Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2057
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: 447875
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:645 original size:13 final size:13
Alignment explanation
Indices: 627--651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
617 AAAAATAATA
627 TGTATCGATACAT
1 TGTATCGATACAT
640 TGTATCGATACA
1 TGTATCGATACA
652 AACACTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1582 original size:44 final size:48
Alignment explanation
Indices: 1528--1635 Score: 116
Period size: 49 Copynumber: 2.3 Consensus size: 48
1518 AAAGGCTCTT
* * * *
1528 ATTGGCCTTAACGGT-G-CCCAA-TATGCTGATTCAAGGCCAGCT-CC
1 ATTGGACTTAAAGGTGGTCCCAATTATGCTGATTCAAGGCCAACTAAC
* *
1572 ATTGGACTTAAAGGTGAGGTGCCAATTGTGCTGATTCAAGGCCAACTAAC
1 ATTGGACTTAAAGGT--GGTCCCAATTATGCTGATTCAAGGCCAACTAAC
1622 ATTGGACTTAAAGG
1 ATTGGACTTAAAGG
1636 ATGAAGGTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
44 13 0.25
47 1 0.02
48 4 0.08
49 19 0.37
50 15 0.29
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (48 bp):
ATTGGACTTAAAGGTGGTCCCAATTATGCTGATTCAAGGCCAACTAAC
Found at i:1593 original size:49 final size:48
Alignment explanation
Indices: 1540--2229 Score: 568
Period size: 48 Copynumber: 13.9 Consensus size: 48
1530 TGGCCTTAAC
* *
1540 GGTGCCCAATATGCTGATTCAAGGCCAGCTCCATTGGACTTAAAGGTGA
1 GGTG-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGA
*
1589 GGTGCCAATTGTGCTGATTCAAGGCCAACTAACATTGGACTTAAAGGATGAA
1 GGTGCCAA-TGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGG-TG-A
* * * *
1641 GGTGCCCATGTGCTGAGGTCAAGG-CAGCTACATTGGACTTAAAGATAAAA
1 GGTGCCAATGTGCTGA-TTCAAGGCCAGCTACATTGGACTTAAAGGT--GA
* * *
1691 GGTGCCAATATGCTGATTCAAGGGCCAGCTATTTATTGGACTTAATGGTGA
1 GGTGCCAATGTGCTGATTCAA-GGCCAGCTA--CATTGGACTTAAAGGTGA
* * * * *
1742 -GTGCCAATGGGCTGATTCACGGCCAGCTACATTGGCCTTAAAGATAAA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GA
* *
1790 GGTGGCC-ATATGC-GATTCAAGGCCAGCTATATTGGGGACTT-AA--T--
1 GGT-GCCAATGTGCTGATTCAAGGCCAGCTACATT--GGACTTAAAGGTGA
*
1834 GGTGCCAATGTGCTGAGTCAACGGCCAGCACCAGTACATTGGACTTAAAGGTGA
1 GGTGCCAATGTGCTGATTCAA-GGCCAG---C--TACATTGGACTTAAAGGTGA
* *
1888 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-A
* * * * *
1937 GGTGCCAATATGCTTGATTTCAGGGCCAGCTATTATTGGGCTTAATGGTGAAA
1 GGTGCCAATGTGC-TGA-TTCAAGGCCAGCTA-CATTGGACTTAAAGGTG--A
* * * *
1990 GGTGCCAATGTGCTGAGTCACAGGGCCCAGCTAC-CTGGACTTAAAGATAAA
1 GGTGCCAATGTGCTGATTCA-A-GG-CCAGCTACATTGGACTTAAAGGT-GA
* *
2041 GGTGCCAATATGCTGATTCAAGGCCAGCT-CTCTTGGACTT-AA--T--
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTAC-ATTGGACTTAAAGGTGA
2084 GGTGCCCAATGTGCTGATGTCAAGGCCCAGCTACCAATTGGACTTTAAAGGTGA
1 GGTG-CCAATGTGCTGAT-TCAAGG-CCAGCTA-C-ATTGGAC-TTAAAGGTGA
* *
2138 TGGTGCCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGATGAA
1 -GGTG-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-A
* * *
2188 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAA
1 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
2230 GATAGGGTTG
Statistics
Matches: 527, Mismatches: 60, Indels: 108
0.76 0.09 0.16
Matches are distributed among these distances:
43 7 0.01
44 20 0.04
45 12 0.02
46 13 0.02
47 14 0.03
48 88 0.17
49 86 0.16
50 84 0.16
51 67 0.13
52 43 0.08
53 42 0.08
54 34 0.06
55 17 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGA
Found at i:1881 original size:99 final size:96
Alignment explanation
Indices: 1552--2224 Score: 354
Period size: 99 Copynumber: 6.8 Consensus size: 96
1542 TGCCCAATAT
* * * * * *
1552 GCTGATTCAAGGCCAGCTCCATTGGACTTAAAGGT-GAGGTGCCAATTGTGCTGATTCAAGGCCA
1 GCTGAGTCACGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAA-TATGCTGATTCAAGGCCA
* * * *
1616 ACTAACATT--GGACTTAAAGGATGAAGGTGCCCATGT
65 GCT-ATATTGGGGACTT-AA-G-TG-A-GTGCCAATGG
*
1652 GCTGAGGTCAAGG-CAGCTACATTGGACTTAAAGATAAAAGGTGCCAATATGCTGATTCAAGGGC
1 GCTGA-GTCACGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATGCTGATTCAA-GGC
1716 CAGCTATTTATT--GGACTTAATGGTGAGTGCCAATGG
63 CAGCTA--TATTGGGGACTTAA--GTGAGTGCCAATGG
* *
1752 GCTGATTCACGGCCAGCTACATTGGCCTTAAAGATAAAGGTGGCC-ATATGC-GATTCAAGGCCA
1 GCTGAGTCACGGCCAGCTACATTGGACTTAAAGATAAAGGT-GCCAATATGCTGATTCAAGGCCA
*
1815 GCTATATTGGGGACTTAA-TG-GTGCCAATGT
65 GCTATATTGGGGACTTAAGTGAGTGCCAATGG
* * * *
1845 GCTGAGTCAACGGCCAGCACCAGTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGAGTCAA
1 GCTGAGTC-ACGGCCAG---C--TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* **
1909 GGCCAGCTACATT--GGACTTAAAGATGAAGGTGCCAATAT
60 GGCCAGCTATATTGGGGACTT-AAG-TG-A-GTGCCAATGG
* * * * * * * *
1948 GCTTGATTTCAGGGCCAGCTATTATTGGGCTTAATGGTGAAAGGTGCCAATGTGCTGAGTCACAG
1 GC-TGA-GTCACGGCCAGCTA-CATTGGACTTAAAGAT-AAAGGTGCCAATATGCTGATTCA-A-
** * **
2013 GGCCCAGCTA-CCT--GGACTTAAAGATAAAGGTGCCAATAT
60 GG-CCAGCTATATTGGGGACTT-AAG-T-GA-GTGCCAATGG
* * * *
2052 GCTGATTCAAGGCCAGCT-CTCTTGGACTT--A-AT---GGTGCCCAATGTGCTGATGTCAAGGC
1 GCTGAGTCACGGCCAGCTAC-ATTGGACTTAAAGATAAAGGTG-CCAATATGCTGAT-TCAAGG-
* *
2110 CCAGCTACCAATT--GGACTTTAAAGGTGATGGTGCCCAATGT
62 CCAGCTA--TATTGGGGAC-TT-AA-GTGA--GTG-CCAATGG
* *
2151 GCTGAGTCAAGGCCAGCTACATTGGACTT-AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGAGTCACGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
2215 CTATATTGGG
66 CTATATTGGG
2225 CTTAAGATAG
Statistics
Matches: 476, Mismatches: 45, Indels: 103
0.76 0.07 0.17
Matches are distributed among these distances:
93 16 0.03
94 24 0.05
95 17 0.04
96 3 0.01
97 33 0.07
98 29 0.06
99 88 0.18
100 79 0.17
101 38 0.08
102 59 0.12
103 38 0.08
104 43 0.09
105 9 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (96 bp):
GCTGAGTCACGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
CTATATTGGGGACTTAAGTGAGTGCCAATGG
Found at i:2043 original size:104 final size:97
Alignment explanation
Indices: 1540--2217 Score: 424
Period size: 100 Copynumber: 6.8 Consensus size: 97
1530 TGGCCTTAAC
* *
1540 GGTGCCCAATATGCTGATTCAAGGCCAGCTCCATTGGACTTAAAGGTGAGGTGCCAATTGTGCTG
1 GGTG-CCAATATGCTGATTCAAGGCCAGCTCTATTGGACTTAATGGTGAGGTGCCAA-TGTGCTG
* * * *
1605 ATTCAAGGCCAACTAACATTGGACTTAAAGGATGAA
64 AGTCAAGGCCAGCT-ACACTGGACTTAAA-GATAAA
* * * * * * *
1641 GGTGCCCATGTGCTGAGGTCAAGG-CAGCTAC-ATTGGACTTAAAGATAAAAGGTGCCAATATGC
1 GGTGCCAATATGCTGA-TTCAAGGCCAGCT-CTATTGGACTTAATGGT--GAGGTGCCAATGTGC
* * * * * *
1704 TGATTCAAGGGCCAGCTATTTATTGGACTTAATGGT-GA
62 TGAGTCAA-GGCCAGCTA--CACTGGACTTAAAGATAAA
** * * * * * *
1742 -GTGCCAATGGGCTGATTCACGGCCAGCTAC-ATTGGCCTTAAAGATAAAGGTGGCC-ATATGC-
1 GGTGCCAATATGCTGATTCAAGGCCAGCT-CTATTGGACTTAATGGT-GAGGT-GCCAATGTGCT
* * *
1803 GATTCAAGGCCAGCTATATTGGGGACTT--A-AT---
63 GAGTCAAGGCCAGCTACACT--GGACTTAAAGATAAA
* * * *
1834 GGTGCCAATGTGCTGAGTCAACGGCCAGCACCAGTACATTGGACTTAAAGGTGAGGTGCCAATGT
1 GGTGCCAATATGCTGATTCAA-GGCCAGC-TC--T--ATTGGACTTAATGGTGAGGTGCCAATGT
* *
1899 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
60 GCTGAGTCAAGGCCAGCTACACTGGACTTAAAGATAAA
* * *
1937 GGTGCCAATATGCTTGATTTCAGGGCCAGCTATTATTGGGCTTAATGGTGAAAGGTGCCAATGTG
1 GGTGCCAATATGC-TGA-TTCAAGGCCAGCT-CTATTGGACTTAATGGTG--AGGTGCCAATGTG
2002 CTGAGTCACAGGGCCCAGCTAC-CTGGACTTAAAGATAAA
61 CTGAGTCA-A-GG-CCAGCTACACTGGACTTAAAGATAAA
* *
2041 GGTGCCAATATGCTGATTCAAGGCCAGCTCTCTTGGACTTAATGGT---G-CCCAATGTGCTGAT
1 GGTGCCAATATGCTGATTCAAGGCCAGCTCTATTGGACTTAATGGTGAGGTGCCAATGTGCTGA-
* * * *
2102 GTCAAGGCCCAGCTACCAATTGGACTTTAAAGGTGAT
65 GTCAAGG-CCAGCTA-C-ACTGGAC-TTAAAGATAAA
* * * *
2139 GGTGCCCAATGTGCTGAGTCAAGGCCAGCTAC-ATTGGACTTAA-GATGAAGGTGCCAATATGCT
1 GGTG-CCAATATGCTGATTCAAGGCCAGCT-CTATTGGACTTAATGGTG-AGGTGCCAATGTGCT
*
2202 GATTCAAGGCCAGCTA
63 GAGTCAAGGCCAGCTA
2218 TATTGGGCTT
Statistics
Matches: 477, Mismatches: 53, Indels: 94
0.76 0.08 0.15
Matches are distributed among these distances:
93 17 0.04
94 19 0.04
95 18 0.04
96 5 0.01
97 29 0.06
98 30 0.06
99 82 0.17
100 83 0.17
101 46 0.10
102 59 0.12
103 38 0.08
104 40 0.08
105 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (97 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCTCTATTGGACTTAATGGTGAGGTGCCAATGTGCTGAG
TCAAGGCCAGCTACACTGGACTTAAAGATAAA
Found at i:2181 original size:300 final size:286
Alignment explanation
Indices: 1534--2229 Score: 690
Period size: 300 Copynumber: 2.3 Consensus size: 286
1524 TCTTATTGGC
* * * *
1534 CTTAACGGTGCCCAATATGCTGATTCAAGGCCAGCTCCATTGGACTTAAAGGTGAGGTGCCAATT
1 CTTAATGGTGCCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGCCAA-T
* * *
1599 GTGCTGATTCAAGGCCAACTAACATTGGACTTAAAGGATGAAGGTGCCCATGTGCTGAGGTCAAG
65 GTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGGATGAAGGTGCCAATATGCTGAGGTCAAG
* *
1664 GCAGCTACATTGGACTTAAAGATAAAAGGTGCCAATATGCTGATTCAAGGGCCAGCTATTTATTG
129 GCAGCTACATTGGACTTAAAGATAAAAGGTGCCAATATGCTGAGTCAAGGGCCAGCTA--TACTG
* * * * * *
1729 GACTTAATGGTGAGTGCCAATGGGCTGATTCACGGCCAGCTACATTGGCCTTAAAGATAAAGGTG
192 GACTTAAAGATAAGTGCCAATAGGCTGATTCAAGGCCAGCTACATTGGACTT-AAGAT--AGGTG
* *
1794 GCCATATGCGATTCAAGGCCAGCTATATTGGGGA
254 CCCATATGCGATTCAAGGCCAGCTAAATT-GGGA
1828 CTTAATGGTG-CCAATGTGCTGAGTCAACGGCCAGCACCAGTACATTGGACTTAAAGGTGAGGTG
1 CTTAATGGTGCCCAATGTGCTGAGTCAA-GGCCAG---C--TACATTGGACTTAAAGGTGAGGTG
* **
1892 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-GATGAAGGTGCCAATATGCTTGATT
60 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGATGAAGGTGCCAATATGC-TGAGG
* * * * * * *
1956 TCAGGGCCAGCTATTATTGGGCTTAATGGTGAAAGGTGCCAATGTGCTGAGTCACAGGGCCCAGC
124 TCAAGG-CAGCTA-CATTGGACTTAAAGATAAAAGGTGCCAATATGCTGAGTCA-AGGG-CCAGC
* * *
2021 TA-CCTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT-CTCTTGGACTT-A-
185 TATACTGGACTTAAAGAT-AA-GTGCCAATAGGCTGATTCAAGGCCAGCTAC-ATTGGACTTAAG
*
2082 AT-GGTGCCCAATGTGCTGATGTCAAGGCCCAGCTACCAATT-GGA
247 ATAGGTGCCC-ATATGC-GAT-TCAAGG-CCAGCTA--AATTGGGA
*
2126 CTTTAAAGGTGATGGTGCCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGATGAAGG
1 C-TT--A----ATGGTGCCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGG
* * *
2190 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAA
58 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
2230 GATAGGGTTG
Statistics
Matches: 337, Mismatches: 36, Indels: 52
0.79 0.08 0.12
Matches are distributed among these distances:
293 15 0.04
294 21 0.06
295 5 0.01
296 20 0.06
297 31 0.09
298 48 0.14
299 69 0.20
300 90 0.27
301 8 0.02
302 1 0.00
305 12 0.04
306 17 0.05
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (286 bp):
CTTAATGGTGCCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGCCAATG
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGATGAAGGTGCCAATATGCTGAGGTCAAGGC
AGCTACATTGGACTTAAAGATAAAAGGTGCCAATATGCTGAGTCAAGGGCCAGCTATACTGGACT
TAAAGATAAGTGCCAATAGGCTGATTCAAGGCCAGCTACATTGGACTTAAGATAGGTGCCCATAT
GCGATTCAAGGCCAGCTAAATTGGGA
Found at i:2202 original size:147 final size:149
Alignment explanation
Indices: 1540--2235 Score: 518
Period size: 147 Copynumber: 4.7 Consensus size: 149
1530 TGGCCTTAAC
* * * * *
1540 GGTGCCCAATATGCTGATTCAA-GGCCAGCTCCATTGGACTTAAAGGTG-AGGTGCCAATTGTGC
1 GGTG-CCAATGTGCTGAGTCAACGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA-TATGC
* * * *
1603 TGATTCAAGGCCAACTAACATTGGACTTAAAGGATGAAGGTGCCCATGTGC-TGAGGTCAAGG--
64 TGATTCAAGGCCAGCT-ACATTGGACTT-AA-GAT--AGGTGCCAATATGCTTGATGTC-AGGCC
* * *
1665 CAGCTAC-ATTGGACTTAAAGATAAAA
123 CAGCTACAATTGGACTTAAAGGTGAAT
* * * * * * **
1691 GGTGCCAATATGCTGATTCAAGGGCCAGCTATTTATTGGACTTAATGGTG-A-GTGCCAATGGGC
1 GGTGCCAATGTGCTGAGTCAACGGCCAGCTA--CATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1754 TGATTCACGGCCAGCTACATTGGCCTTAAAGATAAAGGTGGCC-ATATGC--GAT-TCAAGG-CC
