Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 12
Found at i:159425 original size:60 final size:59
Alignment explanation
Indices: 159332--159468 Score: 193
Period size: 60 Copynumber: 2.3 Consensus size: 59
159322 ACGGATATGA
* * * *
159332 ATAGTCGGGTGACTATTTTGTAACTTTTAATAGTCGGGAGACTTAACAAAATAACACCTT
1 ATAGTCGGG-GACCATTTTATAACTTTTAATAGTCGGGAGACTCAACAAAATAACACCCT
* * *
159392 ATAGTCGGAGGATCATTTTATAACTTTTAATAGTCGGGAGACTCAATAAAATAATACCCT
1 ATAGTCGG-GGACCATTTTATAACTTTTAATAGTCGGGAGACTCAACAAAATAACACCCT
159452 ATAGTCGGGGACCATTT
1 ATAGTCGGGGACCATTT
159469 GTGTACTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 8 0.12
60 59 0.87
61 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (59 bp):
ATAGTCGGGGACCATTTTATAACTTTTAATAGTCGGGAGACTCAACAAAATAACACCCT
Found at i:161446 original size:4 final size:4
Alignment explanation
Indices: 161428--161469 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
161418 TAAATATGTT
* * *
161428 TATA TAAA TAAA TATA TATA TATA TATA TATA TATA GATA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
161470 GAACGAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:161471 original size:6 final size:6
Alignment explanation
Indices: 161428--161469 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
161418 TAAATATGTT
* * *
161428 TATATA AATAAA TATATA TATATA TATATA TATATA GATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA
161470 GAACGAACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:164023 original size:41 final size:41
Alignment explanation
Indices: 163971--164105 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 41
163961 GTATTATTGA
* *
163971 AAAAAATTAGAGACCTCAATT-TAAAAGGTAAAAAGTGAATT
1 AAAAAACTAGAGACATCAATTAT-AAAGGTAAAAAGTGAATT
*
164012 AAAAAACTAGAGACATCAATTATAAAGGTAAAATGTGAGATT
1 AAAAAACTAGAGACATCAATTATAAAGGTAAAAAGTGA-ATT
* * **
164054 GAAATAAAATTAG-GTTCATCAATTATAAATATAAAAAAGTGGAATT
1 --AA-AAAACTAGAG-ACATCAATTATAAAGGT-AAAAAGT-GAATT
164100 AAAAAA
1 AAAAAA
164106 ATTAATAATC
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
41 33 0.42
42 4 0.05
43 4 0.05
44 5 0.06
45 21 0.27
46 9 0.12
47 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (41 bp):
AAAAAACTAGAGACATCAATTATAAAGGTAAAAAGTGAATT
Found at i:164165 original size:43 final size:43
Alignment explanation
Indices: 163930--164177 Score: 172
Period size: 43 Copynumber: 5.7 Consensus size: 43
163920 AAAAAGTATT
* *
163930 AAATTATG-GCCTTGAATTATAAAAATAAAAAGT-ATTATTGAAAA
1 AAATTATGAGCC-TCAATTATAAAAATAAAAAGTGA-GATT-AAAA
*
163974 AAATTA-GAGACCTCAATT-TAAAAGGTAAAAAGTGA-ATT-AAA
1 AAATTATGAG-CCTCAATTATAAAA-ATAAAAAGTGAGATTAAAA
* * ** *
164015 AAACTA-GAGACATCAATTATAAAGGTAAAATGTGAGATTGAAATA
1 AAATTATGAG-CCTCAATTATAAAAATAAAAAGTGAGATT-AAA-A
* ** * *
164060 AAATTAGGTTCATCAATTATAAATATAAAAAAGTG-GAATTAAAA
1 AAATTATGAGCCTCAATTATAAAAAT-AAAAAGTGAG-ATTAAAA
* * *
164104 AAATTAATAATCCT-AATTATAAAAATAAAAAGTGAGATTACAA
1 AAATT-ATGAGCCTCAATTATAAAAATAAAAAGTGAGATTAAAA
**
164147 AAATTATGAGCCTCAATTATAAGTATAAAAA
1 AAATTATGAGCCTCAATTATAAAAATAAAAA
164178 ATAAAACTAA
Statistics
Matches: 167, Mismatches: 22, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
41 29 0.17
42 13 0.08
43 43 0.26
44 40 0.24
45 31 0.19
46 11 0.07
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (43 bp):
AAATTATGAGCCTCAATTATAAAAATAAAAAGTGAGATTAAAA
Found at i:164166 original size:87 final size:85
Alignment explanation
Indices: 163944--164178 Score: 225
Period size: 87 Copynumber: 2.7 Consensus size: 85
163934 TATGGCCTTG
*
163944 AATTATAAAAATAAAAAGT-ATTATTGAAAAAAATTAGAGACCTCAATT-TAAA-AGGT-AAAAA
1 AATTATAAAAATAAAAAGTGA-GATTGAAAAAAATTAGAG-CCTCAATTATAAATA--TAAAAAA
164005 GTGAATTAAAAAACTAGAGACATC
62 GTGAATTAAAAAACTAGAGACATC
** * *
164029 AATTATAAAGGTAAAATGTGAGATTGAAATAAAATTAG-GTTCATCAATTATAAATATAAAAAAG
1 AATTATAAAAATAAAAAGTGAGATTGAAA-AAAATTAGAG--CCTCAATTATAAATATAAAAAAG
* *
164093 TGGAATTAAAAAAATTA-ATA-ATCC
63 T-GAATT-AAAAAACTAGAGACAT-C
* *
164117 TAATTATAAAAATAAAAAGTGAGATT-ACAAAAATTATGAGCCTCAATTATAAGTATAAAAAA
1 -AATTATAAAAATAAAAAGTGAGATTGAAAAAAATTA-GAGCCTCAATTATAAATATAAAAAA
164179 TAAAACTAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
85 24 0.19
86 17 0.14
87 40 0.32
88 12 0.10
89 31 0.25
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.27
Consensus pattern (85 bp):
AATTATAAAAATAAAAAGTGAGATTGAAAAAAATTAGAGCCTCAATTATAAATATAAAAAAGTGA
ATTAAAAAACTAGAGACATC
Found at i:164817 original size:100 final size:99
Alignment explanation
Indices: 164663--164843 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 99
164653 TAATTTTTAT
* * * *
164663 ATAACATTTCCGTTGAGTGGTTAATCAGAATTAACGAATGAGAAACTAAAATTGAACAG-ACTGA
1 ATAACACTTCCGTTGAGTGGTTAACCAGAAATAACGAACGAGAAACTAAAATTGAACAGAAC-GA
*
164727 TAACGTAATGAACTCAAATTATTTTTTTAAAAACCG
65 TAACATAATGAAC-CAAATTATTTTTTTAAAAACCG
** * *
164763 ATAACACTTCCGTTGAGTGGTTAACCAGAAATAACGGCCGAGGAACTAAAATTGAATAGAACGAT
1 ATAACACTTCCGTTGAGTGGTTAACCAGAAATAACGAACGAGAAACTAAAATTGAACAGAACGAT
164828 AACATAATGAACCAAA
66 AACATAATGAACCAAA
164844 ACTATTCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
99 4 0.06
100 65 0.92
101 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (99 bp):
ATAACACTTCCGTTGAGTGGTTAACCAGAAATAACGAACGAGAAACTAAAATTGAACAGAACGAT
AACATAATGAACCAAATTATTTTTTTAAAAACCG
Found at i:165944 original size:61 final size:61
Alignment explanation
Indices: 165839--165960 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 61
165829 AATGACCAAC
* * ** * *
165839 AAATTCGCAACGCGAACTTCAATTTCACAACTCGAATTTCTTTTCCGCAATGC-AATTTTAT
1 AAATTCGCAACGCGAACGTCAAATTCACAAAGCGAATTTATTTT-CGCAACGCGAATTTTAT
**
165900 AAATTCGCAACGCAGAA-GTCAAATTCACAAAGCGCGTTTATTTTCGCAACGCGAATTTTAT
1 AAATTCGCAACGC-GAACGTCAAATTCACAAAGCGAATTTATTTTCGCAACGCGAATTTTAT
165961 TTTCGAATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 7 0.14
61 41 0.80
62 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (61 bp):
AAATTCGCAACGCGAACGTCAAATTCACAAAGCGAATTTATTTTCGCAACGCGAATTTTAT
Found at i:166106 original size:22 final size:22
Alignment explanation
Indices: 166081--166127 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
166071 TCTCTCCGAC
*
166081 GACATCCGTCCCCATCTCCGGT
1 GACATCCGTCCCCATATCCGGT
166103 GACATCCGTCCCCATATCCGGT
1 GACATCCGTCCCCATATCCGGT
166125 GAC
1 GAC
166128 CTCCCTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.43, G:0.19, T:0.21
Consensus pattern (22 bp):
GACATCCGTCCCCATATCCGGT
Found at i:166499 original size:20 final size:20
Alignment explanation
Indices: 166462--166500 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
166452 TTTGAAACTT
*
166462 AAATTCGCAAAACGAAAATG
1 AAATTCGCAAAACAAAAATG
*
166482 AAATTCGCAACACAAAAAT
1 AAATTCGCAAAACAAAAAT
166501 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.18, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATTCGCAAAACAAAAATG
Found at i:168093 original size:42 final size:42
Alignment explanation
Indices: 168034--168130 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
168024 CCCCCCACTT
* *
168034 CGAGAGCCATCACCTGATCGAGCCGATTCTACAGCT-TGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCT-ACAC
*
168076 CGAGAGCCATCACCTGATCGGGCCGATTATACACCTCTACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCTACAC
168118 CGAGAGCCATCAC
1 CGAGAGCCATCAC
168131 TTATTCCATC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.21, T:0.18
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCTACAC
Found at i:168735 original size:21 final size:21
Alignment explanation
Indices: 168705--168800 Score: 122
Period size: 21 Copynumber: 4.6 Consensus size: 21
168695 TTCACCTATC
*
168705 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
168726 ATCATTCAAGAGACCCCTTCT
1 ATCGTTCAAGAGGCCCCTCCT
*
168747 ATCGTTCAATAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
*
168767 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
168789 ATCGTTCAAGAG
1 ATCGTTCAAGAG
168801 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.95
22 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:170532 original size:18 final size:18
Alignment explanation
Indices: 170509--170544 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
170499 AAGCCGGTTG
*
170509 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
*
170527 TGATTGCGATTTTTATTT
1 TGATTGCGATTTTGATTT
170545 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.22, T:0.58
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:172847 original size:24 final size:24
Alignment explanation
Indices: 172796--172850 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
172786 AAAATCCGAG
**
172796 TATTGACCAAGATCAAAGTCTGGG
1 TATTGACCAAGATCAAAGTCTGAA
* *
172820 TATTGACCAAGATCAAATTTTGAA
1 TATTGACCAAGATCAAAGTCTGAA
172844 TATTGAC
1 TATTGAC
