 TATACATATACATATACA
2047799 TGATACATATACA-ATACA
1 T-ATACATATACATATACA
2047817 TATACATATACATATAC-
1 TATACATATACATATACA
2047834 -ATACATATAC-TATACA
1 TATACATATACATATACA
2047850 TATACATAT-CATATACA
1 TATACATATACATATACA
2047867 TAT--A-ATACATATAC-
1 TATACATATACATATACA
2047881 -ATACATATAC--ATACA
1 TATACATATACATATACA
2047896 TATACATATACATATACA
1 TATACATATACATATACA
2047914 TATACATATACATAT-CA
1 TATACATATACATATACA
2047931 TATACATATACATATACA
1 TATACATATACATATACA
2047949 TATACATAT-CATATACA
1 TATACATATACATATACA
2047966 TATAC-TATACATATA
1 TATACATATACATATA
2047981 GGTTACATAT
Statistics
Matches: 1106, Mismatches: 30, Indels: 161
0.85 0.02 0.12
Matches are distributed among these distances:
13 2 0.00
14 8 0.01
15 23 0.02
16 167 0.15
17 228 0.21
18 444 0.40
19 104 0.09
20 125 0.11
21 5 0.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (18 bp):
TATACATATACATATACA
Found at i:2048273 original size:17 final size:15
Alignment explanation
Indices: 2048236--2048271 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2048226 CTATATATTT
2048236 TATATAGTTTATACA
1 TATATAGTTTATACA
*
2048251 TATATAGTTTATATA
1 TATATAGTTTATACA
2048266 TATATA
1 TATATA
2048272 TATAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:2048598 original size:2 final size:2
Alignment explanation
Indices: 2048591--2048704 Score: 65
Period size: 2 Copynumber: 56.0 Consensus size: 2
2048581 ACTTTGAATA
* *
2048591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T AT AGT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * * *
2048633 AA ACT AT AT ACT TT TT AT AGT TT AT AC AT AT AT AGT TT AT AT AT
1 AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT
*
2048677 AA ACT -T AT AT -T AT AT AT AT AT -T AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
2048705 TTTTTTAATT
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
1 4 0.05
2 77 0.90
3 5 0.06
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2061112 original size:21 final size:21
Alignment explanation
Indices: 2061070--2061112 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2061060 TTTCTGGGTT
* * *
2061070 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2061091 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2061112 A
1 A
2061113 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2061172 original size:66 final size:69
Alignment explanation
Indices: 2061092--2061244 Score: 222
Period size: 67 Copynumber: 2.2 Consensus size: 69
2061082 ACCCATTCAA
*
2061092 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
2061156 -G-G
66 GGTG
* * * *
2061158 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
2061223 GGGTG
66 -GGTG
*
2061228 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2061245 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
66 22 0.29
67 37 0.48
69 1 0.01
70 17 0.22
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGTG
Found at i:2061280 original size:13 final size:14
Alignment explanation
Indices: 2061247--2061282 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2061237 ATTCCCCCAT
2061247 GAGAA-AAA-AAAA
1 GAGAAGAAAGAAAA
2061259 GAGAAGAAAGAAAA
1 GAGAAGAAAGAAAA
2061273 GA-AAGAAAGA
1 GAGAAGAAAGA
2061283 CTAAGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 11 0.50
14 6 0.27
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
GAGAAGAAAGAAAA
Done.