64 TGATTCAAGGCCAGCTACATTGGACTT-AAGAT--AGGT-GCCAATATGCTTGATGTC-AGGCCC
*
1814 AGCTA-TATTGGGGAC-T-----T-AAT
124 AGCTACAATT--GGACTTAAAGGTGAAT
* *
1834 GGTGCCAATGTGCTGAGTCAACGGCCAGCACCAGTACATTGGACTTAAAGGTG-AGGTGCCAATG
1 GGTGCCAATGTGCTGAGTCAACGGCCAG---C--TACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1898 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTTGATTTCAGGGC
61 TGCTGATTCAAGGCCAGCTACATTGGACTT-AAGAT--AGGTGCCAATATGCTTGATGTCAGGCC
** * * *
1963 CAGCTATTATTGGGCTTAATGGTGAAA
123 CAGCTACAATTGGACTTAAAGGTGAAT
* * *
1990 GGTGCCAATGTGCTGAGTCACAGGGCCCAGCTAC-CTGGACTTAAAGATAAAGGTGCCAATATGC
1 GGTGCCAATGTGCTGAGTCA-ACGG-CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
2054 TGATTCAAGGCCAGCT-CTCTTGGACTT-A-AT-GGTGCCCAATGTGC-TGATGTCAAGGCCCAG
64 TGATTCAAGGCCAGCTAC-ATTGGACTTAAGATAGGTG-CCAATATGCTTGATGTC-AGGCCCAG
2114 CTACCAATTGGACTTTAAAGGTG-AT
126 CTA-CAATTGGAC-TTAAAGGTGAAT
2139 GGTGCCCAATGTGCTGAGTCAA-GGCCAGCTACATTGGACTT-AAGATGAAGGTGCCAATATGCT
1 GGTG-CCAATGTGCTGAGTCAACGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* *
2202 GATTCAAGGCCAGCTATATTGGGCTTAAGATAGG
65 GATTCAAGGCCAGCTACATTGGACTTAAGATAGG
2236 GTTGCCACCG
Statistics
Matches: 461, Mismatches: 43, Indels: 83
0.79 0.07 0.14
Matches are distributed among these distances:
143 27 0.06
144 1 0.00
146 20 0.04
147 119 0.26
148 41 0.09
149 37 0.08
150 75 0.16
151 35 0.08
152 20 0.04
153 55 0.12
155 2 0.00
156 22 0.05
157 3 0.01
158 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (149 bp):
GGTGCCAATGTGCTGAGTCAACGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
ATTCAAGGCCAGCTACATTGGACTTAAGATAGGTGCCAATATGCTTGATGTCAGGCCCAGCTACA
ATTGGACTTAAAGGTGAAT
Found at i:4234 original size:1 final size:1
Alignment explanation
Indices: 4228--4348 Score: 98
Period size: 1 Copynumber: 121.0 Consensus size: 1
4218 CGGGGACCCC
* * * * * * *
4228 TTTTTTTTTGTTTGTTTGTTTTTTTTTGTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** ** * * * *
4293 GTTTTTTCGTTTTTTTCGTTTTTTTTTTTTTGTGTTTTGTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4349 GGAGGACGTC
Statistics
Matches: 90, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (1 bp):
T
Found at i:4251 original size:18 final size:18
Alignment explanation
Indices: 4228--4349 Score: 130
Period size: 17 Copynumber: 7.0 Consensus size: 18
4218 CGGGGACCCC
4228 TTTTTTTTTGTTTGTTTG
1 TTTTTTTTTGTTTGTTTG
4246 TTTTTTTTTGTTT-TTTG
1 TTTTTTTTTGTTTGTTTG
*
4263 TTTTTTTTTTGTTTTTTTG
1 -TTTTTTTTTGTTTGTTTG
4282 -TTTTTTTT-TTTGTTT-
1 TTTTTTTTTGTTTGTTTG
* * *
4297 TTTCGTTTTT-TTCGTTTT
1 TTT-TTTTTTGTTTGTTTG
*
4315 TTTTTTTTTGTGT-TTTG
1 TTTTTTTTTGTTTGTTTG
*
4332 TTTTTTTTTGTTTTTTTG
1 TTTTTTTTTGTTTGTTTG
4350 GAGGACGTCT
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.09
17 43 0.48
18 34 0.38
19 4 0.04
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTGTTTGTTTG
Found at i:4291 original size:31 final size:31
Alignment explanation
Indices: 4230--4348 Score: 124
Period size: 31 Copynumber: 3.8 Consensus size: 31
4220 GGGACCCCTT
4230 TTTTTTTGTTTGTTTGTTTT-TTTTTGTTTTTTG
1 TTTTTTT-TTTGTTT-TTTTGTTTTT-TTTTTTG
4263 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTTG
1 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTTG
*
4294 ---TTTTTTCGTTTTTTTCGTTTTTTTTTTT-
1 TTTTTTTTTTGTTTTTTT-GTTTTTTTTTTTG
*
4322 TTGTGTTTTGTT-TTTTTTTGTTTTTTT
1 TT-T-TTTTTTTGTTTTTTTGTTTTTTT
4349 GGAGGACGTC
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
28 14 0.18
29 12 0.16
31 19 0.25
32 19 0.25
33 12 0.16
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (31 bp):
TTTTTTTTTTGTTTTTTTGTTTTTTTTTTTG
Found at i:14079 original size:10 final size:10
Alignment explanation
Indices: 14064--14090 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14054 ATGTATCAAG
14064 CAAAAACAAA
1 CAAAAACAAA
14074 CAAAAACAAA
1 CAAAAACAAA
14084 CAAAAAC
1 CAAAAAC
14091 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:17175 original size:33 final size:33
Alignment explanation
Indices: 17115--17245 Score: 139
Period size: 33 Copynumber: 4.1 Consensus size: 33
17105 GGCACCTTTT
* * *
17115 TTTTCTTTTTAAAGCCCGCAACTTTGTGGCACTC
1 TTTTCCTTTT-AAGCCCACAACTCTGTGGCACTC
* *
17149 TTTTCCTTTTAAGTCCACAACTTTGTGGCA--C
1 TTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
*
17180 ----CCTTTTAAGCCCGCAACTCTGTGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
* *
17209 TTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
17242 TTTT
1 TTTT
17246 AAGCCCACAA
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
27 23 0.28
29 1 0.01
31 1 0.01
33 48 0.59
34 9 0.11
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.39
Consensus pattern (33 bp):
TTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
Found at i:17196 original size:27 final size:28
Alignment explanation
Indices: 17121--17294 Score: 136
Period size: 27 Copynumber: 5.9 Consensus size: 28
17111 TTTTTTTTCT
*
17121 TTTTAAAGCCCGCAACTTTGTGGCACTCTTTTCC
1 TTTT-AAGCCCACAACTTTGTGGCAC-C----CC
*
17155 TTTTAAGTCCACAACTTTGTGGCA-CCC
1 TTTTAAGCCCACAACTTTGTGGCACCCC
* *
17182 TTTTAAGCCCGCAACTCTGTGGCACTCTTTTCC
1 TTTTAAGCCCACAACTTTGTGGCAC-C----CC
* *
17215 TTTTAAGTCCACAACTCTGTGGCA-CCC
1 TTTTAAGCCCACAACTTTGTGGCACCCC
* *
17242 TTTTAAGCCCACAAGTTGGTGGCACCCC
1 TTTTAAGCCCACAACTTTGTGGCACCCC
* *
17270 TTTTAAAGCCCACAAGTTAGTGGCA
1 TTTT-AAGCCCACAACTTTGTGGCA
17295 ACGTTCAAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
27 45 0.38
28 7 0.06
29 20 0.17
31 2 0.02
33 42 0.35
34 4 0.03
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (28 bp):
TTTTAAGCCCACAACTTTGTGGCACCCC
Found at i:17196 original size:60 final size:60
Alignment explanation
Indices: 17121--17266 Score: 238
Period size: 60 Copynumber: 2.4 Consensus size: 60
17111 TTTTTTTTCT
*
17121 TTTTAAAGCCCGCAACTTTGTGGCACTCTTTTCCTTTTAAGTCCACAACTTTGTGGCACCC
1 TTTT-AAGCCCGCAACTTTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
*
17182 TTTTAAGCCCGCAACTCTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGCCCGCAACTTTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* * *
17242 TTTTAAGCCCACAAGTTGGTGGCAC
1 TTTTAAGCCCGCAACTTTGTGGCAC
17267 CCCTTTTAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 75 0.95
61 4 0.05
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (60 bp):
TTTTAAGCCCGCAACTTTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:17404 original size:65 final size:64
Alignment explanation
Indices: 17326--17550 Score: 326
Period size: 65 Copynumber: 3.5 Consensus size: 64
17316 GATGCAACCC
* *
17326 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAGCCCACACAAGTCAGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTCAAAGCCCACACAAGTCGGTGGCAACCTT
*
17391 TTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCT-AAAGCCCACACAAGTCGGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTT
* * * *
17454 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCAT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCTT
* * * *
17519 TCTCTAAAACCTACAGAAGTCGGTGGCAACCT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCT
17551 CTAAGTCCAA
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
63 59 0.41
64 3 0.02
65 82 0.57
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (64 bp):
TTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:17405 original size:33 final size:33
Alignment explanation
Indices: 17326--17550 Score: 316
Period size: 33 Copynumber: 7.0 Consensus size: 33
17316 GATGCAACCC
17326 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
17359 TTTC-AAAGCCCACACAAGTCAGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
17391 TTTCTAAAGCCCACACAAGTTGGTGGCAACC--
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
17422 -TTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* *
17454 CTTCTAAAGCCCACACAAGTCGGTGGCAACC-C
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* * *
17486 TCTCTAAAGCCCACACAAGTTGGTGGCAACCAT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* * * *
17519 TCTCTAAAACCTACAGAAGTCGGTGGCAACCT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCT
17551 CTAAGTCCAA
Statistics
Matches: 173, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
30 29 0.17
32 59 0.34
33 85 0.49
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (33 bp):
TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:17475 original size:128 final size:124
Alignment explanation
Indices: 17273--17554 Score: 347
Period size: 128 Copynumber: 2.3 Consensus size: 124
17263 GCACCCCTTT
* * * *
17273 TAAAG-CC-CACAAGTTAGTGGCAACGTTCAAAAGCACACAAGTTGATGCAACCCTTTCTAAAGC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTCTAAAGCACACAAGTCGATGCAACCCTTTCTAAAGC
* * * *
17336 CCACACAAGTCGGTGGCAA-CCTTTTTCAAAGCCCACACAAGTCAGTGGCAACCTTTTTC
66 CCACACAAGTCGGTGGCAACCCTCTCT-AAAGCCCACACAAGTCAGTGGCAACCATTCTC
* *
17395 TAAAGCCCACACAAGTTGGTGGCAACCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTA
1 TAAAGCCCACACAAGTTGGTGGCAACCTTCTAAAG--CACACAAGTCGAT-GCAACCCT-TTCTA
**
17460 AAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTC
62 AAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCAGTGGCAACCATTCTC
* * * *
17523 TAAAACCTACAGAAGTCGGTGGCAACC-TCTAA
1 TAAAGCCCACACAAGTTGGTGGCAACCTTCTAA
17555 GTCCAATATC
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
122 5 0.04
123 2 0.01
124 23 0.17
126 11 0.08
127 12 0.09
128 79 0.58
129 5 0.04
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (124 bp):
TAAAGCCCACACAAGTTGGTGGCAACCTTCTAAAGCACACAAGTCGATGCAACCCTTTCTAAAGC
CCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCAGTGGCAACCATTCTC
Found at i:17665 original size:43 final size:44
Alignment explanation
Indices: 17598--17967 Score: 399
Period size: 43 Copynumber: 8.1 Consensus size: 44
17588 GCACCTTCAT
* * *
17598 CTTTAAGGCCAATGTAGCTCGCCTTGAATCAGCACATTGGCA-C
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
* *
17641 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC
*
17688 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
* *
17733 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----T-C
*
17783 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
* * *
17827 CTTGTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTAT
1 CTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----T-C
*
17877 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
* *
17920 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
17964 CTTT
1 CTTT
17968 TTCTCATCTT
Statistics
Matches: 279, Mismatches: 24, Indels: 47
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.01
43 151 0.54
44 5 0.02
45 1 0.00
47 1 0.00
49 75 0.27
50 4 0.01
52 39 0.14
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
Found at i:17714 original size:92 final size:92
Alignment explanation
Indices: 17542--17958 Score: 683
Period size: 92 Copynumber: 4.5 Consensus size: 92
17532 CAGAAGTCGG
* * *
17542 TGGCAACCTCTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCACCTTCATCTTTAAGGC
1 TGGC-ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
*
17607 CAATGTAGCTCGCCTTGAATCAGCACAT
65 CAATGTAGCTGGCCTTGAATCAGCACAT
*
17635 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCC
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
17700 AATGTAGCTGGCCTTGAATCAGCACAT
66 AATGTAGCTGGCCTTGAATCAGCACAT
* *
17727 TGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAG
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAG
17792 TCCAATGTAGCTGGCCTTGAATCAGCACAT
63 TCCAATGTAGCTGGCCTTGAATCAGCACAT
* * *
17822 TGGCA-CTTGTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTATCTTTAAGTC
1 TGGCACCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
17886 CAATGTAGCTGGCCTTGAATCAGCACAT
65 CAATGTAGCTGGCCTTGAATCAGCACAT
*
17914 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
17959 ACATCCTTTT
Statistics
Matches: 305, Mismatches: 14, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
92 208 0.68
93 9 0.03
94 5 0.02
95 83 0.27
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
AATGTAGCTGGCCTTGAATCAGCACAT
Found at i:17735 original size:21 final size:20
Alignment explanation
Indices: 17711--17778 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
17701 ATGTAGCTGG
17711 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
17732 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
17753 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
17775 CCTT
1 CCTT
17779 TTCCATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:17864 original size:187 final size:187
Alignment explanation
Indices: 17542--17980 Score: 699
Period size: 187 Copynumber: 2.3 Consensus size: 187
17532 CAGAAGTCGG
*
17542 TGGCAACCTCTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCACC--TT-CATCTTTAA
1 TGGC-ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCACCTTTTCCATCTTTAA
*
17604 GGCCAATGTAGCTCGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
65 GGCCAATGTAGCTCGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAA
*
17669 TCAGCATATTGGCACCTTCT-TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
130 TCAGCATATTAGCACCTT-TATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * *
17727 TGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAG
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCACCTTTTCCATCTTTAAG
* *
17792 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTGTAAGTCCAATATAGCTGGCCTTGAA
66 GCCAATGTAGCTCGCCTTGAATCAGCACATTGGCACCTT-TAAGTCCAATATAGCTGGCCTTGAA
17856 TCAGCATATTAGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
130 TCAGCATATTAGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
17914 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTT
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCA-CC-TTTTC-CATCTTT
17979 AA
63 AA
17981 ACCCAATATC
Statistics
Matches: 234, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
184 42 0.18
185 4 0.02
186 6 0.03
187 166 0.71
188 2 0.01
189 5 0.02
190 9 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (187 bp):
TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCACCTTTTCCATCTTTAAG
GCCAATGTAGCTCGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAAT
CAGCATATTAGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:18675 original size:13 final size:13
Alignment explanation
Indices: 18657--18713 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
18647 CATAAAGTAT
18657 TGTATCGATACAA
1 TGTATCGATACAA
18670 TGTATCGATACATAA
1 TGTATCGATAC--AA
18685 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
18702 CGTATCGATACA
1 TGTATCGATACA
18714 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18694 original size:19 final size:18
Alignment explanation
Indices: 18635--18732 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
18625 ATTTCAACGA
*
18635 TTTGTACCGATACATAAAG
1 TTTGTATCGATACAT-AAG
18654 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
18670 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
18686 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
18702 --CGTATCGATACATAAG
1 TTTGTATCGATACATAAG
18718 TTTTGTATCGATACA
1 -TTTGTATCGATACA
18733 ATGTAAGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.37
20 11 0.17
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:18697 original size:32 final size:32
Alignment explanation
Indices: 18637--18737 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
18627 TTCAACGATT
*
18637 TGTACCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
18670 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
* *
18702 CGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
18734 TGTA
1 TGTA
18738 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 51 0.81
33 12 0.19
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:18793 original size:13 final size:13
Alignment explanation
Indices: 18775--18832 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
18765 ATTACTCAAA
18775 TGTATCGATACAT
1 TGTATCGATACAT
* *
18788 TGTATCGATGCAC
1 TGTATCGATACAT
18801 TG-ATC--T---T
1 TGTATCGATACAT
18808 TGTATCGATACAT
1 TGTATCGATACAT
18821 TGTATCGATACA
1 TGTATCGATACA
18833 GGCAAATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 3 0.08
10 2 0.06
12 3 0.08
13 26 0.72
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18893 original size:52 final size:52
Alignment explanation
Indices: 18828--18942 Score: 196
Period size: 52 Copynumber: 2.2 Consensus size: 52
18818 CATTGTATCG
*
18828 ATACAGGCAAATTTGCCCAGATGTATCGATACACTAT-AAATTGTATCGATAC
1 ATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA-TGTATCGATAC
18880 ATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAATGTATCGATAC
1 ATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAATGTATCGATAC
*
18932 ATGCAGGCAAA
1 ATACAGGCAAA
18943 ATTTCATATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 57 0.95
53 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (52 bp):
ATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAATGTATCGATAC
Found at i:22226 original size:20 final size:20
Alignment explanation
Indices: 22201--22240 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22191 GCCTACATGC
22201 AAAGAATGTATCGATACATT
1 AAAGAATGTATCGATACATT
22221 AAAGAATGTATCGATACATT
1 AAAGAATGTATCGATACATT
22241 TGGGTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
AAAGAATGTATCGATACATT
Found at i:23510 original size:28 final size:29
Alignment explanation
Indices: 23465--23527 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
23455 TCGGGGTTAG
***
23465 AGTATCCCCTCGGGAATAACGAGGTT-GA
1 AGTATCCCCTCAAAAATAACGAGGTTGGA
*
23493 AGTATCCCCTCAAAAATAACGGGGTTGGA
1 AGTATCCCCTCAAAAATAACGAGGTTGGA
23522 A-TATCC
1 AGTATCC
23528 TCGATTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
AGTATCCCCTCAAAAATAACGAGGTTGGA
Found at i:23878 original size:159 final size:156
Alignment explanation
Indices: 23547--23949 Score: 474
Period size: 159 Copynumber: 2.5 Consensus size: 156
23537 AAAAATCAGT
** * *
23547 GAATAAAATTGGGGTTGGAGTATTCCCTCAAAAATAACAGGGTTGAAGTATCC-CGATGGTGGAA
1 GAATAAAACCGGGGTTGGAGTATCCCCTC-AAAATAAC-GGGTTGAAGTATCCTCGATGGTGAAA
* * * * * *
23611 AA-TCAGTGTTTTAGAATTAAAATCAGGGTTGGAGTATCCCCTTGGAAATAAGAGGTTGGAGTAT
64 AATTGA-TATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAAGAGGTTAGAGTAT
23675 CCCCGATAGTGGAAAAATCAATATTTTAG
128 CCCCGATAGTGGAAAAATCAATATTTTAG
* *
23704 GAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCTTGATGGTGAAA
1 GAATAAAACCGGGGTTGGAGTATCCCCTC-AAAATAACGGG-TTGAAGTATCCTCGATGGTGAAA
* *
23769 AATTGATATTTTAGAAATAAAATC-GAGGTTGGAGTATTCCCTCGAAAATAATAGGGTTAGAGTA
64 AATTGATATTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTCGAAAATAAGA-GGTTAGAGTA
** ** *
23833 TCCTTGATAGTGGAAAAATCGGTGTTTTAG
127 TCCCCGATAGTGGAAAAATCAATATTTTAG
* *
23863 GAATAAAACCGGGGTTAGAGTATCTCCTCAGAAATAACGGGGTT-AGAGTAT-CTCCGATGGTGA
1 GAATAAAACCGGGGTTGGAGTATCCCCTCA-AAATAAC-GGGTTGA-AGTATCCT-CGATGGTGA
*
23926 AAAATTGATATTTTAAAAATAAAA
62 AAAATTGATATTTTAGAAATAAAA
23950 ACATCAATGA
Statistics
Matches: 212, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
156 3 0.01
157 45 0.21
158 54 0.25
159 107 0.50
160 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (156 bp):
GAATAAAACCGGGGTTGGAGTATCCCCTCAAAATAACGGGTTGAAGTATCCTCGATGGTGAAAAA
TTGATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAAGAGGTTAGAGTATCCC
CGATAGTGGAAAAATCAATATTTTAG
Found at i:23884 original size:80 final size:79
Alignment explanation
Indices: 23547--23949 Score: 349
Period size: 79 Copynumber: 5.1 Consensus size: 79
23537 AAAAATCAGT
* * *
23547 GAATAAAATTGGGGTTGGAGTATTCCCTCAAAAATAACAGGGTTGAAGTATCC-CGATGGTGG-A
1 GAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTTG-AGTATCCTCGATAGTGGAA
* *
23610 AAATCAGTGTTTTA-
65 AAATCAATATTTTAG
* * * * * *
23624 GAATTAAAATCAGGGTTGGAGTATCCCCTTGGAAATAAGA-GGTTGGAGTATCCCCGATAGTGGA
1 GAA-TAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTT-GAGTATCCTCGATAGTGGA
23688 AAAATCAATATTTTAG
64 AAAATCAATATTTTAG
* * * * *
23704 GAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAAC-GGGATTGAAGTATCCTTGATGGT-GA
1 GAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACAGGG-TTG-AGTATCCTCGATAGTGGA
**
23767 AAAATTGATATTTTAG
64 AAAATCAATATTTTAG
* * * *
23783 AAATAAAATCGAGGTTGGAGTATTCCCTCGAAAATAATAGGGTTAGAGTATCCTTGATAGTGGAA
1 GAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTT-GAGTATCCTCGATAGTGGAA
** *
23848 AAATCGGTGTTTTAG
65 AAATCAATATTTTAG
* * * *
23863 GAATAAAACCGGGGTTAGAGTA-TCTCCTC-AGAAATAACGGGGTTAGAGTAT-CTCCGATGGT-
1 GAATAAAATCGGGGTTGGAGTATTC-CCTCGA-AAATAACAGGGTT-GAGTATCCT-CGATAGTG
** *
23924 GAAAAATTGATATTTTAA
62 GAAAAATCAATATTTTAG
*
23942 AAATAAAA
1 GAATAAAA
23950 ACATCAATGA
Statistics
Matches: 270, Mismatches: 42, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
77 14 0.05
78 38 0.14
79 137 0.51
80 81 0.30
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
GAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTTGAGTATCCTCGATAGTGGAAA
AATCAATATTTTAG
Found at i:26499 original size:13 final size:13
Alignment explanation
Indices: 26481--26506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26471 TTTAGGCATG
26481 TATCGATACATTT
1 TATCGATACATTT
26494 TATCGATACATTT
1 TATCGATACATTT
26507 ATTGTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
TATCGATACATTT
Found at i:27757 original size:21 final size:21
Alignment explanation
Indices: 27727--27790 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
27717 TAGTTTTTTA
27727 TTTTCTTTTCTATTTTTCCTTT
1 TTTTC-TTTCTATTTTTCCTTT
27749 TTTTCTTTCT-TTTTTCTTCTTT
1 TTTTCTTTCTATTTTTC--CTTT
* *
27771 TTTCTCTCTCTAATTTTCCT
1 TTT-TCTTTCTATTTTTCCT
27791 ACCAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 14 0.39
23 6 0.17
24 5 0.14
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTTCTATTTTTCCTTT
Found at i:27763 original size:11 final size:11
Alignment explanation
Indices: 27747--27775 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
27737 TATTTTTCCT
27747 TTTTTTCTTTC
1 TTTTTTCTTTC
27758 TTTTTTC-TTC
1 TTTTTTCTTTC
27768 TTTTTTCT
1 TTTTTTCT
27776 CTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:27775 original size:10 final size:10
Alignment explanation
Indices: 27734--27775 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
27724 TTATTTTCTT
27734 TTCTATTTTTC
1 TTCT-TTTTTC
*
27745 CT-TTTTTTC
1 TTCTTTTTTC
27754 TTTCTTTTTTC
1 -TTCTTTTTTC
27765 TTCTTTTTTC
1 TTCTTTTTTC
27775 T
1 T
27776 CTCTCTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.22
10 13 0.48
11 8 0.30
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:28304 original size:16 final size:17
Alignment explanation
Indices: 28283--28321 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
28273 ATTTTAAGGA
28283 AAAAATGAA-AATTTAT
1 AAAAATGAAGAATTTAT
*
28299 AAAAATGAATGAATTTCT
1 AAAAATGAA-GAATTTAT
28317 AAAAA