172851 TAGTACTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (24 bp):
TATTGACCAAGATCAAAGTCTGAA
Found at i:172983 original size:12 final size:12
Alignment explanation
Indices: 172962--172995 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
172952 GGTTGTGGGT
*
172962 TTTGAGATTGTG
1 TTTGATATTGTG
172974 TTTGATATTGTG
1 TTTGATATTGTG
*
172986 TTTGGTATTG
1 TTTGATATTG
172996 GAAATGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:173874 original size:40 final size:40
Alignment explanation
Indices: 173786--173892 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
173776 ATAAAAACTA
* * *
173786 TTGTGAAATTAAAATTCGTGTTGCAAATTCGAAAATCGAG
1 TTGTGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGAG
* * * **
173826 TTGCGAAAATAAATTTCGTGTTGCGATTTAGAAAATCTTG
1 TTGTGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGAG
* *
173866 TTGTGAAAAGGAAACTT-GTGTTGCGAA
1 TTGTGAAAA-TAAAATTCGTGTTGCGAA
173893 AAAGAAATTC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 49 0.91
41 5 0.09
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (40 bp):
TTGTGAAAATAAAATTCGTGTTGCGAATTAGAAAATCGAG
Found at i:173919 original size:20 final size:20
Alignment explanation
Indices: 173896--173973 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 20
173886 TTGCGAAAAA
*
173896 GAAATTCACGTTGCGAATTT
1 GAAAATCACGTTGCGAATTT
* * *
173916 GAAATTCCATGTTGAGAATTT
1 GAAAAT-CACGTTGCGAATTT
*
173937 GAAAATCGCGTTGCGAATTT
1 GAAAATCACGTTGCGAATTT
*
173957 AGAAAATCGCGTTGCGA
1 -GAAAATCACGTTGCGA
173974 TTGCAGAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.34
21 33 0.66
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (20 bp):
GAAAATCACGTTGCGAATTT
Found at i:173963 original size:21 final size:20
Alignment explanation
Indices: 173904--173973 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 20
173894 AAGAAATTCA
*
173904 CGTTGCGAATTTGAAATTC-
1 CGTTGCGAATTTGAAAATCG
*
173923 CATGTTGAGAATTTGAAAATCG
1 C--GTTGCGAATTTGAAAATCG
173945 CGTTGCGAATTTAGAAAATCG
1 CGTTGCGAATTT-GAAAATCG
173966 CGTTGCGA
1 CGTTGCGA
173974 TTGCAGAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
20 10 0.23
21 32 0.73
22 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCG
Found at i:173981 original size:21 final size:21
Alignment explanation
Indices: 173937--173982 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
173927 TTGAGAATTT
*
173937 GAAAATCGCGTTGCGAATTTA
1 GAAAATCGCGTTGCGAATTCA
173958 GAAAATCGCGTTGCG-ATTGCA
1 GAAAATCGCGTTGCGAATT-CA
173979 GAAA
1 GAAA
173983 CTAAGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (21 bp):
GAAAATCGCGTTGCGAATTCA
Found at i:174025 original size:42 final size:41
Alignment explanation
Indices: 173946--174063 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 41
173936 TGAAAATCGC
* *
173946 GTTGCGAATTTAGAAAATCGCGTTGCG-A-TTGCAGAAACTAA
1 GTTGCGAATTT-GGAATTCGCGTTGCGAATTTG-AGAAACTAA
**
173987 GTTGCGAATTTGGGATATTCGCGTTGCGAATTTG-GAAACTGT
1 GTTGCGAATTT-GGA-ATTCGCGTTGCGAATTTGAGAAACTAA
* * * *
174029 GTTGCGAAATTGGAGTTCGTGTTGCGAATTCGAGA
1 GTTGCGAATTTGGAATTCGCGTTGCGAATTTGAGA
174064 TCGCGTTACG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 15 0.23
41 18 0.28
42 27 0.42
43 1 0.02
44 3 0.05
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (41 bp):
GTTGCGAATTTGGAATTCGCGTTGCGAATTTGAGAAACTAA
Found at i:179112 original size:96 final size:96
Alignment explanation
Indices: 178948--179139 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
178938 CTGCGACTTC
178948 CGAGTTTCCATGGGAGGAACTCGGCTGCTGCTTTGGTATTTTAGTGATTTTTACCTCCTTTTCCA
1 CGAGTTTCCATGGGAGGAACTCGGCTGCTGCTTTGGTATTTTAGTGATTTTTACCTCCTTTTCCA
179013 CGGTTTGTGTTATAGATGATTATACTTTCTA
66 CGGTTTGTGTTATAGATGATTATACTTTCTA
179044 CGAGTTTCCATGGGAGGAACTCGGCTGCTGCTTTGGTATTTTAGTGATTTTTACCTCCTTTTCCA
1 CGAGTTTCCATGGGAGGAACTCGGCTGCTGCTTTGGTATTTTAGTGATTTTTACCTCCTTTTCCA
179109 CGGTTTGTGTTATAGATGATTATACTTTCTA
66 CGGTTTGTGTTATAGATGATTATACTTTCTA
179140 GTGATGTGTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (96 bp):
CGAGTTTCCATGGGAGGAACTCGGCTGCTGCTTTGGTATTTTAGTGATTTTTACCTCCTTTTCCA
CGGTTTGTGTTATAGATGATTATACTTTCTA
Found at i:182132 original size:4 final size:4
Alignment explanation
Indices: 182123--182169 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
182113 TTGGACCATA
182123 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
182170 ATGTTGATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:186437 original size:26 final size:26
Alignment explanation
Indices: 186393--186447 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
186383 GTCTACAATG
* *
186393 AATGCCATACACCGATATGGACCACT
1 AATGACATACACCGATATGCACCACT
* * *
186419 AATGACATACACTGGTATGCACTACT
1 AATGACATACACCGATATGCACCACT
186445 AAT
1 AAT
186448 ATTTAAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (26 bp):
AATGACATACACCGATATGCACCACT
Found at i:189895 original size:23 final size:23
Alignment explanation
Indices: 189869--189933 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
189859 AGTCCATGGG
189869 CTGCATCTTCCATGGGCTTCGGC
1 CTGCATCTTCCATGGGCTTCGGC
*
189892 CTGCATCTTCCATGGGCTTTGGC
1 CTGCATCTTCCATGGGCTTCGGC
189915 CTGCATCTTCCATGGGCTT
1 CTGCATCTTCCATGGGCTT
189934 GCACCGCCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.09, C:0.32, G:0.25, T:0.34
Consensus pattern (23 bp):
CTGCATCTTCCATGGGCTTCGGC
Found at i:202534 original size:20 final size:20
Alignment explanation
Indices: 202509--202569 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
202499 TTTTGGTGCA
*
202509 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
**
202529 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCCCAT
202550 GAAGGGGAACCGATCCCCCC
1 G-A-GGGAACCGATCCCCCC
202570 CCACAGGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.29
21 8 0.24
22 7 0.21
23 9 0.26
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:204845 original size:19 final size:19
Alignment explanation
Indices: 204821--204857 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
204811 GTTTTAAGTG
204821 TGTTTTAAAATGATAAATA
1 TGTTTTAAAATGATAAATA
204840 TGTTTTAAAATGATAAAT
1 TGTTTTAAAATGATAAAT
204858 GGGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (19 bp):
TGTTTTAAAATGATAAATA
Found at i:208231 original size:16 final size:16
Alignment explanation
Indices: 208210--208243 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
208200 TAATAAAATT
*
208210 TTGTTTTTTTATTTAA
1 TTGTTTTTTTATCTAA
208226 TTGTTTTTTTATCTAA
1 TTGTTTTTTTATCTAA
208242 TT
1 TT
208244 ATATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTGTTTTTTTATCTAA
Found at i:215152 original size:19 final size:19
Alignment explanation
Indices: 215119--215155 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
215109 ATGACCAACA
*
215119 AAATCGCAATATGATCTCT
1 AAATCGCAACATGATCTCT
*
215138 AAATCGCAACGTGATCTC
1 AAATCGCAACATGATCTC
215156 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATCGCAACATGATCTCT
Found at i:215269 original size:20 final size:20
Alignment explanation
Indices: 215246--215373 Score: 143
Period size: 20 Copynumber: 6.3 Consensus size: 20
215236 GAATATGTAA
215246 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
215266 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
215286 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* *
215307 ATCGCAACGAGATTCTAACT
1 ATCGCAACGCGATTCTGACT
**
215327 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
215347 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
215368 AACGCA
1 ATCGCA
215374 TCACTGAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.04
20 52 0.58
21 30 0.33
22 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:215341 original size:61 final size:61
Alignment explanation
Indices: 215246--215373 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 61
215236 GAATATGTAA
* *
215246 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
215307 ATCGCAACGAGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
*
215368 AACGCA
1 ATCGCA
215374 TCACTGAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (61 bp):
ATCGCAACGAGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
Found at i:216227 original size:24 final size:24
Alignment explanation
Indices: 216176--216229 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
216166 GTATTCAAAA
*
216176 TTTGATCTTAGTCAATACCCGGAC
1 TTTGATCTTAGTCAATACCCAGAC
* * *
216200 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTAGTCAATACCCAGAC
216224 TTTGAT
1 TTTGAT
216230 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTAGTCAATACCCAGAC
Found at i:218718 original size:20 final size:20
Alignment explanation
Indices: 218693--218939 Score: 66
Period size: 20 Copynumber: 13.3 Consensus size: 20
218683 CATTTGACTG
*
218693 TCGCAACGCGAATATGACTA
1 TCGCAACGCGAATATGAATA
* * *
218713 TTGCAACGTGAATTTGAATA
1 TCGCAACGCGAATATGAATA
*
218733 TCGCAACG-G--GAT--A-A
1 TCGCAACGCGAATATGAATA
* * * *
218747 TCGTAATGCGAAAATGACTA
1 TCGCAACGCGAATATGAATA
* *
218767 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAATATGAATA
*
218787 TCGCAACG-G--GAT-AATCA
1 TCGCAACGCGAATATGAAT-A
* * *
218804 T---AATGCGAAAATGACTA
1 TCGCAACGCGAATATGAATA
* * *
218821 TCGTAACGCAAATATGACTA
1 TCGCAACGCGAATATGAATA
* * * *
218841 TCGTAACACGAATTTGACTA
1 TCGCAACGCGAATATGAATA
*
218861 TCGCAA--CG-AGAT--A-A
1 TCGCAACGCGAATATGAATA
*
218875 TCGCAACGCGAA-ATGACTA
1 TCGCAACGCGAATATGAATA
* * * *
218894 TCGCAACACGAATTTTATTA
1 TCGCAACGCGAATATGAATA
* * *
218914 TCGCAACGGGAATTTGACTA
1 TCGCAACGCGAATATGAATA
218934 TCGCAA
1 TCGCAA
218940 AGAGAAAATC
Statistics
Matches: 166, Mismatches: 40, Indels: 42
0.67 0.16 0.17
Matches are distributed among these distances:
14 17 0.10
15 3 0.02
16 6 0.04
17 13 0.08
18 4 0.02
19 14 0.08
20 109 0.66
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATATGAATA
Found at i:218765 original size:54 final size:54
Alignment explanation
Indices: 218700--218843 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 54
218690 CTGTCGCAAC
* * * *
218700 GCGAATATGACTATTGCAACGTGAATTTGAATATCGCAACGGGATAATCGTAAT
1 GCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATAATCATAAT
*
218754 GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCATAAT
1 GCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATAATCATAAT
* * * *
218808 GCGAAAATGACTATCGTAACGCAAATATGACTATCG
1 GCGAAAATGACTATCGCAACGCGAATTTGAATATCG
218844 TAACACGAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (54 bp):
GCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATAATCATAAT
Found at i:218824 original size:74 final size:73
Alignment explanation
Indices: 218746--218949 Score: 239
Period size: 74 Copynumber: 2.8 Consensus size: 73
218736 CAACGGGATA
* * * *
218746 ATCGTAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCATAATGCG
1 ATCGTAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCG
218811 AAAATGACT
66 -AAATGACT
* * *
218820 ATCGTAACGC-AAATATGACTATCGTAACACGAATTTGACTATCGCAACGAGATAATCGCAACGC
1 ATCGTAACGCGAAA-ATGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGC
218884 GAAATGACT
65 GAAATGACT
* * ** * * * * *
218893 ATCGCAACACGAATTTTATTATCGCAACGGGAATTTGACTATCGCAAAGAGAAAATC
1 ATCGTAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATC
218950 GCAAAGTGTA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
73 54 0.49
74 56 0.51
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (73 bp):
ATCGTAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCG
AAATGACT
Found at i:218903 original size:53 final size:54
Alignment explanation
Indices: 218820--218921 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
218810 GAAAATGACT
* *
218820 ATCGTAACGCAAATATGACTATCGTAACACGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCAAATATGACTATCGCAACACGAATTTGACTATCGCAACGAGATA
* * *
218874 ATCGCAACGCGAA-ATGACTATCGCAACACGAATTTTATTATCGCAACG
1 ATCGCAACGCAAATATGACTATCGCAACACGAATTTGACTATCGCAACG
218922 GGAATTTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 32 0.74
54 11 0.26
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (54 bp):
ATCGCAACGCAAATATGACTATCGCAACACGAATTTGACTATCGCAACGAGATA
Found at i:219170 original size:30 final size:30
Alignment explanation
Indices: 219091--219156 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
219081 TTAAACAAGC
* *
219091 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGATTTATTTATACATCAATTAA
219121 ACAAATAAGATTTATTTATACATCAATTAA
1 ACAAATAAGATTTATTTATACATCAATTAA
219151 ACAAAT
1 ACAAAT
219157 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (30 bp):
ACAAATAAGATTTATTTATACATCAATTAA
Found at i:220641 original size:42 final size:42
Alignment explanation
Indices: 220543--220643 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
220533 TTGGGAGGGA
* * * *
220543 CCTCTTCAATGATGACAGGGGCCTCTTGAACGGTGGGACGGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGACGGG
* ** * *
220585 ACTCTTGAGGGATGATAGGGGCCTCTTGAATGATAGGA-GAGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGACG-GG
220627 CCTCTTGAACGATGACA
1 CCTCTTGAACGATGACA
220644 TGTGAGTCGG
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGACGGG
Found at i:221125 original size:20 final size:20
Alignment explanation
Indices: 221100--221143 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
221090 AATAGTTTCT
221100 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
221120 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
221140 GAAA
1 GAAA
221144 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:221209 original size:19 final size:19
Alignment explanation
Indices: 221130--221241 Score: 145
Period size: 20 Copynumber: 5.7 Consensus size: 19
221120 GAAACTTAAA
* *
221130 ATCGCAACACGAAAATGATT
1 ATCGCAACGCG-AAATGACT
221150 ATCGCAACGC-AAATTTGACT
1 ATCGCAACGCGAAA--TGACT
*
221170 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
221190 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
221209 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
221228 ATCGCAACGAGAAA
1 ATCGCAACGCGAAA
221242 ATCGCAACGC
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.04
19 37 0.45
20 41 0.49
21 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:221327 original size:34 final size:34
Alignment explanation
Indices: 221284--221420 Score: 166
Period size: 34 Copynumber: 3.9 Consensus size: 34
221274 ACTAAATTCA
**
221284 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
221318 CGTTGCGATAGTCAAATTCGCATTGTGATAGTCATTTCC
1 CGTTGCGATAGTCAAATTCGCATTGCGAT--T-A--TCC
**
221357 GCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 -CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
221392 CGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCATTGCGAT
221421 AATCATTTTC
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
34 52 0.59
35 3 0.03
36 1 0.01
37 2 0.02
38 1 0.01
39 3 0.03
40 26 0.30
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
Found at i:221373 original size:74 final size:74
Alignment explanation
Indices: 221284--221428 Score: 263
Period size: 74 Copynumber: 2.0 Consensus size: 74
221274 ACTAAATTCA
* *
221284 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGTGATAG
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
221349 TCATTTCCG
66 TCATTTCCG
*
221358 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAA
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
221423 TCATTT
66 TCATTT
221429 TCGTGTTACG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (74 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
TCATTTCCG
Found at i:221431 original size:20 final size:20
Alignment explanation
Indices: 221284--221431 Score: 104
Period size: 20 Copynumber: 8.0 Consensus size: 20
221274 ACTAAATTCA
221284 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
221304 CATTGCGAT--T-A---TCC
1 CGTTGCGATAGTCATTTTCG
**
221318 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* * *
221338 CATTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
221358 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
221378 CATTGCGAT--T-A---TCC
1 CGTTGCGATAGTCATTTTCG
**
221392 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
221412 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCATTTTCG
221432 TGTTACGACT
Statistics
Matches: 97, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
14 20 0.21
16 2 0.02
17 4 0.04
18 2 0.02
20 69 0.71
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:221617 original size:32 final size:31
Alignment explanation
Indices: 221558--221619 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
221548 CTACTACCGA
221558 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
221589 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
221620 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:223491 original size:20 final size:20
Alignment explanation
Indices: 223443--223491 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
223433 GAAACTTAAA
* *
223443 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
223463 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
223483 ATCGCAACG
1 ATCGCAACG
223492 AGATAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:223930 original size:22 final size:21
Alignment explanation
Indices: 223904--223978 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
223894 AGATAGACGA
*
223904 ATTTCGCCAGAGATGGGGATGT
1 ATTTCGCC-GAGATGGGGATGG
* *
223926 ATTTCGCCGGGAATGGGGACGG
1 ATTTCGCCGAG-ATGGGGATGG
*
223948 ATTTCGTCGGAGATGGGGATGG
1 ATTTCG-CCGAGATGGGGATGG
*
223970 ATGTCGCCG
1 ATTTCGCCG
223979 TAGAGAGTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 4 0.09