1 AAAAA
28322 CTGATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAAATGAAGAATTTAT
Found at i:28569 original size:166 final size:163
Alignment explanation
Indices: 28144--28693 Score: 594
Period size: 164 Copynumber: 3.3 Consensus size: 163
28134 TGAAATAATT
* * * * *
28144 TGAATTTTTCAAAAAC-GATTTAATGTGAATTTAATAACAATATTAGAAGAATTTTAAAAATTAA
1 TGAA-TTTT-AAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTT-AAAATTAA
* * *
28208 AAACCAAGAAAAATCCCCCCAAAACATCTACGGAGTAGAAAACTCCGTATTTCGAAAATAGGAGA
63 AAACCAAGAAAAATCCCCCCAAAACATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAGAAAA
* * *
28273 ATTTTAAGG-AAAAAATG-AAAATTTATAAAAATGAA
128 ATTTCAAGGAAAAAAATGAAAAACTCAT-AAAATGAA
* *
28308 TGAATTTCTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATTAATTATAAAAATTAAA
1 TGAATTT-TAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATT-TTAAAATTAAA
* *
28373 AACCAAGAAAAATCCCCCCAAAACATTTACGGAGTAGAAAACTACGTATTTTGAAAATAGAAAAA
64 AACCAAGAAAAATCCCCCCAAAACATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAGAAAAA
28438 TTTCAAGGAAAAAAATGAAAAACTCATGAAAATGAA
129 TTTCAAGGAAAAAAATGAAAAACTCAT-AAAATGAA
* * * * *
28474 TGAATTATTGAAAACTGATTTAATATAAATTAAATAATAAGATTTGATGAATTTTAAAATTACAT
1 TGAATT-TTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAATTAAAA
** * * * * *
28539 ACTGAGAAAAATCTCCCCGAAAATATTTACGAAGTAAAAAACTCCGTATTTCAAAAATAGAAAAA
65 ACCAAGAAAAATC-CCCCCAAAACATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAGAAAAA
* * *
28604 ATTCTAA--AAGAAAAT-AAATAACTCATAAAATAAAA
129 TTTC-AAGGAAAAAAATGAAA-AACTCATAAAAT-GAA
* * * * *
28639 AGAATTTTTCAAAAA-TGATTTAATGGTG-ATTAAATGATAATATTTAAAGAATTTT
1 TGAA-TTTT-AAAAACTGATTTAAT-ATGAATTAAATAATAATATTTGATGAATTTT
28694 GATGCTTGAA
Statistics
Matches: 330, Mismatches: 43, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
163 9 0.03
164 120 0.36
165 82 0.25
166 116 0.35
167 3 0.01
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (163 bp):
TGAATTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAATTAAAAA
CCAAGAAAAATCCCCCCAAAACATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAGAAAAATT
TCAAGGAAAAAAATGAAAAACTCATAAAATGAA
Found at i:31940 original size:27 final size:27
Alignment explanation
Indices: 31904--31959 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
31894 GTTGATTTTT
31904 ATTTTCTTAAATATAATTATTAATTTC
1 ATTTTCTTAAATATAATTATTAATTTC
31931 ATTTTCTTAAATATAATTATTAATTTC
1 ATTTTCTTAAATATAATTATTAATTTC
31958 AT
1 AT
31960 CATGCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTCTTAAATATAATTATTAATTTC
Found at i:33144 original size:28 final size:29
Alignment explanation
Indices: 33113--33167 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
33103 ATTTGCTCTA
*
33113 AATTAAAT-GTACAAAGA-TGAAAATACTC
1 AATTAAATAGTAAAAAGACT-AAAATACTC
*
33141 AATTCAATAGTAAAAAGACTAAAATAC
1 AATTAAATAGTAAAAAGACTAAAATAC
33168 ACTTTTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.30
29 15 0.65
30 1 0.04
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (29 bp):
AATTAAATAGTAAAAAGACTAAAATACTC
Found at i:33619 original size:20 final size:20
Alignment explanation
Indices: 33582--33635 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
33572 TTCTACAATT
*
33582 TGTATCAATACAATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
33603 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
33623 TATATTGATACAT
1 TGTATCGATACAT
33636 GTTTGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:33784 original size:52 final size:52
Alignment explanation
Indices: 33692--33822 Score: 192
Period size: 52 Copynumber: 2.5 Consensus size: 52
33682 TCTGGAAAGA
* * * *
33692 AAATATATTGATACATTTTT-ATTGTATTGATACATTCTGGGTTTTTGACCC
1 AAATGTATTGATACATTTTTCAATGTATTGAGACATGCTGGGTTTTTGACCC
* *
33743 AAATGTATCGATACATTTTTCAATGTATTGAGATATGCTGGGTTTTTGACCC
1 AAATGTATTGATACATTTTTCAATGTATTGAGACATGCTGGGTTTTTGACCC
*
33795 AAATGTATTGATACATTCTTCAATGTAT
1 AAATGTATTGATACATTTTTCAATGTAT
33823 CAATACATGC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 18 0.25
52 53 0.75
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (52 bp):
AAATGTATTGATACATTTTTCAATGTATTGAGACATGCTGGGTTTTTGACCC
Found at i:35022 original size:13 final size:13
Alignment explanation
Indices: 35004--35031 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34994 CATTACTCAA
35004 TGTATCGATACAT
1 TGTATCGATACAT
35017 TGTATCGATACAT
1 TGTATCGATACAT
35030 TG
1 TG
35032 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:35026 original size:33 final size:33
Alignment explanation
Indices: 34984--35049 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
34974 GCCAAGGAAA
34984 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
35017 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
35050 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:37244 original size:24 final size:26
Alignment explanation
Indices: 37217--37270 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
37207 TCAAAAATTT
37217 ATTCATC-GA-GGACACTCCAACCAC
1 ATTCATCTGAGGGACACTCCAACCAC
* *
37241 ATTCCTCTGAGGGGACACTCCAACCCC
1 ATTCATCTGA-GGGACACTCCAACCAC
37268 ATT
1 ATT
37271 TTCAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 2 0.08
27 17 0.68
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (26 bp):
ATTCATCTGAGGGACACTCCAACCAC
Found at i:42064 original size:20 final size:20
Alignment explanation
Indices: 42041--42079 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42031 TGATGAAAAA
42041 AAAAACAAAAAACA-ACAAAT
1 AAAAA-AAAAAACACACAAAT
*
42061 AAAAAAAAACACACACAAA
1 AAAAAAAAAAACACACAAA
42080 AAAGTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAACACACAAAT
Found at i:43431 original size:31 final size:30
Alignment explanation
Indices: 43364--43723 Score: 334
Period size: 31 Copynumber: 11.7 Consensus size: 30
43354 TCTTTTTTTT
*
43364 AAGTCCACGACTCAGTGGCATCT-TGTCTCA
1 AAGTCCACGATTCAGTGGCATCTCT-TCTCA
*
43394 AAGTCCACAATTCAGTGGCATCTCTTCTCAA
1 AAGTCCACGATTCAGTGGCATCTCTTCTC-A
* * *
43425 AAGTCCACGACTCAATGGCACCT-TGTCTCA
1 AAGTCCACGATTCAGTGGCATCTCT-TCTCA
* * *
43455 AAGTCCACAATGCAGTGGCATCTTTTCTTCA
1 AAGTCCACGATTCAGTGGCATCTCTTC-TCA
*
43486 AAGTCCATGATTCAGTGGCATCTCTTCTCAA
1 AAGTCCACGATTCAGTGGCATCTCTTCTC-A
* * *
43517 AAGTCCATGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACGATTCAGTGGCATCTCTTC-TCA
* *
43548 AAGTCCACAACTT-AGTGGCATCTTTTCTTCA
1 AAGTCCACGA-TTCAGTGGCATCTCTTC-TCA
*
43579 AAGTCCACGACTCAGTGGCATCT-TGTCTCA
1 AAGTCCACGATTCAGTGGCATCTCT-TCTCA
* *
43609 AAGTCCACAATTCAGTGGCATCTCTTCCCA
1 AAGTCCACGATTCAGTGGCATCTCTTCTCA
* * * *
43639 AAGTCCATGACTCAGTGACATCTTTTTCTTCA
1 AAGTCCACGATTCAGTGGCATC-TCTTC-TCA
* *
43671 AAGTCCACAACTT-AGTGGCATCTCTTTCCCA
1 AAGTCCACGA-TTCAGTGGCATCTC-TTCTCA
* * *
43702 TAGTCCATGACTCAGTGGCATC
1 AAGTCCACGATTCAGTGGCATC
43724 CTTTTTCTTT
Statistics
Matches: 273, Mismatches: 41, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
30 98 0.36
31 150 0.55
32 24 0.09
33 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (30 bp):
AAGTCCACGATTCAGTGGCATCTCTTCTCA
Found at i:43520 original size:92 final size:90
Alignment explanation
Indices: 43364--43723 Score: 406
Period size: 92 Copynumber: 3.9 Consensus size: 90
43354 TCTTTTTTTT
* *
43364 AAGTCCACGACTCAGTGGCATCTTGTC-TCAAAGTCCACAATTCAGTGGCATCTCTTCTCAAAAG
1 AAGTCCAC-AATCAGTGGCATCTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCTTCTCAAAAG
* *
43428 TCCACGACTCAATGGCACCTTGTCTCA
65 TCCACGACTCAGTGGCATCTT-TCTCA
**
43455 AAGTCCACAATGCAGTGGCATCTTTTCTTCAAAGTCCATGATTCAGTGGCATCTCTTCTCAAAAG
1 AAGTCCACAAT-CAGTGGCATCTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCTTCTCAAAAG
*
43520 TCCATGACTCAGTGGCATCTTTTCTTCA
65 TCCACGACTCAGTGGCATC-TTTC-TCA
* * *
43548 AAGTCCACAACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT-TGTCTC-AAA
1 AAGTCCACAA-TCAGTGGCATCTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCT-TCTCAAAA
* * *
43611 GTCCACAATTCAGTGGCATCTCTTCCCA
64 GTCCACGACTCAGTGGCATCT-TTCTCA
* * * *
43639 AAGTCCATGACTCAGTGACATCTTTTTCTTCAAAGTCCACAACTT-AGTGGCATCTCTT-TCCCA
1 AAGTCCA-CAATCAGTGGCATC-TTTTCTTCAAAGTCCACAA-TTCAGTGGCATCTCTTCT-CAA
* *
43702 TAGTCCATGACTCAGTGGCATC
62 AAGTCCACGACTCAGTGGCATC
43724 CTTTTTCTTT
Statistics
Matches: 232, Mismatches: 24, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
90 2 0.01
91 42 0.18
92 108 0.47
93 79 0.34
94 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (90 bp):
AAGTCCACAATCAGTGGCATCTTTTCTTCAAAGTCCACAATTCAGTGGCATCTCTTCTCAAAAGT
CCACGACTCAGTGGCATCTTTCTCA
Found at i:43610 original size:123 final size:122
Alignment explanation
Indices: 43364--43723 Score: 458
Period size: 123 Copynumber: 2.9 Consensus size: 122
43354 TCTTTTTTTT
* ** * *
43364 AAGTCCACGACTCAGTGGCATCT-TGTCTCAAAGTCCACAATTCAGTGGCATCTCTTC-TCAAAA
1 AAGTCCACGATTCAGTGGCATCTCT-TCTCAAAGTCCATGACTCAGTGGCATCTTTTCTTC-AAA
* * * * * * *
43427 GTCCACGACTCAATGGCACCTTGTCTCAAAGTCCAC-AATGCAGTGGCATCTTTTCTTCA
64 GTCCACAACTTAGTGGCATCTTTTCTCAAAGTCCACGACT-CAGTGGCATCTTGTCTTCA
*
43486 AAGTCCATGATTCAGTGGCATCTCTTCTCAAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAG
1 AAGTCCACGATTCAGTGGCATCTCTTCTC-AAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAG
43551 TCCACAACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTGTC-TCA
65 TCCACAACTTAGTGGCATCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTTGTCTTCA
* * *
43609 AAGTCCACAATTCAGTGGCATCTCTTCCCAAAGTCCATGACTCAGTGACATCTTTTTCTTCAAAG
1 AAGTCCACGATTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATC-TTTTCTTCAAAG
* * *
43674 TCCACAACTTAGTGGCATCTCTTTCCCATAGTCCATGACTCAGTGGCATC
65 TCCACAACTTAGTGGCATCT-TTTCTCAAAGTCCACGACTCAGTGGCATC
43724 CTTTTTCTTT
Statistics
Matches: 211, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
122 47 0.22
123 131 0.62
124 31 0.15
125 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (122 bp):
AAGTCCACGATTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGT
CCACAACTTAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTGTCTTCA
Found at i:43707 original size:154 final size:153
Alignment explanation
Indices: 43364--43728 Score: 477
Period size: 154 Copynumber: 2.4 Consensus size: 153
43354 TCTTTTTTTT
* *
43364 AAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACAA-TTCAGTGGCATCTCTTCTCAAAAG
1 AAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTT-AGTGGCATCTTTTCTCAAAAG
* *
43428 TCCACGACTCAATGGCACCTTGTCTCAAAGTCCACAATGCAGTGGCATCTTTTCTTCAAAGTCCA
65 TCCACGACTCAATGGCACCTTGTCTCAAAGTCCACAATGCAGTGGCATCTCTTCTCCAAAGTCCA
* *
43493 TGATTCAGTGGCATCTCTTCTCAA
130 TGACTCAGTGACATCTCTTCTCAA
*
43517 AAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTTAGTGGCATCTTTTCTTC-AAA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCAAAGTCCACAACTTAGTGGCATCTTTTC-TCAAAA
* * *
43581 GTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATCTCTTC-CCAAAGTCC
64 GTCCACGACTCAATGGCACCTTGTCTCAAAGTCCACAATGCAGTGGCATCTCTTCTCCAAAGTCC
*
43645 ATGACTCAGTGACATCTTTTTCTTC-A
129 ATGACTCAGTGACATC-TCTTC-TCAA
* * * * ** *
43671 AAGTCCACAACTTAGTGGCATCTCTTTCCCATAGTCCATGACTCAGTGGCATCCTTTT
1 AAGTCCACGACTCAGTGGCATCT-TTTCTCAAAGTCCACAACTTAGTGGCAT-CTTTT
43729 TCTTTTCAAA
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
153 47 0.25
154 124 0.67
155 15 0.08
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (153 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTTAGTGGCATCTTTTCTCAAAAGT
CCACGACTCAATGGCACCTTGTCTCAAAGTCCACAATGCAGTGGCATCTCTTCTCCAAAGTCCAT
GACTCAGTGACATCTCTTCTCAA
Found at i:43775 original size:27 final size:24
Alignment explanation
Indices: 43737--43799 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
43727 TTTCTTTTCA
*
43737 AAGTTCACAACTCTATGGAACCATTTT
1 AAGTCCACAACTCTATGG---CATTTT
* *
43764 AAGTCCATAACTCTGTGGCATTTT
1 AAGTCCACAACTCTATGGCATTTT
43788 AAGTCCACAACT
1 AAGTCCACAACT
43800 TCGTGGCACC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 17 0.53
27 15 0.47
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (24 bp):
AAGTCCACAACTCTATGGCATTTT
Found at i:43790 original size:24 final size:24
Alignment explanation
Indices: 43758--43807 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
43748 TCTATGGAAC
*
43758 CATTTTAAGTCCATAAC-TCTGTGG
1 CATTTTAAGTCCACAACTTC-GTGG
43782 CATTTTAAGTCCACAACTTCGTGG
1 CATTTTAAGTCCACAACTTCGTGG
43806 CA
1 CA
43808 CCCTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
CATTTTAAGTCCACAACTTCGTGG
Found at i:43887 original size:33 final size:33
Alignment explanation
Indices: 43842--44362 Score: 552
Period size: 33 Copynumber: 16.0 Consensus size: 33
43832 CTCCGTGGCA
* *
43842 CCTTTTGAAGTCCACAACTTCGTGGCATCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
*
43876 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
43909 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
43942 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
43974 CTTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CC-TTTTT
* *
44009 CCTTTAAAGCCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
** * *
44036 CCTTTTAAGTCCACAACTCTATGGTACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
44069 CCTTTTAAGTCCACAACTCCATGGCACC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
44101 CTTTTTAAGTTCACGAC-CTCGTGGCACCCTTTTT
1 CCTTTTAAGTCCACAACTC-CGTGGCA-CCTTTTT
* *
44135 CCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTT
1 -CCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTT
* * * *
44171 CCTTTGAAGTCTACAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
**
44204 CCTTTTAAGTCCACAACTTTGTGGCATCCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
*
44238 -CTTTTCAAGTCCACAACTCCATGGCA-C-----
1 CCTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
* * *
44265 CCTTTGAAGTCCACAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
44298 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
44331 CTTTTTAAGTGCACAACTCTGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
44363 CTTTTTATAT
Statistics
Matches: 412, Mismatches: 51, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
27 39 0.09
28 6 0.01
31 1 0.00
32 51 0.12
33 207 0.50
34 33 0.08
35 66 0.16
36 9 0.02
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:44040 original size:127 final size:127
Alignment explanation
Indices: 43784--44369 Score: 581
Period size: 127 Copynumber: 4.6 Consensus size: 127
43774 CTCTGTGGCA
* *
43784 TTTTAAGTCCACAACTTCGTGGCACCCTT-TTTCTTTTGAAGTCCACAACTCCGTGGCA-C----
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTT
* * * * *
43843 CTTTTGAAGTCCACAACTTCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGT
64 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA---T-C
43908 TCC
125 TCC
43911 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCT
* *
43976 TTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCGTGGCA-C-CC
66 TTTTAAGTCCACAACTCCGTGGCA-CC-TTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTCC
** * *
44038 TTTTAAGTCCACAACTCTATGGTACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCT
* * *
44103 TTTTAAGTTCACGAC-CTCGTGGCACCCTTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCCCT
66 TTTTAAGTCCACAACTC-CGTGGCA-CCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCAT--C-
44167 TTTTCC
125 ---TCC
* * * * * **
44173 TTTGAAGTCTACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTTTGTGGCATCCTTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CC-TTTT
* * * * *
44238 CTTTTCAAGTCCACAACTCCATGGCA-C-----CCTTTGAAGTCCACAACTCTGTGGCATCTTTT
64 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATC----
44297 TCC
125 TCC
* * *
44300 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTGCACAACTCTGTGGCACCTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCT
44365 TTTTA
66 TTTTA
44370 TATTTTTGGA
Statistics
Matches: 396, Mismatches: 42, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
125 10 0.03
126 32 0.08
127 199 0.50
129 23 0.06
130 1 0.00
131 23 0.06
132 1 0.00
133 29 0.07
135 51 0.13
136 2 0.01
137 24 0.06
138 1 0.00
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.37
Consensus pattern (127 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCT
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTCC
Found at i:44267 original size:229 final size:224
Alignment explanation
Indices: 43842--44362 Score: 675
Period size: 229 Copynumber: 2.3 Consensus size: 224
43832 CTCCGTGGCA
* * * *
43842 CCTTTTGAAGTCCACAACTTCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTG
1 CCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTCTTTTTAAGTCCACAACT-CGTGGCACCTTT
* *
43907 TTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
63 TTCCTTTTAAGCCCACAACTCCGTGGCACCTTGTTCCTTTGAAGTCCACAACTCCGTGGCACCTT
* * *
43972 TTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCGTGGCACC
128 TTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCATGGCACC
* *
44037 CTTTTAAGTCCACAACTCTATGGTACCTTGTT
193 CTTTGAAGTCCACAACTCTATGGCACCTTGTT
* * *
44069 CCTTTTAAGTCCACAACTCCATGGCACCTTTTCTTTTTAAGTTCACGACCTCGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCAC-AACTCGTGGCA-CCTTTT
* * * *
44134 TCCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTTCCTTTGAAGTCTACAACTCTGTGGCATC
64 T-CCTTTTAAGCCCACAACTCCGTGGCA--CCTTGTTCCTTTGAAGTCCACAACTCCGTGGCA-C
* ** * * * *
44199 TTTTTCCTTTTAAGTCCACAACTTTGTGGCATCC-TTTTTCTTTTCAAGTCCACAACTCCATGGC
125 CTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCATGGC
* * *
44263 ACCCTTTGAAGTCCACAACTCTGTGGCATCTTTTT
190 ACCCTTTGAAGTCCACAACTCTATGGCACCTTGTT
*
44298 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTGCACAACTCTGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCTTTTTAAGTCCACAACTC-GTGGCACCTTTT
44363 CTTTTTATAT
Statistics
Matches: 255, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
225 24 0.09
226 27 0.11
227 30 0.12
229 124 0.49
230 50 0.20
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (224 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACAACTCGTGGCACCTTTTTC
CTTTTAAGCCCACAACTCCGTGGCACCTTGTTCCTTTGAAGTCCACAACTCCGTGGCACCTTTTC
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCATGGCACCCTT
TGAAGTCCACAACTCTATGGCACCTTGTT
Found at i:44281 original size:94 final size:93
Alignment explanation
Indices: 43788--44358 Score: 368
Period size: 94 Copynumber: 5.9 Consensus size: 93
43778 GTGGCATTTT
*
43788 AAGTCCACAACT-TCGTGGCACCCTTTTT-CTTTTGAAGTCCACAACTCCGTGGCA-C-----CT
1 AAGTCCACAACTCT-GTGGCA-TCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTGTTCT
* * * *
43845 TTTGAAGTCCACAACTTCGTGGCATCTTTTTCCTTTT
63 TTTCAAGTCCACAACTCCATGGCA-C-----CCTTTG
* * *
43882 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTT-CTTT
* *
43947 T-AAGTCCACAACTCCGTGGCACCTTTTCTTTTT
65 TCAAGTCCACAACTCCATGGCACC----C-TTTG
* * * * *
43980 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTCCGTGGCACC-----CTT
1 AAGTCCACAACTCTGTGGCA-TC-TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTT
* * *
44040 TT-AAGTCCACAACTCTATGGTACCTTGTTCCTTTT
64 TTCAAGTCCACAACTCCATGGCA-C-----CCTTTG
** * * * * *
44075 AAGTCCACAACTCCATGGCA-CCTTTTCTTTTTAAGTTCACGAC-CTCGTGGCACCCTTTTTCCC
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTC-CGTGGCA-CCTTGTT--C
* * *
44138 TTTT-AAGCCCACACCTCCGTGGCATCCCTTTTTCCTTTG
62 TTTTCAAGTCCACAACTCCATGGCA---C-----CCTTTG
* ** *
44177 AAGTCTACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTTTGTGGCATCCTTTTTCTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTGTTCTTT
44242 TCAAGTCCACAACTCCATGGCACCCTTTG
65 TCAAGTCCACAACTCCATGGCACCCTTTG
44271 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
* * **
44336 TAAGTGCACAACTCTGTGGCACC
66 CAAGTCCACAACTCCATGGCACC
44359 TTTTCTTTTT
Statistics
Matches: 395, Mismatches: 46, Indels: 73
0.77 0.09 0.14
Matches are distributed among these distances:
91 1 0.00
92 23 0.06
93 60 0.15
94 102 0.26
95 23 0.06
96 1 0.00
97 1 0.00
98 24 0.06
99 22 0.06
100 56 0.14
101 5 0.01
102 45 0.11
103 32 0.08
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (93 bp):
AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
CAAGTCCACAACTCCATGGCACCCTTTG
Found at i:44303 original size:61 final size:60
Alignment explanation
Indices: 44204--44325 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 60
44194 GCATCTTTTT
* *
44204 CCTTTTAAGTCCACAACTTTGTGGCATCCTTTTTCTTTTCAAGTCCACAACTCCATGGCAC
1 CCTTTGAAGTCCACAACTCTGTGGCATCCTTTTTCTTTT-AAGTCCACAACTCCATGGCAC
*
44265 CCTTTGAAGTCCACAACTCTGTGGCAT-CTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTGAAGTCCACAACTCTGTGGCATCCTTTTT-CTTTTAAGTCCACAACTCCATGGCAC
44325 C
1 C
44326 TTGTTCTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
60 27 0.47
61 30 0.53
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (60 bp):
CCTTTGAAGTCCACAACTCTGTGGCATCCTTTTTCTTTTAAGTCCACAACTCCATGGCAC
Found at i:45105 original size:20 final size:19
Alignment explanation
Indices: 45080--45187 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
45070 TTTACCTAGA
*
45080 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
*
45100 TGTATCGATATATTGCTCAT
1 TGTATCGATACATT-CTCAT
45120 TGTATCGAT--A----CAT
1 TGTATCGATACATTCTCAT
*
45133 TGTATCGATACCTTGCTCAT
1 TGTATCGATACATT-CTCAT
* *
45153 TGTATCGATACATTTTACAA
1 TGTATCGATACATTCT-CAT
45173 TGTATCGATACATTC
1 TGTATCGATACATTC
45188 AGGCATTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
18 1 0.01
19 1 0.01
20 57 0.79
21 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:45133 original size:13 final size:13
Alignment explanation
Indices: 45117--45143 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45107 ATATATTGCT
45117 CATTGTATCGATA
1 CATTGTATCGATA
45130 CATTGTATCGATA
1 CATTGTATCGATA
45143 C
1 C
45144 CTTGCTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:45139 original size:33 final size:33
Alignment explanation
Indices: 45097--45166 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
45087 ATACATTTTG
*
45097 CATTGTATCGATATATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
45130 CATTGTATCGATACCTTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
45163 CATT
1 CATT
45167 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:45183 original size:53 final size:53
Alignment explanation
Indices: 44996--45186 Score: 151
Period size: 53 Copynumber: 3.6 Consensus size: 53
44986 GCTAAGGAAA
* * * * *
44996 TGTATTGATACATTATTCAATGTATCGATAGATTGTATCGATACATCGATCTT
1 TGTATCGATACATTACTCAATGTATCGATACATTGTATCGATACATTGATCAT
** * * * *
45049 TGTATCGATACATCTA-GGAA-GTTTAC-CTAGA-TGTATCGATACATT-TTGCAT
1 TGTATCGATACAT-TACTCAATGTAT-CGATACATTGTATCGATACATTGAT-CAT
* * * * *
45100 TGTATCGATATATTGCTCATTGTATCGATACATTGTATCGATACCTTGCTCAT
1 TGTATCGATACATTACTCAATGTATCGATACATTGTATCGATACATTGATCAT
*
45153 TGTATCGATACATT-TTACAATGTATCGATACATT
1 TGTATCGATACATTACT-CAATGTATCGATACATT
45187 CAGGCATTTT
Statistics
Matches: 108, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
50 2 0.02
51 29 0.27
52 14 0.13
53 60 0.56