22 36 0.84
23 3 0.07
ACGTcount: A:0.19, C:0.16, G:0.41, T:0.24
Consensus pattern (21 bp):
ATTTCGCCGAGATGGGGATGG
Found at i:224183 original size:21 final size:21
Alignment explanation
Indices: 224158--224228 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
224148 GTCAGAATCT
224158 CGTTGCGATCACGTATTATCG
1 CGTTGCGATCACGTATTATCG
**
224179 CGTTGCGAT-A-GTCAGAATCG
1 CGTTGCGATCACGT-ATTATCG
*
224199 CGTTGCGATCACGTGTTATCG
1 CGTTGCGATCACGTATTATCG
*
224220 CATTGCGAT
1 CGTTGCGAT
224229 TTACATAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.05
20 15 0.37
21 22 0.54
22 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (21 bp):
CGTTGCGATCACGTATTATCG
Found at i:224200 original size:20 final size:20
Alignment explanation
Indices: 224142--224207 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
224132 TTATCGCAAC
*
224142 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
**
224162 GCGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
224183 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
224203 GCGAT
1 GCGAT
224208 CACGTGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.53
21 14 0.37
22 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:224240 original size:41 final size:41
Alignment explanation
Indices: 224130--224228 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
224120 TGTGATTTTA
** *
224130 TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATCACG
1 TATTATCGCATTGCGATAGTCAGAATCGCGTTGCGATCACG
*
224171 TATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACG
1 TATTATCGCATTGCGATAGTCAGAATCGCGTTGCGATCACG
*
224212 TGTTATCGCATTGCGAT
1 TATTATCGCATTGCGAT
224229 TTACATAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
TATTATCGCATTGCGATAGTCAGAATCGCGTTGCGATCACG
Found at i:224246 original size:41 final size:41
Alignment explanation
Indices: 224130--224248 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
224120 TGTGATTTTA
** * *
224130 TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATCACG
1 TATTATCGCATTGCGATAGTCAGAATCGCATTGCGATCACG
* *
224171 TATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACG
1 TATTATCGCATTGCGATAGTCAGAATCGCATTGCGATCACG
* * *
224212 TGTTATCGCATTGCGAT-TTACATAATCGCATTGCGAT
1 TATTATCGCATTGCGATAGT-CAGAATCGCATTGCGAT
224249 TATCTAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
TATTATCGCATTGCGATAGTCAGAATCGCATTGCGATCACG
Found at i:224261 original size:21 final size:20
Alignment explanation
Indices: 224216--224262 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
224206 ATCACGTGTT
*
224216 ATCGCATTGCGATTTACATA
1 ATCGCATTGCGATTTACAAA
224236 ATCGCATTGCGA-TTATCTAAA
1 ATCGCATTGCGATTTA-C-AAA
224257 ATCGCA
1 ATCGCA
224263 ACGCGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 13 0.54
21 8 0.33
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATTTACAAA
Found at i:224359 original size:19 final size:19
Alignment explanation
Indices: 224335--224371 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
224325 TGCGATAATG
* *
224335 GAGATCGCGTTGTGATTTA
1 GAGATCGCATTGCGATTTA
224354 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
224372 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:224623 original size:23 final size:21
Alignment explanation
Indices: 224569--224651 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
224559 TTTTGGTGCA
224569 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAATCGATTCCCCCCAT
* **
224589 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCAT
224610 GATGGGGAATCGATTCCCCCCA-
1 GA--GGGAATCGATTCCCCCCAT
* *
224632 CAGGGGAATCGATACCCCCC
1 GA-GGGAATCGATTCCCCCC
224652 TGGGGTTCTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 10 0.19
21 26 0.50
22 1 0.02
23 15 0.29
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCAT
Found at i:228740 original size:16 final size:16
Alignment explanation
Indices: 228697--228740 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
228687 GATGAATGAG
228697 TTGGATGTTTTGGATAT
1 TTGG-TGTTTTGGATAT
228714 TTGGT-TGTTTGGATAT
1 TTGGTGT-TTTGGATAT
*
228730 TTTGTGTTTTG
1 TTGGTGTTTTG
228741 AAAGTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 18 0.75
17 5 0.21
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (16 bp):
TTGGTGTTTTGGATAT
Found at i:233180 original size:24 final size:25
Alignment explanation
Indices: 233131--233188 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
233121 ATAGTTGTGT
**
233131 TATATATTA-TTTAAGAAATTGTAA
1 TATATATTATTTTAAGAAATTCAAA
*
233155 TATATATTATTTTAA-AACTTCAAA
1 TATATATTATTTTAAGAAATTCAAA
*
233179 TATATTTTAT
1 TATATATTAT
233189 AATTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
TATATATTATTTTAAGAAATTCAAA
Found at i:234362 original size:2 final size:2
Alignment explanation
Indices: 234357--234384 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
234347 TGATCTCTCT
234357 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
234385 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:234514 original size:2 final size:2
Alignment explanation
Indices: 234507--234546 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
234497 AACAATAACA
234507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
234547 GAAATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:236199 original size:21 final size:21
Alignment explanation
Indices: 236173--236215 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
236163 TTTCTGGGCT
*
236173 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
236194 AGGGGAATCGATACCCCTTCA
1 AGGGGAATCGATACCCATTCA
236215 A
1 A
236216 ACGAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:237661 original size:23 final size:23
Alignment explanation
Indices: 237635--237702 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
237625 ATTATTATAT
*
237635 GGCACTTCGGTGTATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * **
237658 GGCACTACGGTGCAATTCTACAT
1 GGCACTTCGGTGCATTTCTACGC
*
237681 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
237703 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:246310 original size:60 final size:59
Alignment explanation
Indices: 246239--246414 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 59
246229 AAGTATGTTT
246239 TTCA-TTTAAATTGGTCACTAAACTTTTAAATATTTCAATTTCATTCTTAAACTATGGC-
1 TTCATTTTAAATTGGTCACTAAACTTTTAAATATTTCAATTTCATTC-TAAACTATGGCA
* ** * * *
246297 TATCATTTTAAATTAGTCTTTAAACTTTTGAATATTTCAATTTTATCCCTAAACTATGGCA
1 T-TCATTTTAAATTGGTCACTAAACTTTTAAATATTTCAATTTCAT-TCTAAACTATGGCA
* * * * * * *
246358 TTCATTCTAAATTGGTCTCCAAATATTTTTTAACATTCCAATTTCATTCTAAACTAT
1 TTCATTTTAAATTGGTC-ACTAA-ACTTTTAAATATTTCAATTTCATTCTAAACTAT
246415 ACGTATATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
58 1 0.01
59 3 0.03
60 60 0.63
61 13 0.14
62 18 0.19
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (59 bp):
TTCATTTTAAATTGGTCACTAAACTTTTAAATATTTCAATTTCATTCTAAACTATGGCA
Found at i:246587 original size:29 final size:28
Alignment explanation
Indices: 246546--246651 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 28
246536 ATGAATTTGG
* *
246546 GGATGAAACTAGAATATTCAAATGTTTAA
1 GGATAAAATTAGAATATTCAAA-GTTTAA
* * * *
246575 GGATTAATTTAGAATGAGAGTCATAGTTTAA
1 GGATAAAATTAGAAT---ATTCAAAGTTTAA
*
246606 GGATAAAATTAGAATACTTAAAAGTTTAA
1 GGATAAAATTAGAATA-TTCAAAGTTTAA
*
246635 GGA-ACAAATTAAAATAT
1 GGATA-AAATTAGAATAT
246652 AATTTAAGGA
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
28 3 0.05
29 34 0.56
31 19 0.31
32 5 0.08
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.31
Consensus pattern (28 bp):
GGATAAAATTAGAATATTCAAAGTTTAA
Found at i:249727 original size:18 final size:18
Alignment explanation
Indices: 249704--249745 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
249694 GTCATAACCT
*
249704 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
*
249722 GACCCGACCTGTTGACCC
1 GACCCGACCCGTTGACCC
249740 GACCCG
1 GACCCG
249746 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:249738 original size:13 final size:13
Alignment explanation
Indices: 249722--249751 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
249712 CCGTTTACCC
*
249722 GACCCGACCTGTT
1 GACCCGACCCGTT
249735 GACCCGACCCGTT
1 GACCCGACCCGTT
249748 GACC
1 GACC
249752 GTTGACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:250616 original size:17 final size:18
Alignment explanation
Indices: 250594--250629 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
250584 TTTTACAGAC
250594 ATATTGATCTG-ATAAAA
1 ATATTGATCTGCATAAAA
*
250611 ATATTGATGTGCATAAAA
1 ATATTGATCTGCATAAAA
250629 A
1 A
250630 ATGTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (18 bp):
ATATTGATCTGCATAAAA
Found at i:252405 original size:24 final size:24
Alignment explanation