54 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (53 bp):
TGTATCGATACATTACTCAATGTATCGATACATTGTATCGATACATTGATCAT
Found at i:47580 original size:79 final size:76
Alignment explanation
Indices: 47437--47606 Score: 268
Period size: 79 Copynumber: 2.2 Consensus size: 76
47427 TCATCTCGGG
* * *
47437 GATACTCAAATCCTGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTT
1 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTT
47502 ATTTTCGAGGC
66 ATTTTCGAGGC
47513 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC---ATCGGGGATACTCCAACCCC
* *
47578 GTTATTTTTGAGGG
63 GTTATTTTCGAGGC
47592 GATACTCCAACCCCG
1 GATACTCCAACCCCG
47607 ACTTTATTAC
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
76 39 0.45
79 47 0.55
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (76 bp):
GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTT
ATTTTCGAGGC
Found at i:59548 original size:20 final size:20
Alignment explanation
Indices: 59523--59561 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
59513 TGTATCGATA
59523 TAATGTATCGATACATTTCG
1 TAATGTATCGATACATTTCG
59543 TAATGTATCGATACATTTC
1 TAATGTATCGATACATTTC
59562 CTTGGCAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
TAATGTATCGATACATTTCG
Found at i:59599 original size:13 final size:13
Alignment explanation
Indices: 59581--59632 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
59571 AGCTTCGTAG
59581 CGATACATTGTAT
1 CGATACATTGTAT
59594 CGATACAACATTTATGTAT
1 CGAT---ACA-TT--GTAT
59613 CGATACATTGTAT
1 CGATACATTGTAT
59626 CGATACA
1 CGATACA
59633 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:63691 original size:3 final size:3
Alignment explanation
Indices: 63683--63715 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
63673 TCAACTTCAC
*
63683 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
63716 TTTTAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:65243 original size:20 final size:20
Alignment explanation
Indices: 65218--65271 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
65208 GTTAGACACA
** * *
65218 ATGTATCGATACTTTTTACT
1 ATGTATCGATACAATATACC
*
65238 ATGTATTGATACAATATACC
1 ATGTATCGATACAATATACC
65258 ATGTATCGATACAA
1 ATGTATCGATACAA
65272 AGAGTGGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:65345 original size:19 final size:19
Alignment explanation
Indices: 65320--65371 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
65310 TACAATTTGC
*
65320 TATGTATCGATACCAAG-A
1 TATGTATCGATACAAAGAA
65338 TCATGTATCGATACAAAGCAA
1 T-ATGTATCGATACAAAG-AA
65359 TATGTATCGATAC
1 TATGTATCGATAC
65372 TTTTGGGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 12 0.40
21 2 0.07
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
TATGTATCGATACAAAGAA
Found at i:66814 original size:3 final size:3
Alignment explanation
Indices: 66806--66851 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
66796 TCAACCATCA
*
66806 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
66852 AGTTGACTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:71418 original size:21 final size:20
Alignment explanation
Indices: 71381--71427 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
71371 CAAATCTTTT
*
71381 TCAAATTTCATCTTTTTCACA
1 TCAAAATTCATCTTTTT-ACA
*
71402 TCAAAATT-ATCTGTTTTTCA
1 TCAAAATTCATCT-TTTTACA
71422 TCAAAA
1 TCAAAA
71428 ATCTTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (20 bp):
TCAAAATTCATCTTTTTACA
Found at i:71436 original size:13 final size:13
Alignment explanation
Indices: 71418--71442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71408 TTATCTGTTT
71418 TTCATCAAAAATC
1 TTCATCAAAAATC
71431 TTCATCAAAAAT
1 TTCATCAAAAAT
71443 AGCTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCATCAAAAATC
Found at i:73819 original size:22 final size:23
Alignment explanation
Indices: 73776--73819 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
73766 AGTTAAGTAC
*
73776 AAATGTTTTTCAAGCAATAATTT
1 AAATGTTTTTCAAGCAAAAATTT
*
73799 AAATGTTTTTC-AGTAAAAATT
1 AAATGTTTTTCAAGCAAAAATT
73820 ATTCAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (23 bp):
AAATGTTTTTCAAGCAAAAATTT
Found at i:73942 original size:20 final size:20
Alignment explanation
Indices: 73943--73997 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
73933 TGCTTAGTAT
**
73943 TTGCTTAGTATCGATACATG
1 TTGCTTAGTATCGATACACA
*
73963 TT-CATAGTATCGATACACA
1 TTGCTTAGTATCGATACACA
*
73982 TTGAATT-GTATCGATA
1 TTG-CTTAGTATCGATA
73998 TATGAAACCG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 16 0.57
20 11 0.39
21 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TTGCTTAGTATCGATACACA
Found at i:74047 original size:13 final size:13
Alignment explanation
Indices: 74029--74053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74019 AACTCACTCA
74029 GTATCGATACATT
1 GTATCGATACATT
74042 GTATCGATACAT
1 GTATCGATACAT
74054 ACTTGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:74077 original size:74 final size:74
Alignment explanation
Indices: 73969--74148 Score: 281
Period size: 74 Copynumber: 2.4 Consensus size: 74
73959 CATGTTCATA
* * * *
73969 GTATCGATACACA-TTGAATTGTATCGATATATGAAACCGGCAGCAGCTAAAACTCACTCAGTAT
1 GTATCGATACATACTTGAATTGTATTGATACATGAAACCGGCAGCAGCTAAAAATCACTCAGTAT
*
74033 CGATACATT
66 CAATACATT
* * *
74042 GTATCGATACATACTTGAATTGTATTGATACATGAAACTGGTAGTAGCTAAAAATCACTCAGTAT
1 GTATCGATACATACTTGAATTGTATTGATACATGAAACCGGCAGCAGCTAAAAATCACTCAGTAT
74107 CAATACATT
66 CAATACATT
74116 GTATCGATACATACTTGAATTGTATTGATACAT
1 GTATCGATACATACTTGAATTGTATTGATACAT
74149 AGTGGATTGT
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 12 0.12
74 86 0.88
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (74 bp):
GTATCGATACATACTTGAATTGTATTGATACATGAAACCGGCAGCAGCTAAAAATCACTCAGTAT
CAATACATT
Found at i:74159 original size:20 final size:21
Alignment explanation
Indices: 74113--74168 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
74103 GTATCAATAC
*
74113 ATTGTATCGATACATACTTGA
1 ATTGTATCGATACATACGTGA
* *
74134 ATTGTATTGATACATA-GTGG
1 ATTGTATCGATACATACGTGA
74154 ATTGTATCGATACAT
1 ATTGTATCGATACAT
74169 TAAGCCCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATACGTGA
Found at i:75750 original size:26 final size:27
Alignment explanation
Indices: 75699--75754 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
75689 ATATATTTAC
* *
75699 TTTTATTTTTCTATATATTTAAAATAT
1 TTTTATTTTTCTACATATTCAAAATAT
75726 TTTTATTTTT-TACAT-TTCAATAATAT
1 TTTTATTTTTCTACATATTCAA-AATAT
75752 TTT
1 TTT
75755 AATTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 12 0.46
27 10 0.38
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTATTTTTCTACATATTCAAAATAT
Found at i:76092 original size:16 final size:16
Alignment explanation
Indices: 76073--76105 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
76063 AACTAAAACA
*
76073 ACCCAAAATTGAAATG
1 ACCCAAAATCGAAATG
76089 ACCCAAAATCGAAATG
1 ACCCAAAATCGAAATG
76105 A
1 A
76106 TAAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.15
Consensus pattern (16 bp):
ACCCAAAATCGAAATG
Found at i:76135 original size:16 final size:17
Alignment explanation
Indices: 76114--76153 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
76104 GATAAATTTG
*
76114 AAATGACCTGAAC-CCA
1 AAATGACCCGAACTCCA
76130 AAATGACCCGAACTCCA
1 AAATGACCCGAACTCCA
76147 AAATGAC
1 AAATGAC
76154 TTAAATCCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.45, C:0.30, G:0.12, T:0.12
Consensus pattern (17 bp):
AAATGACCCGAACTCCA
Found at i:80341 original size:17 final size:17
Alignment explanation
Indices: 80307--80347 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
80297 TTCCTTTTTT
80307 TATTTTTGAAAATTTTGA
1 TATTTTTGAAAA-TTTGA
80325 TATTTTTAGAAAA-TTGA
1 TATTTTT-GAAAATTTGA
80342 T-TTTTT
1 TATTTTT
80348 TTATAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 7 0.32
19 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (17 bp):
TATTTTTGAAAATTTGA
Found at i:80756 original size:27 final size:26
Alignment explanation
Indices: 80713--80771 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
80703 AGTATTATTA
*
80713 TTAAAAAATTGATTAAAAAGAGTATA-T
1 TTAAAAAATTGAGTAAAAA-A-TATAGT
80740 TTAAAAAATATG-GTAAAAAATATAGT
1 TTAAAAAAT-TGAGTAAAAAATATAGT
80766 TTAAAA
1 TTAAAA
80772 TTTTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.14
26 8 0.28
27 15 0.52
28 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (26 bp):
TTAAAAAATTGAGTAAAAAATATAGT
Found at i:81725 original size:32 final size:32
Alignment explanation
Indices: 81676--81769 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
81666 TTTAATTTAT
*
81676 TTTCGGGTTTAGGTCATTTTGGGTTCAGGTTA
1 TTTCGAGTTTAGGTCATTTTGGGTTCAGGTTA
* * *
81708 TTTCGAGTTT-GGATCATTTCGAGTTC-GGTTTG
1 TTTCGAGTTTAGG-TCATTTTGGGTTCAGG-TTA
*
81740 TTTC-AGGTTTAGGTCATTTTGGATTCAGGT
1 TTTCGA-GTTTAGGTCATTTTGGGTTCAGGT
81770 CAATCGGGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
31 5 0.10
32 41 0.82
33 4 0.08
ACGTcount: A:0.14, C:0.11, G:0.29, T:0.47
Consensus pattern (32 bp):
TTTCGAGTTTAGGTCATTTTGGGTTCAGGTTA
Found at i:82951 original size:5 final size:5
Alignment explanation
Indices: 82941--82968 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
82931 TATATATATG
82941 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
82969 AATATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:83299 original size:2 final size:2
Alignment explanation
Indices: 83294--83320 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83284 TCTCTCTCTC
83294 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 T
83321 GCAGCAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87134 original size:30 final size:29
Alignment explanation
Indices: 87109--87165 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
87099 ATTTATTTGC
87109 ATATAAATTAAAAATTAAAAATTTATTAAA
1 ATATAAA-TAAAAATTAAAAATTTATTAAA
* *
87139 ATATAAATAAAATTTAAGAATTTATTA
1 ATATAAATAAAAATTAAAAATTTATTA
87166 TGTATGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
ATATAAATAAAAATTAAAAATTTATTAAA
Found at i:87160 original size:29 final size:30
Alignment explanation
Indices: 87091--87165 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
87081 AAGTTAAATT
* ***
87091 ATTTAATAATTTATTTGCATATAAATTAAA
1 ATTTAAAAATTTATTAAAATATAAATTAAA
*
87121 AATTAAAAATTTATTAAAATATAAA-TAAA
1 ATTTAAAAATTTATTAAAATATAAATTAAA
*
87150 ATTTAAGAATTTATTA
1 ATTTAAAAATTTATTA
87166 TGTATGATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (30 bp):
ATTTAAAAATTTATTAAAATATAAATTAAA
Found at i:87394 original size:16 final size:17
Alignment explanation
Indices: 87369--87414 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
87359 CCAAAAAGTG
*
87369 AATAACTTAAAATTT-A
1 AATAATTTAAAATTTGA
**
87385 TTTAATTT-AAATTTGA
1 AATAATTTAAAATTTGA
87401 AATAATTTAAAATT
1 AATAATTTAAAATT
87415 AAAAAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
15 6 0.26
16 12 0.52
17 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
AATAATTTAAAATTTGA
Found at i:87453 original size:23 final size:23
Alignment explanation
Indices: 87404--87457 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
87394 AATTTGAAAT
* *
87404 AATTTAAAATTAAAAAATTTTTA
1 AATTTAAAATTAAAAAATCTTGA
*
87427 AATTTAAAATTATAAAA-CTTGA
1 AATTTAAAATTAAAAAATCTTGA
87449 CAA-TTAAAA
1 -AATTTAAAA
87458 CTCGTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AATTTAAAATTAAAAAATCTTGA
Found at i:88021 original size:17 final size:17
Alignment explanation
Indices: 88001--88047 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
87991 ATTTTAATAT
*
88001 AAAATAATTTAAATTTA
1 AAAATAATTTAAATTCA
**
88018 AAAATAA-CAATAATTCA
1 AAAATAATTTA-AATTCA
88035 AAAATAATTTAAA
1 AAAATAATTTAAA
88048 CTTTTTTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAATTTAAATTCA
Found at i:88024 original size:22 final size:23
Alignment explanation
Indices: 87990--88032 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
87980 AAATTAAATT
* *
87990 AATTTTAATATAA-AATAATTTA
1 AATTTAAAAATAACAATAATTTA
88012 AATTTAAAAATAACAATAATT
1 AATTTAAAAATAACAATAATT
88033 CAAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTAAAAATAACAATAATTTA
Found at i:88796 original size:13 final size:13
Alignment explanation
Indices: 88778--88898 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
88768 CATAAAGTGT
88778 TGTATCGATACAA
1 TGTATCGATACAA
88791 TGTATCGATACATAA
1 TGTATCGATAC--AA
88806 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
88823 TGTATCGATACATAA
1 TGTATCGATAC--AA
88838 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
88855 TGTATCGATACATAA
1 TGTATCGATAC--AA
88870 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
88887 TGTATCGATACA
1 TGTATCGATACA
88899 TAAGTTTTGT
Statistics
Matches: 90, Mismatches: 0, Indels: 36
0.71 0.00 0.29
Matches are distributed among these distances:
13 45 0.50
15 6 0.07
17 6 0.07
19 33 0.37
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:88813 original size:32 final size:32
Alignment explanation
Indices: 88758--88919 Score: 306
Period size: 32 Copynumber: 5.0 Consensus size: 32
88748 TTCAACGATT
88758 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
88791 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
88823 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
88855 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
88887 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
88919 T
1 T
88920 TTAAGCTACT
Statistics
Matches: 128, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 115 0.90
33 13 0.10
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:88978 original size:13 final size:13
Alignment explanation
Indices: 88960--88984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88950 ATTACTCAAA
88960 TGTATCGATACAT
1 TGTATCGATACAT
88973 TGTATCGATACA
1 TGTATCGATACA
88985 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89036 original size:52 final size:50
Alignment explanation
Indices: 88973--89121 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 50
88963 ATCGATACAT
* *
88973 TGTATCGATACACTGATCTTTGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
89025 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
89077 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
89122 TCATATTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:94282 original size:52 final size:52
Alignment explanation
Indices: 94204--94328 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
94194 CGAAATATGA
* *
94204 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
94256 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
94308 ATATTTGCCTGCATGTATCGA
1 AAATTTGCCTGCATGTATCGA
94329 CACAAAGATC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:94345 original size:52 final size:52
Alignment explanation
Indices: 94204--94352 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 52
94194 CGAAATATGA
* * *
94204 AAATTTACCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGACACA-TAAGATAGTGTATCGATACATCTGGGC
* *** *
94256 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGACACATAAGATAGTGTATCGATACATCTGGGC
*
94308 ATATTTGCCTGCATGTATCGACACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGACACATAAGAT-AGTGTATCGATACA
94353 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 82 0.95
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGACACATAAGATAGTGTATCGATACATCTGGGC
Found at i:94359 original size:13 final size:13
Alignment explanation
Indices: 94341--94365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94331 CAAAGATCAG
94341 TGTATCGATACAA
1 TGTATCGATACAA
94354 TGTATCGATACA
1 TGTATCGATACA
94366 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:94446 original size:13 final size:13
Alignment explanation
Indices: 94428--94452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94418 CAAAAAAATA
94428 TGTATCGATACAT
1 TGTATCGATACAT
94441 TGTATCGATACA
1 TGTATCGATACA
94453 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:95702 original size:20 final size:21
Alignment explanation
Indices: 95677--95729 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
95667 TACAAGCCAA
* *
95677 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
95697 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
95717 TGTATCGATACAA
1 TGTATCGATACAA
95730 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:95734 original size:19 final size:19
Alignment explanation
Indices: 95677--95735 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
95667 TACAAGCCAA
* *
95677 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
95697 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
95717 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
95736 CTACTGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.17
20 28 0.80
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:104510 original size:13 final size:13
Alignment explanation
Indices: 104492--104517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104482 CAATTTTTTG
104492 TGTATCGATACAT
1 TGTATCGATACAT
104505 TGTATCGATACAT
1 TGTATCGATACAT
104518 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104514 original size:33 final size:33
Alignment explanation
Indices: 104472--104536 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
104462 TACAAGCCAA
* *
104472 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
104505 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
104537 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:105355 original size:49 final size:49
Alignment explanation
Indices: 105279--105655 Score: 492
Period size: 49 Copynumber: 8.0 Consensus size: 49
105269 TTTTAAAAAT
* * **
105279 GATGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
105328 GATGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
105377 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
105423 -A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
105469 GGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
105517 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
*
105563 -A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
105609 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
105656 GAAGGGTTGC
Statistics
Matches: 288, Mismatches: 27, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
43 78 0.27
45 2 0.01
47 1 0.00
48 46 0.16
49 161 0.56
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
Found at i:105461 original size:92 final size:94
Alignment explanation
Indices: 105234--105655 Score: 421
Period size: 92 Copynumber: 4.4 Consensus size: 94
105224 AAGAAAAAAA
* * * ** * *
105234 TGCCAATGTGCTGAGGCAAGGCCAGCAACATCGGTTTTTAAAAATGATGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG-ACTT--AAA-GATAAAGGTGCCAATATGCT
* **
105299 GATTCAAGGCCAGCGATGTTGGACTTAAAGATGAAGG
62 GATTCAAGGCCAGCTACATTGGACTT--A-A-GAAGG
*
105336 TGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
*
105401 CAAGGCCAGCTATATTGGACTT-A-AAGG
66 CAAGGCCAGCTACATTGGACTTAAGAAGG
* * *
105428 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
105492 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
66 CAAGGCCAGCTACATTGGACTT--A-A-GAAGG
* * * * *
105525 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
105584 CAAGGCCAGCTACATTGGACTTAAAGAAGAAGG
66 CAAGGCCAGCTACATTGGACTT----AAGAAGG
* * * *
105617 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
105656 GAAGGGTTGC
Statistics
Matches: 286, Mismatches: 23, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
91 40 0.14
92 126 0.44
93 2 0.01
94 3 0.01
95 1 0.00
96 1 0.00
97 36 0.13
98 42 0.15
99 3 0.01
101 2 0.01
102 30 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (94 bp):
TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTACATTGGACTTAAGAAGG
Found at i:105541 original size:140 final size:141
Alignment explanation
Indices: 105283--105655 Score: 604
Period size: 140 Copynumber: 2.7 Consensus size: 141
105273 AAAAATGATG
* * * **
105283 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* * *
105348 AAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
105413 TATTGGACTTA
131 TATTGGACTTA
* *
105424 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
105488 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
105553 TATTGGACTTA
131 TATTGGACTTA
* *
105564 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* *
105629 GATTCAAGGCCAGCTATATTGGGCTTA
66 GATTCAAGGCCAGCTACATTGGACTTA
105656 GAAGGGTTGC
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
140 133 0.62
141 81 0.38
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (141 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
TATTGGACTTA
Found at i:105699 original size:33 final size:33
Alignment explanation
Indices: 105655--105823 Score: 274
Period size: 32 Copynumber: 5.2 Consensus size: 33
105645 TATTGGGCTT
105655 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
105688 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
105721 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
105753 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
105786 -GAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
105817 GGAAGGG
1 AGAAGGG
105824 AGAAAGATGC
Statistics
Matches: 128, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.03
32 61 0.48
33 61 0.48
34 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:105732 original size:65 final size:64
Alignment explanation
Indices: 105648--105815 Score: 286
Period size: 65 Copynumber: 2.6 Consensus size: 64
105638 CCAGCTATAT
105648 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCAACTTGTG
*
105711 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTG
105776 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 TGGGCTTTA-GAAGGGTTGCCACCGACTTGTGTGGGCTTT
105816 GGGAAGGGAG
Statistics
Matches: 100, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
63 5 0.05
64 4 0.04
65 86 0.86
66 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (64 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTG
Found at i:105734 original size:32 final size:32
Alignment explanation
Indices: 105648--105815 Score: 268
Period size: 33 Copynumber: 5.2 Consensus size: 32
105638 CCAGCTATAT
105648 TGGGC-TTAG-AAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
* *
105678 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTG
105711 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
*
105743 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAA-AGGGTTGCCACCGACTTGTG
*
105776 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
105808 TGGGCTTT
1 TGGGCTTT
105816 GGGAAGGGAG
Statistics
Matches: 127, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
30 5 0.04
31 4 0.03
32 58 0.46
33 60 0.47
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
Found at i:105864 original size:34 final size:34
Alignment explanation