Indices: 252283--252398 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
252273 TTTGATTTGA
*
252283 ATTCTGATATGATACTTAACATGG
1 ATTCTGATATGATACTTGACATGG
* *
252307 ATTCCGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
252331 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
252355 ATTCTGATATGTTACTTGACCT-G
1 ATTCTGATATGATACTTGACATGG
252378 ATTTCTGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
252399 CTGATTTAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.04
24 76 0.95
25 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:252415 original size:24 final size:24
Alignment explanation
Indices: 252360--252408 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
252350 CTTGGATTCT
* **
252360 GATATGTTACTTGACCTGATTTCT
1 GATATGATACTTGACCTGATTTAA
252384 GATATGATACTTGACCTGATTTAA
1 GATATGATACTTGACCTGATTTAA
252408 G
1 G
252409 TTTTGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (24 bp):
GATATGATACTTGACCTGATTTAA
Found at i:252588 original size:2 final size:2
Alignment explanation
Indices: 252581--252617 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
252571 GGGATGGGGG
252581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
252618 GTTTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:254559 original size:8 final size:8
Alignment explanation
Indices: 254546--254592 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
254536 CCGTTTACCC
254546 GACCCGTT
1 GACCCGTT
254554 GACCCGTT
1 GACCCGTT
254562 GA-CCGTT
1 GACCCGTT
254569 GACCGGCGTT
1 GACC--CGTT
254579 GACCACTGTT
1 GACC-C-GTT
254589 GACC
1 GACC
254593 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:254569 original size:15 final size:16
Alignment explanation
Indices: 254549--254582 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
254539 TTTACCCGAC
254549 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
254564 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
254581 CC
1 CC
254583 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:257145 original size:12 final size:11
Alignment explanation
Indices: 257102--257162 Score: 68
Period size: 12 Copynumber: 5.2 Consensus size: 11
257092 TTTGATTTGA
257102 ATTCTGATATG
1 ATTCTGATATG
*
257113 ATTCTTGACATGG
1 ATTC-TGATAT-G
257126 ATTCTGATATG
1 ATTCTGATATG
257137 ATATCTGATATGG
1 AT-TCTGATAT-G
*
257150 ATTCTGATCTG
1 ATTCTGATATG
257161 AT
1 AT
257163 ACTTGACTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
11 10 0.23
12 25 0.58
13 8 0.19
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (11 bp):
ATTCTGATATG
Found at i:257224 original size:24 final size:24
Alignment explanation
Indices: 257102--257217 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
257092 TTTGATTTGA
*
257102 ATTCTGATATGATTCTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
257126 ATTCTGATATGATA-TCTGATATGG
1 ATTCTGATATGATACT-TGACATGG
* *
257150 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* * *
257174 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATATGATACTTGACATGG
257197 ATTTCTGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
257218 CTGATTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.04
24 76 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:257240 original size:24 final size:24
Alignment explanation
Indices: 257154--257227 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
257144 ATATGGATTC
* * *
257154 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
257178 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
257202 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
257226 TG
1 TG
257228 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:258032 original size:20 final size:18
Alignment explanation
Indices: 257985--258054 Score: 104
Period size: 18 Copynumber: 3.8 Consensus size: 18
257975 ACAGAATATT
257985 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
258003 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
258021 TTTGTTCCGAAGAACCACTA
1 --TGTCCCGAAGGACCACTA
258041 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
258055 TCTGATAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 30 0.65
20 16 0.35
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:258032 original size:38 final size:38
Alignment explanation
Indices: 257981--258054 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
257971 GGTTACAGAA
*
257981 TATTTGTCCCGAAGGACCACTATGTCCCGAAGGACCAC
1 TATTTGTCCCGAAGAACCACTATGTCCCGAAGGACCAC
*
258019 TATTTGTTCCGAAGAACCACTATGTCCCGAAGGACC
1 TATTTGTCCCGAAGAACCACTATGTCCCGAAGGACC
258055 TCTGATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (38 bp):
TATTTGTCCCGAAGAACCACTATGTCCCGAAGGACCAC
Found at i:261741 original size:21 final size:21
Alignment explanation
Indices: 261712--261760 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
261702 TATATAGACA
261712 CTCCCTGAGGTTTTCGCTCTT
1 CTCCCTGAGGTTTTCGCTCTT
*
261733 CTCCTTGAGGTTTTCGCTCTT
1 CTCCCTGAGGTTTTCGCTCTT
261754 CTCCCTG
1 CTCCCTG
261761 CCTGGCCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.35, G:0.18, T:0.43
Consensus pattern (21 bp):
CTCCCTGAGGTTTTCGCTCTT
Found at i:263189 original size:18 final size:18
Alignment explanation
Indices: 263163--263230 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
263153 ATATTTGTAC
*
263163 CGAATGACCACTATGTCT
1 CGAAGGACCACTATGTCT
263181 CGAAGGACCACTATTTGT-T
1 CGAAGGACCACTA--TGTCT
* *
263200 CCGAAGAACCACTATGTCC
1 -CGAAGGACCACTATGTCT
263219 CGAAGGACCACT
1 CGAAGGACCACT
263231 GATAATCCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 26 0.62
19 1 0.02
20 15 0.36
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (18 bp):
CGAAGGACCACTATGTCT
Found at i:263196 original size:38 final size:38
Alignment explanation
Indices: 263154--263230 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
263144 GGGCACTGAA
*
263154 TATTTGTACCGAATG-ACCACTATGTCTCGAAGGACCAC
1 TATTTGTACCGAA-GAACCACTATGTCCCGAAGGACCAC
*
263192 TATTTGTTCCGAAGAACCACTATGTCCCGAAGGACCAC
1 TATTTGTACCGAAGAACCACTATGTCCCGAAGGACCAC
263230 T
1 T
263231 GATAATCCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (38 bp):
TATTTGTACCGAAGAACCACTATGTCCCGAAGGACCAC
Found at i:264892 original size:21 final size:22
Alignment explanation
Indices: 264845--264920 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
264835 ATAAAATGCA
*
264845 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACAGAGAATGTC
*
264867 TCGAAGGACCACAGAG-ATGTC
1 CCGAAGGACCACAGAGAATGTC
*
264888 CCGAAGGACCGC-GTAGAATTGTC
1 CCGAAGGACCACAG-AGAA-TGTC
*
264911 CCGAAAGACC
1 CCGAAGGACC
264921 GCGTAGAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 18 0.40
22 13 0.29
23 13 0.29
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.14
Consensus pattern (22 bp):
CCGAAGGACCACAGAGAATGTC
Found at i:264914 original size:23 final size:23
Alignment explanation
Indices: 264884--264928 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
264874 ACCACAGAGA
*
264884 TGTCCCGAAGGACCGCGTAGAAT
1 TGTCCCGAAAGACCGCGTAGAAT
264907 TGTCCCGAAAGACCGCGTAGAA
1 TGTCCCGAAAGACCGCGTAGAA
264929 CCCTCGACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAAGACCGCGTAGAAT
Found at i:265156 original size:19 final size:18
Alignment explanation
Indices: 265132--265168 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
265122 TCACATTGAT
*
265132 CATATAATACATATGATAA
1 CATATAACACATA-GATAA
265151 CATATAACACATAGATAA
1 CATATAACACATAGATAA
265169 GTTATACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
CATATAACACATAGATAA
Found at i:275610 original size:27 final size:27
Alignment explanation
Indices: 275576--275636 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
275566 AATTATAGAG
275576 ATGATTTGTTACCATTCCAATAGAGAT
1 ATGATTTGTTACCATTCCAATAGAGAT
*
275603 ATGATTTGTTACCATTCCTATAGAGAT
1 ATGATTTGTTACCATTCCAATAGAGAT
275630 ATGATTT
1 ATGATTT
275637 TGTAAATAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (27 bp):
ATGATTTGTTACCATTCCAATAGAGAT
Found at i:286136 original size:2 final size:2
Alignment explanation
Indices: 286081--286117 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
286071 ATTGTGTGTG
286081 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
286118 TCATTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:297528 original size:21 final size:21
Alignment explanation
Indices: 297474--297530 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
297464 TCGAGGGTTC
*
297474 TACGTGGTCCTTCGGAACATA
1 TACGTGGTCCTTTGGAACATA
* **
297495 TATGTAATCCTTTGGAACATA
1 TACGTGGTCCTTTGGAACATA
*
297516 TACGTGGTACTTTGG
1 TACGTGGTCCTTTGG
297531 TACACTTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (21 bp):
TACGTGGTCCTTTGGAACATA
Found at i:311228 original size:19 final size:20
Alignment explanation