Indices: 105826--106131 Score: 415
Period size: 34 Copynumber: 8.9 Consensus size: 34
105816 GGGAAGGGAG
* * *
105826 AAAGATGCCACGGAGTTGT-GGATTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAA
105860 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
105895 ACAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAA-GAA
105931 AAAGGGTGCCAAC-GAGTTGTGGGCTTTAAAAAGAA
1 AAA-GGTGCC-ACGGAGTTGTGGGCTTTAAAAAGAA
105966 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
106000 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
106034 TAAGGTGCCACAGG-GTCGTGGAC-TTAAAAAG-A
1 AAAGGTGCCAC-GGAGTTGTGGGCTTTAAAAAGAA
*
106066 AAAGGTGCCACGGAGTGGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
106100 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
106132 GGAAAAATAG
Statistics
Matches: 244, Mismatches: 17, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
31 2 0.01
32 18 0.07
33 16 0.07
34 134 0.55
35 33 0.14
36 19 0.08
37 20 0.08
38 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:105915 original size:105 final size:101
Alignment explanation
Indices: 105806--106137 Score: 438
Period size: 105 Copynumber: 3.2 Consensus size: 101
105796 CACCGACTTG
* * *
105806 TGTGGGCTTTGGGAAGGGAGAAAGATGCCACGGAGTTGTGGATTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTT-GGAAAGGA-AAAGGTGCCACGGAGTTGTGGATTTAAAA-AGAAAAAG-GTGCCA
*
105871 CGGAGTTGTGGGCTTTAAAAAGAAACAGGTGCCACGGAGT
62 CGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
105911 TGTGGGCTTTGAAAAAGGAAAAAGGGTGCCAAC-GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
1 TGTGGGCTTTG-GAAAGG-AAAA-GGTGCC-ACGGAGTTGT-GGATTTAAAAAGAAAAAGGTGCC
105975 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
61 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
106016 TGTGGGCTTT-GAAAGGAATAAGGTGCCACAGG-GTCGTGGACTTAAAAAG-AAAAGGTGCCACG
1 TGTGGGCTTTGGAAAGGAA-AAGGTGCCAC-GGAGTTGTGGATTTAAAAAGAAAAAGGTGCCACG
*
106078 GAGTGGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
64 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
*
106116 TGTGGGCTTTGAAAAGGGAAAA
1 TGTGGGCTTTGGAAA-GGAAAA
106138 ATAGTGCCCG
Statistics
Matches: 205, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
100 60 0.29
101 17 0.08
102 16 0.08
103 8 0.04
104 1 0.00
105 72 0.35
106 20 0.10
107 11 0.05
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.20
Consensus pattern (101 bp):
TGTGGGCTTTGGAAAGGAAAAGGTGCCACGGAGTTGTGGATTTAAAAAGAAAAAGGTGCCACGGA
GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
Found at i:105932 original size:71 final size:69
Alignment explanation
Indices: 105826--106138 Score: 424
Period size: 71 Copynumber: 4.6 Consensus size: 69
105816 GGGAAGGGAG
* * *
105826 AAAGATGCCACGGAGTTGT-GGATTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
105890 AAGAA
65 AAGAA
*
105895 ACAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGGAAAAAGGGTGCCAAC-GAGTTGTGGGCTTTA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGGAAAAA-GGTGCC-ACGGAGTTGTGGGCTTTA
105959 AAAAGAA
63 AAAAGAA
*
105966 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
*
106030 GGAA
66 AGAA
* * * *
106034 TAAGGTGCCACAGG-GTCGTGGAC-TTAAAAA-G-AAAAGGTGCCACGGAGTGGTGGGCTTTAAA
1 AAAGGTGCCAC-GGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
106095 AAGAA
65 AAGAA
*
106100 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGGAAAAA
106139 TAGTGCCCGT
Statistics
Matches: 216, Mismatches: 17, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
65 2 0.01
66 49 0.23
67 12 0.06
68 47 0.22
69 26 0.12
70 14 0.06
71 63 0.29
72 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.19
Consensus pattern (69 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
AGAA
Found at i:106094 original size:134 final size:140
Alignment explanation
Indices: 105826--106145 Score: 426
Period size: 134 Copynumber: 2.3 Consensus size: 140
105816 GGGAAGGGAG
* * *
105826 AAAGATGCCACGGAGTTGT-GGATTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* * *
105890 AAGAAACAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGGAAAAAGGGTGCCAACGAGTTGTGGGC
65 AAGAAACAGGTGCCACGGAGTCGTGGACTTTGAAAAAGGAAAAAGGGTGCCAACGAGTGGTGGGC
105955 TTTAAAAAGAA
130 TTTAAAAAGAA
*
105966 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
106030 GGAATA-AGGTGCCACAGG-GTCGTGGAC-TT-AAAAA-G-AAAA-GGTGCC-ACGGAGTGGTGG
66 AGAA-ACAGGTGCCAC-GGAGTCGTGGACTTTGAAAAAGGAAAAAGGGTGCCAAC-GAGTGGTGG
106087 GCTTTAAAAAGAA
128 GCTTTAAAAAGAA
* *
106100 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAATAGTGCC
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCC
106146 CGTTTTCAAC
Statistics
Matches: 163, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
133 2 0.01
134 53 0.33
135 8 0.05
136 7 0.04
137 10 0.06
138 2 0.01
139 44 0.27
140 28 0.17
141 9 0.06
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (140 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
AGAAACAGGTGCCACGGAGTCGTGGACTTTGAAAAAGGAAAAAGGGTGCCAACGAGTGGTGGGCT
TTAAAAAGAA
Found at i:106105 original size:100 final size:103
Alignment explanation
Indices: 105838--106138 Score: 432
Period size: 100 Copynumber: 2.9 Consensus size: 103
105828 AGATGCCACG
* * *
105838 GAGTTGTGGA-TTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAACAGGTG
1 GAGTCGTGGACTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTG
105902 CCACGGAGTTGTGGGCTTTGAAAAAGGAAAAAGGGTGCCAAC
64 CCACGGAGTTGTGGGCTTTG--AAAGGAAAAAGGGTGCCAAC
* *
105944 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
1 GAGTCGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
*
106009 ACGGAGTTGTGGGCTTTGAAAGGAATAA-GGTGCC-AC
66 ACGGAGTTGTGGGCTTTGAAAGGAAAAAGGGTGCCAAC
* *
106045 AGGGTCGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAAGGTGC
1 -GAGTCGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGC
106108 CACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
65 CACGGAGTTGTGGGCTTTG-AAA-GGAAAAA
106139 TAGTGCCCGT
Statistics
Matches: 182, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
100 61 0.34
101 13 0.07
102 20 0.11
103 9 0.05
105 56 0.31
106 16 0.09
107 7 0.04
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.20
Consensus pattern (103 bp):
GAGTCGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCC
ACGGAGTTGTGGGCTTTGAAAGGAAAAAGGGTGCCAAC
Found at i:109766 original size:27 final size:27
Alignment explanation
Indices: 109736--109790 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
109726 GGAAAATTGG
109736 TAAAAAAGT-CGGGGTTGGAGTATCCCC
1 TAAAAAA-TACGGGGTTGGAGTATCCCC
109763 TAAAAAATAACGGGGTTGGAGTATCCCC
1 TAAAAAAT-ACGGGGTTGGAGTATCCCC
109791 GATTATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 1 0.04
27 7 0.27
28 18 0.69
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (27 bp):
TAAAAAATACGGGGTTGGAGTATCCCC
Found at i:109835 original size:79 final size:76
Alignment explanation
Indices: 109739--109917 Score: 286
Period size: 79 Copynumber: 2.3 Consensus size: 76
109729 AAATTGGTAA
109739 AAAAGTCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAAT
1 AAAA-TCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAAT
109804 TGATGTTTTAGAAAT
62 TGATGTTTTAGAAAT
*
109819 AAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGAT
1 AAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGAT
109884 GTTTTAGAAAT
66 GTTTTAGAAAT
* * *
109895 AAAACCGAGATTGGAGTATCCCC
1 AAAATCGGGGTTGGAGTATCCCC
109918 GAGATGAAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
76 44 0.46
79 47 0.49
80 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (76 bp):
AAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGAT
GTTTTAGAAAT
Found at i:112246 original size:20 final size:20
Alignment explanation
Indices: 112221--112274 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
112211 AAAATGCCTG
*
112221 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
112241 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
112261 AATGTATCGATACA
1 AATGTATCGATACA
112275 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:115855 original size:22 final size:23
Alignment explanation
Indices: 115827--115873 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
115817 GAGAGAACAA
115827 AATTGATGAAGAGGTTA-TTTGG
1 AATTGATGAAGAGGTTATTTTGG
115849 AATTGATGAAGAGGTTATTTTGG
1 AATTGATGAAGAGGTTATTTTGG
115872 AA
1 AA
115874 AAAGTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (23 bp):
AATTGATGAAGAGGTTATTTTGG
Found at i:116867 original size:99 final size:97
Alignment explanation
Indices: 116638--116867 Score: 232
Period size: 99 Copynumber: 2.4 Consensus size: 97
116628 ACTCCAATCA
* * *
116638 CATTCTTCCGAGAGGATACTCTAACCC-TGTTTTTAAACTTGTTAAGATTTAAATCTTATTTTTG
1 CATTCTTCCGAGAAGATACTCTAACCCTTTTTTTTAAACTTGTTAAGATTTAAATCTTATTTTCG
* * * *
116702 TCTGAATTATTATTGTCGAGGACACTCCAACC
66 CCAGAATTATTATCGTCGAGGACACTCAAACC
* * *
116734 TATTCTTCCGA-AAGGATACCCCAACCCTTTTTTTTTTAAACTTGTTAAGATTTAAATCTTATTT
1 CATTCTTCCGAGAA-GATACTCTAACCC--TTTTTTTTAAACTTGTTAAGATTTAAATCTTATTT
* * * * *
116798 TCGCCA-AGATTGTTATCGTCGGGGATATTTAAACCC
63 TCGCCAGA-ATTATTATCGTCGAGGACACTCAAA-CC
* * *
116834 CATTCTTTCGAGAAGATATTCTAACCCTATTTTT
1 CATTCTTCCGAGAAGATACTCTAACCCTTTTTTT
116868 CAACCAAAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
95 1 0.01
96 21 0.20
98 7 0.07
99 54 0.51
100 21 0.20
101 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (97 bp):
CATTCTTCCGAGAAGATACTCTAACCCTTTTTTTTAAACTTGTTAAGATTTAAATCTTATTTTCG
CCAGAATTATTATCGTCGAGGACACTCAAACC
Found at i:117019 original size:21 final size:21
Alignment explanation
Indices: 116982--117022 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
116972 GGTTATATCA
*
116982 AGATAATCGATGGCTATTACG
1 AGATAATCGATGACTATTACG
117003 AGATATATCGA-GACTATTAC
1 AGATA-ATCGATGACTATTAC
117023 ACTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
AGATAATCGATGACTATTACG
Found at i:119404 original size:29 final size:28
Alignment explanation
Indices: 119338--119423 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
119328 AAAAATTTTA
*
119338 TTATTT-TATTTAAATAAATTTATATATT
1 TTATTTATATTTAAATAAATTT-TAAATT
* *
119366 TT-TATCATATATAAATAAATTCTTAAATT
1 TTAT-TTATATTTAAATAAATT-TTAAATT
* *
119395 TTATTTATATTTAAACAAATTTTTAATT
1 TTATTTATATTTAAATAAATTTTAAATT
119423 T
1 T
119424 ATATACAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 10 0.21
29 34 0.72
30 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTTATATTTAAATAAATTTTAAATT
Found at i:123249 original size:2 final size:2
Alignment explanation
Indices: 123242--123276 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123232 CTTTTGCTGC
123242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123277 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123281 original size:2 final size:2
Alignment explanation
Indices: 123276--123303 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123266 ATATATATAT
123276 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
123304 GATGGATGTA
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:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:123935 original size:16 final size:16
Alignment explanation
Indices: 123916--123949 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
123906 AAATGATGTA
* *
123916 AACTCGAAATGATTCG
1 AACTCAAAATGATCCG
123932 AACTCAAAATGATCCG
1 AACTCAAAATGATCCG
123948 AA
1 AA
123950 TAATTAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AACTCAAAATGATCCG
Done.