Indices: 311188--311242 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
311178 GCTGCTGGAA
*
311188 AACCGGTTTGACCAGT-TCG
1 AACCGGTTTGACCGGTCTCG
311207 AACCGGTTTGACCGGTCT-G
1 AACCGGTTTGACCGGTCTCG
* *
311226 AACTGGTTTGGCCGGTC
1 AACCGGTTTGACCGGTC
311243 AGACCCGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.27
Consensus pattern (20 bp):
AACCGGTTTGACCGGTCTCG
Found at i:311263 original size:14 final size:14
Alignment explanation
Indices: 311244--311280 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
311234 TGGCCGGTCA
311244 GACCCGACCCGACT
1 GACCCGACCCGACT
311258 GACCCGACCCGACT
1 GACCCGACCCGACT
311272 GACCCGACC
1 GACCCGACC
311281 GTTGACTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (14 bp):
GACCCGACCCGACT
Found at i:317079 original size:22 final size:21
Alignment explanation
Indices: 317037--317076 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
317027 GAGTTTATTT
*
317037 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
317058 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
317077 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:328021 original size:25 final size:25
Alignment explanation
Indices: 327988--328036 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
327978 AAGTTCGTGA
* * *
327988 AAATAAAAATTTTAAGCTCGACTCG
1 AAATAAAAAATTAAAGCTCAACTCG
328013 AAATAAAAAATTAAAGCTCAACTC
1 AAATAAAAAATTAAAGCTCAACTC
328037 AAGCTCAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (25 bp):
AAATAAAAAATTAAAGCTCAACTCG
Found at i:336072 original size:40 final size:40
Alignment explanation
Indices: 336028--336105 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
336018 ATATTAATGA
*
336028 ATTTCTGAAGCCTGTTGAAGGAAAGAACTATTACAACCCT
1 ATTTCTGAAGCCTGTTAAAGGAAAGAACTATTACAACCCT
* *
336068 ATTTCTGAAGCCTGTTAAAGGGAATAACTATTACAACC
1 ATTTCTGAAGCCTGTTAAAGGAAAGAACTATTACAACC
336106 TAGTAGATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (40 bp):
ATTTCTGAAGCCTGTTAAAGGAAAGAACTATTACAACCCT
Found at i:336445 original size:16 final size:16
Alignment explanation
Indices: 336424--336458 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
336414 CTTATTTTAC
336424 TTTTTAAATTTAATAA
1 TTTTTAAATTTAATAA
**
336440 TTTTTATTTTTAATAA
1 TTTTTAAATTTAATAA
336456 TTT
1 TTT
336459 AATCATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAAATTTAATAA
Found at i:340439 original size:49 final size:49
Alignment explanation
Indices: 340370--340492 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 49
340360 ATCCGTATGG
* * *
340370 GATTCGAATTCGGGACTAGGTGTCGATAGACAGCGTTATGCCTGTCCAA
1 GATTCGAATTCGGGATTAGGTGTCGATAGACAACGTTATCCCTGTCCAA
* * * * *
340419 GATTCGAGTTTGGGATTAGGTTTTGATAGACAACGTTATCCCTGTCCAG
1 GATTCGAATTCGGGATTAGGTGTCGATAGACAACGTTATCCCTGTCCAA
340468 GATTCGAATTCGGGATTAGGTGTCG
1 GATTCGAATTCGGGATTAGGTGTCG
340493 GTGGAAGACG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (49 bp):
GATTCGAATTCGGGATTAGGTGTCGATAGACAACGTTATCCCTGTCCAA
Found at i:347534 original size:3 final size:3
Alignment explanation
Indices: 347526--347572 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
347516 TTTGTTTTAT
*
347526 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
347570 TTA
1 TTA
347573 AATAATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.20
3 32 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:347540 original size:13 final size:13
Alignment explanation
Indices: 347522--347572 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
347512 TTCATTTGTT
347522 TTATTTATTATTA
1 TTATTTATTATTA
*
347535 TTATTT-TGTTTTA
1 TTATTTAT-TATTA
347548 TTATTATATTA-TA
1 TTATT-TATTATTA
347561 TTA-TTATTATTA
1 TTATTTATTATTA
347573 AATAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 5 0.16
12 4 0.12
13 20 0.62
14 2 0.06
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:347549 original size:19 final size:18
Alignment explanation
Indices: 347525--347572 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
347515 ATTTGTTTTA
* *
347525 TTTATTATTATTATTTTGT
1 TTTATTATTA-TATTATAT
347544 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
347562 TATTATTATTA
1 T-TTATTATTA
347573 AATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATTATTATATTATAT
Found at i:347550 original size:16 final size:16
Alignment explanation
Indices: 347527--347571 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
347517 TTGTTTTATT
*
347527 TATTATTATTATTTTG
1 TATTATTATTATTTTA
* *
347543 TTTTATTATTATATTA
1 TATTATTATTATTTTA
347559 TATTATTATTATT
1 TATTATTATTATT
347572 AAATAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTTTA
Found at i:347562 original size:23 final size:23
Alignment explanation
Indices: 347516--347559 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
347506 TTTTATTTCA
347516 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATTTATTATTATTAT
347539 TTTGTTTTA-TTATTA-TATTAT
1 TTTGTTTTATTTATTATTATTAT
347560 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTGTTTTATTTATTATTATTAT
Found at i:349992 original size:28 final size:28
Alignment explanation
Indices: 349961--350020 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
349951 TAATTCTTTC
*
349961 TTTTCAAAATTTTTATATATACT-TATTA
1 TTTTCAAAATATTTATATATA-TATATTA
* *
349989 TTTTTATAATATTTATATATATATATTA
1 TTTTCAAAATATTTATATATATATATTA
350017 TTTT
1 TTTT
350021 TTTATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTCAAAATATTTATATATATATATTA
Found at i:354314 original size:10 final size:10
Alignment explanation
Indices: 354299--354374 Score: 93
Period size: 10 Copynumber: 7.6 Consensus size: 10
354289 ATTATGCTTG
354299 AAAAAAAAG-
1 AAAAAAAAGA
354308 -AAAAAAAGA
1 AAAAAAAAGA
* *
354317 ATGAAAAAAGG
1 A-AAAAAAAGA
354328 AAAAAAAAGA
1 AAAAAAAAGA
*
354338 AGAAAAAAGA
1 AAAAAAAAGA
354348 AGAAAAAAAGA
1 A-AAAAAAAGA
354359 AAAAAAAAGA
1 AAAAAAAAGA
354369 AAAAAA
1 AAAAAA
354375 TTAAACCAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
8 8 0.14
10 32 0.56
11 17 0.30
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:354323 original size:21 final size:20
Alignment explanation
Indices: 354298--354374 Score: 97
Period size: 21 Copynumber: 3.9 Consensus size: 20
354288 TATTATGCTT
354298 GAAAAAAAAGAAAAAAAGAA
1 GAAAAAAAAGAAAAAAAGAA
*
354318 TG-AAAAAAGGAAAAAAAAGAA
1 -GAAAAAAAAG-AAAAAAAGAA
354339 GAAAAAAGAAGAAAAAAAG-A
1 GAAAAAA-AAGAAAAAAAGAA
354359 -AAAAAAAAGAAAAAAA
1 GAAAAAAAAGAAAAAAA
354375 TTAAACCAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.20
19 6 0.12
20 9 0.18
21 24 0.47
22 2 0.04
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (20 bp):
GAAAAAAAAGAAAAAAAGAA
Found at i:354334 original size:31 final size:29
Alignment explanation
Indices: 354299--354374 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 29
354289 ATTATGCTTG
*
354299 AAAAAAAAGAAAAAAAGAATG-AAAAAAGG
1 AAAAAAAAGAAAAAAAGAA-GAAAAAAAGA
354328 AAAAAAAAGAAGAAAAAAGAAGAAAAAAAGA
1 AAAAAAAAG-A-AAAAAAGAAGAAAAAAAGA
354359 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
354375 TTAAACCAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
29 15 0.35
30 3 0.07
31 25 0.58
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (29 bp):
AAAAAAAAGAAAAAAAGAAGAAAAAAAGA
Found at i:359939 original size:113 final size:113
Alignment explanation
Indices: 359754--360198 Score: 556
Period size: 113 Copynumber: 3.9 Consensus size: 113
359744 ATCCATAACA
* * *
359754 ATGGATCAACATTTCTAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* *
359818 TCATAATGAGAAGAATTTGTTCAATCTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
* *
359866 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* * * * * * *
359931 TTATAATGAGAAGAGCTTGTTTAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC-ATCAC---------TCG
** *
359988 ATCAACATCAACTTTTCCAGAGAAAGTTCGTAATGAGAAGAACAT-ATCTGAAG-AGGAAGAAGA
1 AT--GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC-TCATCTGAAGAAGGAAGAAGA
*
360051 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCG
63 AATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
* *
360102 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
360167 TCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGC
360199 ATGACTCTAT
Statistics
Matches: 282, Mismatches: 34, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
111 1 0.00
112 63 0.22
113 117 0.41
114 4 0.01
122 4 0.01
123 45 0.16
124 47 0.17
125 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
Found at i:360012 original size:124 final size:124
Alignment explanation
Indices: 359870--360284 Score: 563
Period size: 124 Copynumber: 3.5 Consensus size: 124
359860 CACTCGATGG
* *
359870 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTTAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
359935 AATGAGAAGAGCTTGTTTAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* *
359994 ATCAACTTTTCCAGAGAAAGTTCGTAATGAGAAGAACAT-ATCTGAAG-AGGAAGAAGAAATTCA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC-TCATCTGAAGAAGGAAGAAGAAGTTCA
** * * * * *
360057 TAATGAGAAGAATTTGTTCAACCTTTTGCTTAAAT-TCATCAC---------TCGAT--GG
65 TAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCT-ATCACAGAAGGAGATAGATCAGC
*
360106 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
360171 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* *
360230 ATCAACTTTTCCAGAGAAAGTTCGTAATGAGAAGAACTTATCTGAAG-AGGAAGAA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
360285 CTTGTTCAAC
Statistics
Matches: 249, Mismatches: 26, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
111 1 0.00
112 43 0.17
113 50 0.20
114 5 0.02
122 5 0.02
123 55 0.22
124 89 0.36
125 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (124 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:360178 original size:24 final size:23
Alignment explanation
Indices: 360135--360179 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
360125 GTTCATAATG
*
360135 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
360158 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
360180 AGCTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:360218 original size:236 final size:235
Alignment explanation
Indices: 359770--360284 Score: 922
Period size: 236 Copynumber: 2.2 Consensus size: 235
359760 CAACATTTCT
*
359770 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
1 AGAA-AGTTCGTAATGAGAAGAACT-ATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATT
*
359835 TGTTCAATCTTTTGCTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGA
63 TGTTCAACCTTTTGCTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGA
* *
359900 GAAGAACTCATCTGAAGAAGAAAGAAGAAGTTTATAATGAGAAGAGCTTGTTTAACCTTTTGCAT
128 GAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT
359965 GACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTCCAG
193 GACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTCCAG
360008 AGAAAGTTCGTAATGAGAAGAACATATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGAAAGTTCGTAATGAGAAGAAC-TATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTG
360073 TTCAACCTTTTGCTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGA
65 TTCAACCTTTTGCTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGA
* *
360138 AGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGA
130 AGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGA
*
360203 CTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAG
195 CTCTATCACAGAAGGAGATAGATCAACATCAACTTTTCCAG
360244 AGAAAGTTCGTAATGAGAAGAACTTATCTGAAGAGGAAGAA
1 AGAAAGTTCGTAATGAGAAGAAC-TATCTGAAGAGGAAGAA
360285 CTTGTTCAAC
Statistics
Matches: 268, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
236 237 0.88
237 26 0.10
238 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (235 bp):
AGAAAGTTCGTAATGAGAAGAACTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
TCAACCTTTTGCTTAAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGAC
TCTATCACAGAAGGAGATAGATCAACATCAACTTTTCCAG
Found at i:360353 original size:102 final size:102
Alignment explanation
Indices: 360176--360379 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 102
360166 TTCATAATGA
* *
360176 GAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTC
1 GAAGAACTTGTTCAACCTTTT-CATGACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTC
* *
360241 CAGAGAAAGTTCGTAATGAGAAGAACTTATCTGAAGAG
65 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAG
* * *
360279 GAAGAACTTGTTCAACCTTTAT-TTGACTTTATCACAGAAGGAGATAGATCAACATCAATTTTTC
1 GAAGAACTTGTTCAACCTTT-TCATGACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTC
*
360343 CAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAGA
65 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
360380 AGAAAGAAGA
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 72 0.78
103 19 0.21
104 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (102 bp):
GAAGAACTTGTTCAACCTTTTCATGACTCTATCACAGAAGGAGATAGATCAACATCAACTTTTCC
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAG
Found at i:360499 original size:123 final size:123
Alignment explanation
Indices: 360279--360500 Score: 322
Period size: 123 Copynumber: 1.8 Consensus size: 123
360269 ATCTGAAGAG
* **
360279 GAAGAACTTGTTCAACCTTTATTTGACTTTATCACAGAAGGAGATAGATCAACATCAATTTTTCC
1 GAAGAACTTGTTCAACATTTATTTGACTTTATCACAGAAGGAGATAGATCAACATCAACATTTCC
*
360344 AGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGAAAGAAGAAGTTTATAATGA
66 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTTATAATGA
* * ** *
360402 GAAGAGCTTGTTCAACATTTGTTTGA-TTCTATCACAGAAGGAGATAGATCAGTATCAGCATTTC
1 GAAGAACTTGTTCAACATTTATTTGACTT-TATCACAGAAGGAGATAGATCAACATCAACATTTC
*
360466 CAGA-AGGAGTTCATAATGAGAAGAACTCATCTGAA
65 CAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAA
360501 AAAAGAGGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
122 3 0.03
123 84 0.97
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (123 bp):
GAAGAACTTGTTCAACATTTATTTGACTTTATCACAGAAGGAGATAGATCAACATCAACATTTCC
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTTATAATGA
Found at i:360580 original size:226 final size:224
Alignment explanation
Indices: 360116--360595 Score: 573
Period size: 226 Copynumber: 2.1 Consensus size: 224
360106 ATCAACTTTT
* *
360116 CCAGAGAAAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
* *
360181 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAG
66 GCTTGTTCAACCATTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAG
* * *
360246 AAAGTTCGTAATGAGAAGAACTTATCTGAAGAGGAAGAACTTGTTCAACCTTTATTTGACTTTAT
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACTTGTTCAACCTTTATTTGAATTTAT
* **
360311 CACAGAAGGAGATAGATCAACATCAATTTTT
196 CACAAAAGGAGATAGA-CAACATCAA-TTCC
* *
360342 CCAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGAAAGAAGAAGTTTATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
** * * *
360407 GCTTGTTCAA-CATTTGTTTGATTCTATCACAGAAGGAGATAGATCAGTATCAGCATTTCCAGA-
66 GCTTGTTCAACCATTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAG
* *
360470 AGGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAGG-AGAATTTGTTCAA-CTTT-TTTGCT
131 A-AAGTTCATAATGAGAAGAACTCATCTG----AAGAGGAAGAACTTGTTCAACCTTTATTTG--
***
360532 AGATTATATCACAAAAGGAGATA-A-ATTGTC-A-TCC
189 A-ATT-TATCACAAAAGGAGATAGACAACATCAATTCC
*
360566 CCAGTGGAAAAGTTCATAATGAGAAGAACT
1 CCAG-AG-AAAGTTCATAATGAGAAGAACT
360596 AATCCCAAAG
Statistics
Matches: 220, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
224 6 0.03
225 71 0.32
226 98 0.45
227 7 0.03
228 13 0.06
229 9 0.04
230 16 0.07
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (224 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
GCTTGTTCAACCATTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACTTGTTCAACCTTTATTTGAATTTAT
CACAAAAGGAGATAGACAACATCAATTCC
Found at i:360765 original size:3 final size:3
Alignment explanation
Indices: 360757--360806 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
360747 TTTGTTTTAT
*
360757 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
360801 TTA TTA
1 TTA TTA
360807 AATAATTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:360780 original size:19 final size:19
Alignment explanation
Indices: 360756--360806 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
360746 ATTTGTTTTA
* *
360756 TTTATTATTATTATTTTGT
1 TTTATTATTATTATATTAT
360775 TTTATTATTATTATATTAT
1 TTTATTATTATTATATTAT
*
360794 ATTATTATTATTA
1 TTTATTATTATTA
360807 AATAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATATTAT
Found at i:360781 original size:16 final size:16
Alignment explanation
Indices: 360760--360804 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
360750 GTTTTATTTA
* *
360760 TTATTATTATTTTGTT
1 TTATTATTATTATATT
360776 TTATTATTATTATATT
1 TTATTATTATTATATT
*
360792 ATATTATTATTAT
1 TTATTATTATTAT
360805 TAAATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTATTATTATATT
Found at i:369851 original size:23 final size:23
Alignment explanation
Indices: 369833--369893 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
369823 CTCGTAAAAA
369833 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
369856 TACACCGAAGTGTCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
369879 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
369894 TATAAAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:370830 original size:352 final size:352
Alignment explanation
Indices: 370186--370887 Score: 1386
Period size: 352 Copynumber: 2.0 Consensus size: 352
370176 CATATTACAC
*
370186 AATGCACAAAGTATGAATTTTTATTACATTTCATAATATAAAATGAATAATGCATCAATGTATTG
1 AATGCACAAAGTATGAATTTCTATTACATTTCATAATATAAAATGAATAATGCATCAATGTATTG
370251 ACTCTAGACTTATCATAAGTCTAAAACTGGATACACTATTATAATCATGTTATGCATGCGCACTC
66 ACTCTAGACTTATCATAAGTCTAAAACTGGATACACTATTATAATCATGTTATGCATGCGCACTC
370316 AACTATATTTCTTTGTTTTTCCCTCGATCGATCCTACTGGGCAATTGTTCTGGAACTTGTTTAGG
131 AACTATATTTCTTTGTTTTTCCCTCGATCGATCCTACTGGGCAATTGTTCTGGAACTTGTTTAGG
370381 CTCTGAATCTACATAAATATAATTTTCAAAATGATTATCAGATGCCTAAACCTTGTAATTAACTT
196 CTCTGAATCTACATAAATATAATTTTCAAAATGATTATCAGATGCCTAAACCTTGTAATTAACTT
370446 CTAATAGCTTAAACAAATTTAAGGAATTAATGTTTCATTTTTCCTTTAGGGGGTATCGGTACCCC
261 CTAATAGCTTAAACAAATTTAAGGAATTAATGTTTCATTTTTCCTTTAGGGGGTATCGGTACCCC
370511 TCTGGGGGAATTGGTACCCCCATGAAT
326 TCTGGGGGAATTGGTACCCCCATGAAT
370538 AATGCACAAAGTATGAATTTCTATTACATTTCATAATATAAAATGAATAATGCATCAATGTATTG
1 AATGCACAAAGTATGAATTTCTATTACATTTCATAATATAAAATGAATAATGCATCAATGTATTG
*
370603 ACTCTAGACTTATCATAAGTCTAGAACTGGATACACTATTATAATCATGTTATGCATGCGCACTC
66 ACTCTAGACTTATCATAAGTCTAAAACTGGATACACTATTATAATCATGTTATGCATGCGCACTC
370668 AACTATATTTCTTTGTTTTTCCCTCGATCGATCCTACTGGGCAATTGTTCTGGAACTTGTTTAGG
131 AACTATATTTCTTTGTTTTTCCCTCGATCGATCCTACTGGGCAATTGTTCTGGAACTTGTTTAGG
370733 CTCTGAATCTACATAAATATAATTTTCAAAATGATTATCAGATGCCTAAACCTTGTAATTAACTT
196 CTCTGAATCTACATAAATATAATTTTCAAAATGATTATCAGATGCCTAAACCTTGTAATTAACTT
370798 CTAATAGCTTAAACAAATTTAAGGAATTAATGTTTCATTTTTCCTTTAGGGGGTATCGGTACCCC
261 CTAATAGCTTAAACAAATTTAAGGAATTAATGTTTCATTTTTCCTTTAGGGGGTATCGGTACCCC
370863 TCTGGGGGAATTGGTACCCCCATGA
326 TCTGGGGGAATTGGTACCCCCATGA
370888 CATTCTAGAA
Statistics
Matches: 348, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 348 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (352 bp):
AATGCACAAAGTATGAATTTCTATTACATTTCATAATATAAAATGAATAATGCATCAATGTATTG
ACTCTAGACTTATCATAAGTCTAAAACTGGATACACTATTATAATCATGTTATGCATGCGCACTC
AACTATATTTCTTTGTTTTTCCCTCGATCGATCCTACTGGGCAATTGTTCTGGAACTTGTTTAGG
CTCTGAATCTACATAAATATAATTTTCAAAATGATTATCAGATGCCTAAACCTTGTAATTAACTT
CTAATAGCTTAAACAAATTTAAGGAATTAATGTTTCATTTTTCCTTTAGGGGGTATCGGTACCCC
TCTGGGGGAATTGGTACCCCCATGAAT
Found at i:379509 original size:25 final size:25
Alignment explanation
Indices: 379477--379535 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
379467 CCCTTTTTAT
379477 TTTTATTTTTG-ACTTTTCTGCACA
1 TTTTATTTTTGCACTTTTCTGCACA
* *
379501 TTTGTATTTGTGCTCTTTTCTGCACA
1 TTT-TATTTTTGCACTTTTCTGCACA
*
379527 CTTTATTTT
1 TTTTATTTT
379536 GTAGTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 12 0.41
26 14 0.48
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.59
Consensus pattern (25 bp):
TTTTATTTTTGCACTTTTCTGCACA
Found at i:382430 original size:206 final size:206
Alignment explanation
Indices: 382069--382479 Score: 678
Period size: 206 Copynumber: 2.0 Consensus size: 206
382059 TAGTGGCCCA
*
382069 AGTCAACAATGAAACAACACTCTTCAAGGGCTAGAATTCTAACCTTGTGTCAAGACCTACAACCA
1 AGTCAACAATGAAACAACACTCTTCAAGGGCTAGAATTCTAACCTCGTGTCAAGACCTACAACCA
382134 ATGGACAGTTTCAAGTAGACATTTTTTATGTGTTGTAGGCCTCCCAAAAGGTAACGGAGACATAC
66 ATGGACAGTTTCAAGTAGACATTTTTTATGTGTTGTAGGCCTCCCAAAAGGTAACGGAGACATAC
* * * * *
382199 AAAGGTTTCCTCGAACTTAACGAAGACTGATCTTTGGGTGTAAAAGCATAAGAAAGCTCGACTGT
131 AAAGGTTTCCTCGAACTGAACGAAGACTGACCTTCGGGTGTAAAAACAGAAGAAAGCTCGACTGT
382264 AAGACCCACCT
196 AAGACCCACCT
* * *
382275 AGTCATCAATGAAATACCACTCTTCAAGGGCTAGAATTCTAACCTCGTGTCAAGACCTACAACCA
1 AGTCAACAATGAAACAACACTCTTCAAGGGCTAGAATTCTAACCTCGTGTCAAGACCTACAACCA
*
382340 ATGGACATTTTCAAGTAGACATTTTTTATGTGTTGTAGGCCTCCCAAAAGGTAACGGAGACATAC
66 ATGGACAGTTTCAAGTAGACATTTTTTATGTGTTGTAGGCCTCCCAAAAGGTAACGGAGACATAC
* * * * * *
382405 AAAGGTTTCCTCGAGCTGGACGAAGATTGACCTTCGGGTGTAAAAACGGAAGAGAGCTTGACTGT
131 AAAGGTTTCCTCGAACTGAACGAAGACTGACCTTCGGGTGTAAAAACAGAAGAAAGCTCGACTGT
382470 AAGACCCACC
196 AAGACCCACC
382480 CATCAAACAA
Statistics
Matches: 189, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 189 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (206 bp):
AGTCAACAATGAAACAACACTCTTCAAGGGCTAGAATTCTAACCTCGTGTCAAGACCTACAACCA
ATGGACAGTTTCAAGTAGACATTTTTTATGTGTTGTAGGCCTCCCAAAAGGTAACGGAGACATAC
AAAGGTTTCCTCGAACTGAACGAAGACTGACCTTCGGGTGTAAAAACAGAAGAAAGCTCGACTGT
AAGACCCACCT
Found at i:384404 original size:114 final size:111
Alignment explanation
Indices: 384178--384380 Score: 302
Period size: 114 Copynumber: 1.8 Consensus size: 111
384168 GATTTAATGA
*
384178 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGATGGAAAAAGATGGGATT
1 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGAT--G-TT
* ** *
384243 ATGAGGATTATCTCTGGTGCACTGGTGATAATGAAGGGAAGAACATTGG
63 ATGAGGATTATCTCTGGTGAAAAGATGATAATGAAGGGAAGAACATTGG
384292 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGAT-TTAAT
1 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGATGTT-AT
384356 GAGGATTATCTCTGG-GAAAAAGATG
65 GAGGATTATCTCTGGTG-AAAAGATG
384381 TAAATTAGCT
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
110 3 0.04
111 21 0.26
114 58 0.71
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (111 bp):
GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGATGTTATG
AGGATTATCTCTGGTGAAAAGATGATAATGAAGGGAAGAACATTGG
Found at i:388926 original size:114 final size:111
Alignment explanation
Indices: 388700--388902 Score: 311
Period size: 114 Copynumber: 1.8 Consensus size: 111
388690 GATTTAATGA
388700 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGATGGGATT
1 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGAT--G-TT
* ** *
388765 ATGAGGATTATCTCTGGTGCACTGGTGATAATGAAGGGAAGAACATTGG
63 ATGAGGATTATCTCTGGTGAAAAGATGATAATGAAGGGAAGAACATTGG
388814 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGAT-TTAAT
1 GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGATGTT-AT
388878 GAGGATTATCTCTGG-GAAAAAGATG
65 GAGGATTATCTCTGGTG-AAAAGATG
388903 TAAATTAGCT
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
110 3 0.04
111 21 0.25
114 59 0.71
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (111 bp):
GAAATCTCATCTCTGTGGGAACCTTAGAATCAAAAGGTTTAGAAGTGAGGGAAAAAGATGTTATG
AGGATTATCTCTGGTGAAAAGATGATAATGAAGGGAAGAACATTGG
Found at i:396302 original size:13 final size:13
Alignment explanation
Indices: 396284--396324 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
396274 ATCAAAACAA
396284 AAATTAAACATGT
1 AAATTAAACATGT
*
396297 AAATTAAACA--A
1 AAATTAAACATGT
396308 AAATTAAACATGT
1 AAATTAAACATGT
396321 AAAT
1 AAAT
396325 GATTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (13 bp):
AAATTAAACATGT
Found at i:396309 original size:24 final size:24
Alignment explanation
Indices: 396278--396324 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
396268 TGGGCGATCA
396278 AAACAAAAATTAAACATGTAAATT
1 AAACAAAAATTAAACATGTAAATT
396302 AAACAAAAATTAAACATGTAAAT
1 AAACAAAAATTAAACATGTAAAT
396325 GATTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (24 bp):
AAACAAAAATTAAACATGTAAATT
Found at i:396311 original size:11 final size:11
Alignment explanation
Indices: 396278--396317 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
396268 TGGGCGATCA
396278 AAACAAAAATT
1 AAACAAAAATT
*
396289 AAACATGTAAATT
1 AAACA--AAAATT
396302 AAACAAAAATT
1 AAACAAAAATT
396313 AAACA
1 AAACA
396318 TGTAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 15 0.60
13 10 0.40
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (11 bp):
AAACAAAAATT
Found at i:397994 original size:42 final size:42
Alignment explanation
Indices: 397933--398015 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
397923 TTACGAAATC
* *
397933 TCGTGTTTGTTTTATGTAATTCGTTTTCCGGAAAATATTTTT
1 TCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTT
*
397975 TCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTT
1 TCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTT
398016 CCAGTGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (42 bp):
TCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTT
Found at i:398023 original size:42 final size:42
Alignment explanation
Indices: 397934--398025 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
397924 TACGAAATCT
* * * *
397934 CGTGTTTGTTTTATGTAATTCGTTTTCCGGAAAATATTTTTT
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATAGTTTTC
397976 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAAT-GTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATAGTTTTC
398017 CAGTGTTTG
1 C-GTGTTTG
398026 GTTGGAGGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATAGTTTTC
Found at i:398285 original size:22 final size:22
Alignment explanation
Indices: 398257--398305 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
398247 ATGTATTTAT
398257 TAATATTTCTAATAATATAATA
1 TAATATTTCTAATAATATAATA
* *
398279 TAATATTTTTAATATTATAATA
1 TAATATTTCTAATAATATAATA
*
398301 AAATA
1 TAATA
398306 ATCAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTCTAATAATATAATA
Done.